Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 26 of 79
Found at i:8981786 original size:25 final size:24
Alignment explanation
Indices: 8981740--8981786 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8981730 TTTGAGTTAA
8981740 TAAATTCTCTTTGAGTTTTTTTTT
1 TAAATTCTCTTTGAGTTTTTTTTT
*
8981764 TAAATT-TCTCTTGAGTTTCTTTT
1 TAAATTCTCT-TTGAGTTTTTTTT
8981787 AGAAGAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.64
Consensus pattern (24 bp):
TAAATTCTCTTTGAGTTTTTTTTT
Found at i:8982624 original size:15 final size:17
Alignment explanation
Indices: 8982606--8982638 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
8982596 ATAGATGGAT
8982606 AGTTTA-ACTAA-GTTG
1 AGTTTAGACTAATGTTG
8982621 AGTTTAGACTAATGTTG
1 AGTTTAGACTAATGTTG
8982638 A
1 A
8982639 AGAACAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (17 bp):
AGTTTAGACTAATGTTG
Found at i:8983386 original size:13 final size:13
Alignment explanation
Indices: 8983368--8983398 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
8983358 TTAACTCCTT
8983368 TGAATATTGTTCA
1 TGAATATTGTTCA
8983381 TGAATATTGTTCA
1 TGAATATTGTTCA
8983394 TGAAT
1 TGAAT
8983399 TAATCATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (13 bp):
TGAATATTGTTCA
Found at i:8985547 original size:136 final size:138
Alignment explanation
Indices: 8985382--8985652 Score: 465
Period size: 136 Copynumber: 2.0 Consensus size: 138
8985372 CATAGATATG
* *
8985382 ATTAATATAAGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATAT
1 ATTAATATAAGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
*
8985447 AAAA-GTTATATTAACTAATTTCGGT-AAAACATAAAAGACATGGAATTTAATATTCTTTTGGAA
66 AAAATGTTATATTAACTAATTTCGGTCAAAACATAAAAGACATGGAAATTAATATTCTTTTGGAA
8985510 AGAATACA
131 AGAATACA
*
8985518 ATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
1 ATTAATATAAGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
* * *
8985583 AAAATGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAA
66 AAAATGTTATATTAACTAATTTCGGTCAAAACATAAAAGACATGGAAATTAATATTCTTTTGGAA
8985648 AGAAT
131 AGAAT
8985653 GTAATTCCTC
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 66 0.52
137 19 0.15
138 41 0.33
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATTAATATAAGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAAAATTTATTAATAT
AAAATGTTATATTAACTAATTTCGGTCAAAACATAAAAGACATGGAAATTAATATTCTTTTGGAA
AGAATACA
Found at i:8988344 original size:50 final size:49
Alignment explanation
Indices: 8988235--8988365 Score: 174
Period size: 50 Copynumber: 2.7 Consensus size: 49
8988225 TTCGATACAT
* * *
8988235 GTAGTAGCCTTTACATAGTACTATACACCTGATCAGTTTTACAGTCCAC
1 GTAGTAGCCTTTACATAGTACTACACACGTGATCAGTTTAACAGTCCAC
* *
8988284 GTAGTAGCCTTTAGATAGTACTACACACGTGATCAAGTTTAAC-GGCTCAC
1 GTAGTAGCCTTTACATAGTACTACACACGTGATC-AGTTTAACAGTC-CAC
* *
8988334 GTAGTAGCCTTCACATAGTACTACATACGTGA
1 GTAGTAGCCTTTACATAGTACTACACACGTGA
8988366 CCAAACCTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 33 0.46
50 39 0.54
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (49 bp):
GTAGTAGCCTTTACATAGTACTACACACGTGATCAGTTTAACAGTCCAC
Found at i:8988443 original size:51 final size:49
Alignment explanation
Indices: 8988388--8988546 Score: 142
Period size: 51 Copynumber: 3.1 Consensus size: 49
8988378 GGTACCCATT
* * *
8988388 GTAGCCTTCACTTAGTACTACACATGTAACCGTAGTTTACCGATACACGTA
1 GTAGCCTTCACTCAGTACTACACATGT-ACCATAGTTTA-CGATACAAGTA
* * * * * * * *
8988439 GTAGCATTCACACAGTATTACACACGTGCTCAAAGCTTT-CGGTACAAATA
1 GTAGCCTTCACTCAGTACTACACATGTAC-CATAG-TTTACGATACAAGTA
8988489 GTAGCCTTCACTCAGTACTACACATGTGACCATTA-TTTATCGATACAAGTA
1 GTAGCCTTCACTCAGTACTACACATGT-ACCA-TAGTTTA-CGATACAAGTA
8988540 GTAGCCT
1 GTAGCCT
8988547 CCACACAGCA
Statistics
Matches: 83, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
49 3 0.04
50 34 0.41
51 43 0.52
52 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (49 bp):
GTAGCCTTCACTCAGTACTACACATGTACCATAGTTTACGATACAAGTA
Found at i:8988482 original size:101 final size:102
Alignment explanation
Indices: 8988331--8988554 Score: 283
Period size: 101 Copynumber: 2.2 Consensus size: 102
8988321 TTTAACGGCT
* * ** *
8988331 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAACCTTTTCGGTACCCATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAACCTTTTCGGTACAAATAGTAGCCTT
*
8988396 CACTTAGTACTACACATGTAACC-GTAGTTTACCGATA
66 CACTCAGTACTACACATGTAACCAGTA-TTTACCGATA
* * *
8988433 CACGTAGTAGCATTCACACAGTATTACACACGTG-CTCAAAGC-TTTCGGTACAAATAGTAGCCT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAACCTTTTCGGTACAAATAGTAGCCT
* * *
8988496 TCACTCAGTACTACACATGTGACCATTATTTATCGATA
65 TCACTCAGTACTACACATGTAACCAGTATTTACCGATA
* *
8988534 CAAGTAGTAGCCTCCACACAG
1 CACGTAGTAGCCTTCACACAG
8988555 CACACGTGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
101 68 0.65
102 37 0.35
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAACCTTTTCGGTACAAATAGTAGCCTT
CACTCAGTACTACACATGTAACCAGTATTTACCGATA
Found at i:8988879 original size:29 final size:29
Alignment explanation
Indices: 8988847--8988903 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8988837 GCTTCGACTC
8988847 AACTTTTATAAAATTACAAT-TTTGTCCCT
1 AACTTTTATAAAATTAC-ATCTTTGTCCCT
* *
8988876 AACTTTTGTATAATTACATCTTTGTCCC
1 AACTTTTATAAAATTACATCTTTGTCCC
8988904 CAAGCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (29 bp):
AACTTTTATAAAATTACATCTTTGTCCCT
Found at i:8996060 original size:51 final size:50
Alignment explanation
Indices: 8995843--8996236 Score: 309
Period size: 51 Copynumber: 7.8 Consensus size: 50
8995833 ATTTTTATCA
* * * *
8995843 TTCGATACACGTAGTAGCCTTCACATAATACTACACACGTGATC--AGTT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
8995891 TTGCAGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AGTT
1 TT-CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * * *
8995940 TTACAGTTCACGTAGTAGCCTTTCACATAGTATTACACACGTGATC-AAGTT
1 TT-CGGTACACATAGTAGCC-TTCACATAGTACTACACACGTGACCAAAGTT
* * *
8995991 TTACGGCT-CCCGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTT
1 TT-CGG-TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * * **
8996043 TTTGGTACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAGTT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
8996093 TACCGATACACATAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTT
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAG-TT
* * * *
8996145 TTTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * * *
8996195 TATCGATACACGTAGTAGCCTCCACAAAGTACTACACACGTG
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTG
8996237 TTCATCGACA
Statistics
Matches: 286, Mismatches: 47, Indels: 23
0.80 0.13 0.06
Matches are distributed among these distances:
48 2 0.01
49 61 0.21
50 54 0.19
51 159 0.56
52 10 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:8996125 original size:102 final size:102
Alignment explanation
Indices: 8995848--8996236 Score: 346
Period size: 102 Copynumber: 3.9 Consensus size: 102
8995838 TATCATTCGA
* * * * * * * * * *
8995848 TACACGTAGTAGCCTTCACATAATACTACACACGTGATCAGT-TTTGCAG-TTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACATAGTAGCC
* * **
8995911 TTCACATAGTACTACACACGTGATC--AG-TTTTACAG
66 TTCACAAAGTACTACACACGTGCTCAAAGCTTTT-TGG
* * * * * * * * * * *
8995946 TTCACGTAGTAGCCTTTCACATAGTATTACACACGTGATCAAGT-TTTACGGCT-CCCGTAGTAG
1 TACACATAGTAGCC-TTCACTTAGTACTACACATGT-AACCAGTATTTACCGATACACATAGTAG
* *
8996009 CCTTCACATAGTACTACATACGTGAC-CAAAGCTTTTTGG
64 CCTTCACAAAGTACTACACACGTG-CTCAAAGCTTTTTGG
* *
8996048 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACC-GTAGTTTACCGATACACATAGTAGC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTA-TTTACCGATACACATAGTAGC
* *
8996112 ATTCACACAGTACTACACACGTGCTCAAAGCTTTTTGG
65 CTTCACAAAGTACTACACACGTGCTCAAAGCTTTTTGG
* * * *
8996150 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACATAGTAGCC
*
8996215 TCCACAAAGTACTACACACGTG
66 TTCACAAAGTACTACACACGTG
8996237 TTCATCGACA
Statistics
Matches: 240, Mismatches: 39, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
98 13 0.05
99 21 0.09
100 43 0.18
101 27 0.11
102 130 0.54
103 6 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCAGTATTTACCGATACACATAGTAGCC
TTCACAAAGTACTACACACGTGCTCAAAGCTTTTTGG
Found at i:8996556 original size:30 final size:30
Alignment explanation
Indices: 8996522--8996579 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
8996512 GCTTCGACTC
*
8996522 AACTTTTATAAAATTACA-ATTTTGTCCCTT
1 AACTTTTACAAAATTACATA-TTTGTCCCTT
*
8996552 AACTTTTACATAATTACATATTTGTCCC
1 AACTTTTACAAAATTACATATTTGTCCC
8996580 CAAGCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (30 bp):
AACTTTTACAAAATTACATATTTGTCCCTT
Found at i:9019615 original size:39 final size:39
Alignment explanation
Indices: 9019547--9019784 Score: 233
Period size: 39 Copynumber: 6.1 Consensus size: 39
9019537 TGTAATTATT
* * *
9019547 CCCTGATCACACATACGTGCCCTTATTGTACTTCGATAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
9019586 CCTTGATTACACATACGTGCCACTGTTGTACTTCGGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* *** * * * *
9019625 CCCTAATTGTACATATGTGCCCTTGCTGTACTTTGGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
9019664 CCCTGATCGCACATATGTGCCCCTGTTGTACTTCAGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
9019703 CCCTGATCACACATTCGTGCCCCTATTGTACTTTGGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
* ** * * **
9019742 CCCTAATTGCACATTCATGCCCCTGTTGTACTTTAGTAC
1 CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
9019781 CCCT
1 CCCT
9019785 AATTTTCACT
Statistics
Matches: 165, Mismatches: 34, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 165 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (39 bp):
CCCTGATCACACATACGTGCCCCTGTTGTACTTCGGTAC
Found at i:9019690 original size:78 final size:78
Alignment explanation
Indices: 9019555--9019788 Score: 265
Period size: 78 Copynumber: 3.0 Consensus size: 78
9019545 TTCCCTGATC
* * * * * * *
9019555 ACACATACGTGCCCTTATTGTACTTCGATACCCTTGATTACACATACGTGCCACTGTTGTACTTC
1 ACACATATGTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTGTACTTC
*
9019620 GGTACCCCTAATT
66 AGTACCCCTAATT
** ** *
9019633 GTACATATGTGCCCTTGCTGTACTTTGGTACCCCTGATCGCACATATGTGCCCCTGTTGTACTTC
1 ACACATATGTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTGTACTTC
* *
9019698 AGTACCCCTGATC
66 AGTACCCCTAATT
* * *
9019711 ACACAT-TCGTGCCCCTATTGTACTTTGGTACCCCTAATTGCACAT-TCATGCCCCTGTTGTACT
1 ACACATAT-GTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATAT-GTGCCCCTGTTGTACT
*
9019774 TTAGTACCCCTAATT
64 TCAGTACCCCTAATT
9019789 TTCACTTACG
Statistics
Matches: 128, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
77 2 0.02
78 126 0.98
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (78 bp):
ACACATATGTGCCCTTATTGTACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTGTACTTC
AGTACCCCTAATT
Found at i:9019707 original size:19 final size:19
Alignment explanation
Indices: 9019683--9019784 Score: 55
Period size: 19 Copynumber: 5.3 Consensus size: 19
9019673 CACATATGTG
9019683 CCCCTGTTGTACTTCAGTA
1 CCCCTGTTGTACTTCAGTA
*** *
9019702 CCCCTGATCACACATTC-GTG
1 CCCCTG-TTGTAC-TTCAGTA
* **
9019722 CCCCTATTGTACTTTGGTA
1 CCCCTGTTGTACTTCAGTA
* * *
9019741 CCCCTAATTGCACATTCA-TG
1 CCCCT-GTTGTAC-TTCAGTA
*
9019761 CCCCTGTTGTACTTTAGTA
1 CCCCTGTTGTACTTCAGTA
9019780 CCCCT
1 CCCCT
9019785 AATTTTCACT
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
18 5 0.08
19 27 0.46
20 22 0.37
21 5 0.08
ACGTcount: A:0.18, C:0.34, G:0.14, T:0.34
Consensus pattern (19 bp):
CCCCTGTTGTACTTCAGTA
Found at i:9019763 original size:117 final size:117
Alignment explanation
Indices: 9019547--9019784 Score: 309
Period size: 117 Copynumber: 2.0 Consensus size: 117
9019537 TGTAATTATT
* * * *
9019547 CCCTGATCACACATACGTGCCCTTATTGTACTTCGATACCCTTGATTACACATACGTGCCACTGT
1 CCCTGATCACACATACGTGCCCCTATTGTACTTCGATACCCCTGATCACACATACGTGCCACTAT
* * * *
9019612 TGTACTTCGGTACCCCTAATTGTACATATGTGCCCTTGCTGTACTTTGGTAC
66 TGTACTTCGGTACCCCTAATTGCACATATATGCCCCTGCTGTACTTTAGTAC
* * * * *
9019664 CCCTGATCGCACATATGTGCCCCTGTTGTACTTC-AGTACCCCTGATCACACATTCGTGCCCCTA
1 CCCTGATCACACATACGTGCCCCTATTGTACTTCGA-TACCCCTGATCACACATACGTGCCACTA
* *
9019728 TTGTACTTTGGTACCCCTAATTGCACAT-TCATGCCCCTGTTGTACTTTAGTAC
65 TTGTACTTCGGTACCCCTAATTGCACATAT-ATGCCCCTGCTGTACTTTAGTAC
9019781 CCCT
1 CCCT
9019785 AATTTTCACT
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
116 2 0.02
117 102 0.98
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (117 bp):
CCCTGATCACACATACGTGCCCCTATTGTACTTCGATACCCCTGATCACACATACGTGCCACTAT
TGTACTTCGGTACCCCTAATTGCACATATATGCCCCTGCTGTACTTTAGTAC
Found at i:9029945 original size:53 final size:51
Alignment explanation
Indices: 9029814--9029947 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 51
9029804 ATGTGTTCTG
* * *
9029814 CATTTAATGAAGTCATGCATTATGTAACTCTAATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCGAATGTTAGTTAAGTTTGCAT
* * * *
9029865 C-CTAAATTATGACATGCATTTATGTAACTCGCATGTTAGTTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCA-TTATGTAACTCGAATGTTAG-TT-AAGTTTGCAT
*
9029918 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
9029948 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
50 12 0.18
51 19 0.28
52 2 0.03
53 21 0.31
54 14 0.21
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCGAATGTTAGTTAAGTTTGCAT
Found at i:9032195 original size:18 final size:17
Alignment explanation
Indices: 9032169--9032224 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
9032159 GCCCATGTTG
*
9032169 CATGGCCGTGTGGGCCCA
1 CATGCCCGTGT-GGCCCA
* *
9032187 CATGCCCGTGTGACCTA
1 CATGCCCGTGTGGCCCA
* *
9032204 CACGCCCATGTGGCCCA
1 CATGCCCGTGTGGCCCA
9032221 CATG
1 CATG
9032225 GCCCAAAATG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 20 0.67
18 10 0.33
ACGTcount: A:0.16, C:0.38, G:0.29, T:0.18
Consensus pattern (17 bp):
CATGCCCGTGTGGCCCA
Found at i:9035727 original size:49 final size:49
Alignment explanation
Indices: 9035651--9035747 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
9035641 GATTTTTCTC
*
9035651 TCTTCTAATTGACCATTTTGCCCTTTATAATCTTTAAAAATTCCATCCA
1 TCTTCTAATTGACCATTTTGCCATTTATAATCTTTAAAAATTCCATCCA
*
9035700 TCTTCTAATTGACCATTTTGCCATTTATAATCTTTAAAAATTTCATCC
1 TCTTCTAATTGACCATTTTGCCATTTATAATCTTTAAAAATTCCATCC
9035748 TTGAGTTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (49 bp):
TCTTCTAATTGACCATTTTGCCATTTATAATCTTTAAAAATTCCATCCA
Found at i:9037206 original size:50 final size:50
Alignment explanation
Indices: 9037131--9037411 Score: 316
Period size: 50 Copynumber: 5.6 Consensus size: 50
9037121 TTTTCTGTAC
* * * ** *
9037131 TGCCAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
9037181 TGCCCATGCCGTGTCGCAGACATGGTCTTCCGTGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
9037231 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATCTTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
9037281 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G-G
* * * *
9037333 ATGCTAATGCCATGTCCCAGACATGGTCTTACACT-GG--CTCACATATCGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCGG
* *
9037382 TGTCGATGCCATGTCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
9037412 TACGAGATCG
Statistics
Matches: 196, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
48 27 0.14
50 127 0.65
51 8 0.04
52 1 0.01
53 32 0.16
54 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:9037274 original size:100 final size:101
Alignment explanation
Indices: 9037082--9037411 Score: 336
Period size: 100 Copynumber: 3.3 Consensus size: 101
9037072 GATAATAACA
* * * * * *
9037082 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGT--TTTCTGT-ACTGCCAATGCCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGA-TGCCAATGCCA
* *
9037142 TATCCCAGATATGGTCTTACATAGGAGTTCTCATATCGG
65 TGTCCCAGATATGGTCTTACAT-GGA-CTCTCATATCGG
* * * * *
9037181 TGCCCATGCCGTGTCGCAGACATGGTCTTCCGTGGGACCTCTCATCTC-G-G-TGCCAATGCCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGATGCCAATGCCAT
* **
9037243 GTCCCAGATATGGTCTTACATGGGACCTCTCATCTTAG
66 GTCCCAGATATGGTCTTACAT-GGA-CTCTCATATCGG
* *
9037281 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGATGCTAATGCCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGATGCCAATGCCAT
* * *
9037346 GTCCCAGACATGGTCTTACACTGG-CTCACATATCGA
66 GTCCCAGATATGGTCTTACA-TGGACTCTCATATCGG
* *
9037382 TGTCGATGCCATGTCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
9037412 TACGAGATCG
Statistics
Matches: 189, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
99 29 0.15
100 85 0.45
101 37 0.20
102 2 0.01
103 35 0.19
104 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (101 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGATGCCAATGCCAT
GTCCCAGATATGGTCTTACATGGACTCTCATATCGG
Found at i:9043460 original size:54 final size:53
Alignment explanation
Indices: 9043394--9043572 Score: 277
Period size: 54 Copynumber: 3.3 Consensus size: 53
9043384 ACATTAAAAG
* * * *
9043394 TTTAATCCAGCAACTAAGTGAACTAAGTTGAACTTAATTAACTAAGATGAGCAA
1 TTTATTCCAGCAACTAAGT-AACTAAGATGAACTCAATTAACTAAGATGAGTAA
*
9043448 TTTATTCCAGCAACTTAAGTAACTAAGGTGAACTCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAAC-TAAGTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
*
9043502 TTTATTCCAGCAACTCAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAACT-AAGTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
9043556 TTTATTCCAGCAACTAA
1 TTTATTCCAGCAACTAA
9043573 ATACTTATTC
Statistics
Matches: 117, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
53 3 0.03
54 109 0.93
55 5 0.04
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (53 bp):
TTTATTCCAGCAACTAAGTAACTAAGATGAACTCAATTAACTAAGATGAGTAA
Found at i:9043489 original size:19 final size:19
Alignment explanation
Indices: 9043467--9043551 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 19
9043457 GCAACTTAAG
*
9043467 TAACTAAGGTGAACTCAAT
1 TAACTAAGATGAACTCAAT
*
9043486 TAACTAAGATG-AGT-AAT
1 TAACTAAGATGAACTCAAT
* * * *
9043503 TTATTCCAG--CAACTCAAT
1 TAACT-AAGATGAACTCAAT
9043521 TAACTAAGATGAACTCAAT
1 TAACTAAGATGAACTCAAT
9043540 TAACTAAGATGA
1 TAACTAAGATGA
9043552 GTAATTTATT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
17 10 0.20
18 10 0.20
19 30 0.60
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
TAACTAAGATGAACTCAAT
Found at i:9046085 original size:22 final size:22
Alignment explanation
Indices: 9046055--9046110 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
9046045 TTGTGGTGTA
*
9046055 GTGGCAAGGTGGCGACACAGGT
1 GTGGTAAGGTGGCGACACAGGT
* *
9046077 GTGGTAAGGAGGTGGCGTCATAGGT
1 GTGGT-A--AGGTGGCGACACAGGT
9046102 GTGGTAAGG
1 GTGGTAAGG
9046111 AGGTCAGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 7 0.25
23 1 0.04
24 1 0.04
25 19 0.68
ACGTcount: A:0.21, C:0.11, G:0.48, T:0.20
Consensus pattern (22 bp):
GTGGTAAGGTGGCGACACAGGT
Found at i:9046089 original size:25 final size:25
Alignment explanation
Indices: 9046061--9046114 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
9046051 TGTAGTGGCA
9046061 AGGTGGCGACACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGTAAGG
* *
9046086 AGGTGGCGTCATAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGTAAGG
9046111 AGGT
1 AGGT
9046115 CAGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.48, T:0.20
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGTAAGG
Found at i:9051410 original size:15 final size:15
Alignment explanation
Indices: 9051390--9051424 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
9051380 TTGAGCTAAG
9051390 ACACAATAATTACCT
1 ACACAATAATTACCT
9051405 ACACAATAATTACCT
1 ACACAATAATTACCT
9051420 ACACA
1 ACACA
9051425 TGTAATAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (15 bp):
ACACAATAATTACCT
Found at i:9051473 original size:27 final size:27
Alignment explanation
Indices: 9051422--9051480 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
9051412 AATTACCTAC
9051422 ACATGTAATAGACTAAGACAAATTAAAA
1 ACATGTAATAGACTAAGACAAATT-AAA
* * *
9051450 ACATGTACTAG-CTATGACATATTAAA
1 ACATGTAATAGACTAAGACAAATTAAA
9051476 ACATG
1 ACATG
9051481 CATTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.29
27 10 0.36
28 10 0.36
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (27 bp):
ACATGTAATAGACTAAGACAAATTAAA
Found at i:9052833 original size:52 final size:49
Alignment explanation
Indices: 9052767--9052883 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 49
9052757 ATGAACAAAT
* *
9052767 GAGTTACTTAATGCAAGAC-TTAATTTAATGATGTAGACTTAAACTAACATCG
1 GAGTTACATAATGCAAGACATT-ATTT-ATGATGCAGACTT-AACTAACAT-G
* * * *
9052819 GAGTTACATAATGCATGTCATTATTTATGATGCATACTTAACTAGCATG
1 GAGTTACATAATGCAAGACATTATTTATGATGCAGACTTAACTAACATG
9052868 GAAGTTACATAATGCA
1 G-AGTTACATAATGCA
9052884 TAACTTTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 2 0.04
50 22 0.39
51 11 0.19
52 20 0.35
53 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (49 bp):
GAGTTACATAATGCAAGACATTATTTATGATGCAGACTTAACTAACATG
Found at i:9067767 original size:15 final size:15
Alignment explanation
Indices: 9067747--9067783 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
9067737 ACTTACATAA
*
9067747 TTTTTTTCTTTTTTC
1 TTTTTTTCTATTTTC
*
9067762 TTTTTTTGTATTTTC
1 TTTTTTTCTATTTTC
9067777 TTTTTTT
1 TTTTTTT
9067784 TTGTACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (15 bp):
TTTTTTTCTATTTTC
Found at i:9067775 original size:17 final size:17
Alignment explanation
Indices: 9067754--9067795 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
9067744 TAATTTTTTT
9067754 CTTTTTTCTTTTTTTGTA
1 CTTTTTT-TTTTTTTGTA
9067772 -TTTTCTTTTTTTTTGTA
1 CTTTT-TTTTTTTTTGTA
9067789 CTTTTTT
1 CTTTTTT
9067796 GATCACTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (17 bp):
CTTTTTTTTTTTTTGTA
Found at i:9070985 original size:48 final size:50
Alignment explanation
Indices: 9070907--9071036 Score: 165
Period size: 49 Copynumber: 2.6 Consensus size: 50
9070897 TATTGAGGTT
* *
9070907 ATGAGAGGTCCCACGTAAGACTATGTCTGGGACA-AGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
* * *
9070956 ATGAGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
** * *
9071005 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
9071037 TATGGCATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 20 0.29
49 33 0.47
50 17 0.24
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
Found at i:9071085 original size:49 final size:50
Alignment explanation
Indices: 9070970--9071091 Score: 149
Period size: 49 Copynumber: 2.5 Consensus size: 50
9070960 GAGGTCCCCG
* * *
9070970 TAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATGGGCACTGACACGAGAACTCCCATA
* * * *
9071020 TAAGACCATATCTGGGATATGGCATTGGCAGT-ACACGA-AACATCCCATA
1 TAAGACCATGTCTGGGACATGGCATGGGCACTGACACGAGAAC-TCCCATA
*
9071069 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
9071092 TTTTGCATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 30 0.49
50 28 0.46
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACTGACACGAGAACTCCCATA
Found at i:9071326 original size:20 final size:20
Alignment explanation
Indices: 9071301--9071339 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9071291 TGATTTATTT
9071301 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
9071321 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
9071340 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:9077738 original size:16 final size:15
Alignment explanation
Indices: 9077690--9077744 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
9077680 ATAAAAAAAG
9077690 ATTATAA-T-TATTA
1 ATTATAATTATATTA
**
9077703 ATATATAATTATATCC
1 AT-TATAATTATATTA
9077719 ATTATAATATATATTA
1 ATTATAAT-TATATTA
*
9077735 ATTATTATTA
1 ATTATAATTA
9077745 GCTTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 2 0.06
14 5 0.15
15 9 0.27
16 17 0.52
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATAATTATATTA
Found at i:9083464 original size:41 final size:40
Alignment explanation
Indices: 9083405--9083686 Score: 249
Period size: 41 Copynumber: 6.8 Consensus size: 40
9083395 GGATCCCGGT
* * * *
9083405 GGAATCAGCACTTGGCAACCACCTTATAATCAATGATACAG
1 GGAATCAGCACATAGCAACC-CCTTACAATCAATGATACGG
* * *
9083446 GGAAACAGCACATAGCAACCCCTTTCACAATCAAGGATATGG
1 GGAATCAGCACATAGCAACCCC-TT-ACAATCAATGATACGG
* * * *
9083488 TGGAATCAACACTTAGCAGCCACCTTACAATCAATGGTACGG
1 -GGAATCAGCACATAGCAACC-CCTTACAATCAATGATACGG
*
9083530 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ACAATCAATGATACGG
* * * *
9083572 TGGAATCAGCACTTAGCAACCACCTTATAGTAAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTACAATCAATGATACGG
* ** * *
9083614 GGAATCAGAACATAGCAACCCCTTATTGATCAATGATTCGA
1 GGAATCAGCACATAGCAACCCCTTA-CAATCAATGATACGG
* * * *
9083655 GGAATCTGTACTTAGCAACCCCTTACATTCAA
1 GGAATCAGCACATAGCAACCCCTTACAATCAA
9083687 AGAATCCCAG
Statistics
Matches: 195, Mismatches: 37, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
40 13 0.07
41 88 0.45
42 51 0.26
43 39 0.20
44 4 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACATAGCAACCCCTTACAATCAATGATACGG
Found at i:9083511 original size:84 final size:84
Alignment explanation
Indices: 9083356--9083637 Score: 377
Period size: 84 Copynumber: 3.3 Consensus size: 84
9083346 TAACCGTTAC
* * *** * *
9083356 ACGGTGGAATCAGCACTTAGCAACCAC-TTCATGTTCAAAGGATCCCGGTGGAATCAGCACTTGG
1 ACGG-GGAATCAGCACATAGCAACCCCTTTCACAATC-AAGGAT-ACGGTGGAATCAGCACTTAG
9083420 CAACCACCTTATAATCAATGAT
63 CAACCACCTTATAATCAATGAT
* * * * *
9083442 ACAGGGAAACAGCACATAGCAACCCCTTTCACAATCAAGGATATGGTGGAATCAACACTTAGCAG
1 ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
* *
9083507 CCACCTTACAATCAATGGT
66 CCACCTTATAATCAATGAT
9083526 ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
1 ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
* *
9083591 CCACCTTATAGTAAATGAT
66 CCACCTTATAATCAATGAT
*
9083610 ACGGGGAATCAGAACATAGCAACCCCTT
1 ACGGGGAATCAGCACATAGCAACCCCTT
9083638 ATTGATCAAT
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
84 137 0.80
85 25 0.15
86 9 0.05
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (84 bp):
ACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTAGCAA
CCACCTTATAATCAATGAT
Found at i:9085116 original size:3 final size:3
Alignment explanation
Indices: 9085108--9085160 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
9085098 ACTATTTTCT
* * * * * *
9085108 TTA TTA TTA TTG TTA TTA TTA TTA ATG TTA CTA TAA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9085156 TTA TT
1 TTA TT
9085161 TGTATTAGTT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9091954 original size:44 final size:44
Alignment explanation
Indices: 9091906--9092132 Score: 129
Period size: 44 Copynumber: 5.2 Consensus size: 44
9091896 AGACACCAGC
*
9091906 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAACATACCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
* *** * * * ** * *
9091950 CTTGCCTTCCTAC-ACCGATAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCT-CGGTTG-TAGTGGAGCAGGTTAAAGATACCAGAT
*
9091994 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
* ** * * * * * ** * *
9092038 CTTGCCTTCCTAC-AATGACAGCGAAGTAGATCGAAGACACCAG-C
1 CTTGCCTCCCT-CGGTTG-TAGTGGAGCAGGTTAAAGATACCAGAT
* * * *
9092082 CTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
9092126 CTTGCCT
1 CTTGCCT
9092133 TCCAGCATCG
Statistics
Matches: 128, Mismatches: 47, Indels: 16
0.67 0.25 0.08
Matches are distributed among these distances:
43 39 0.30
44 53 0.41
45 36 0.28
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATACCAGAT
Found at i:9092164 original size:45 final size:44
Alignment explanation
Indices: 9092026--9092250 Score: 118
Period size: 45 Copynumber: 5.1 Consensus size: 44
9092016 GAGCAGGTTA
* *
9092026 AAGATAGCAGATCTTGCCTTCCTACAAT-GACAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGCCTTCC-A-GATCGACAGCGAAGCAGATCG
* * * * * * * * * * * *
9092071 AAGACACCAG-CCTTGCCTCCCTCGGTTG-CAGTGGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCC-AGATCGACAGCGAAGCAGATCG
9092114 AAGATAGCAGATCTTGCCTTCCAGCATCGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCAG-ATCGACAGCGAAGCAGATCG
* * * * * * * * **
9092159 AAGATACCAG-CCTTGCCTCCCTGAGT-TACAGTGGAGCAGGTTA
1 AAGATAGCAGATCTTGCCTTCCAGA-TCGACAGCGAAGCAGATCG
* * *
9092202 AAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCC-AGATCGACAGCGAAGCAGATCG
9092247 AAGA
1 AAGA
9092251 CACCAGCCTT
Statistics
Matches: 126, Mismatches: 46, Indels: 16
0.67 0.24 0.09
Matches are distributed among these distances:
43 42 0.33
44 41 0.33
45 43 0.34
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (44 bp):
AAGATAGCAGATCTTGCCTTCCAGATCGACAGCGAAGCAGATCG
Found at i:9092174 original size:44 final size:43
Alignment explanation
Indices: 9092054--9092264 Score: 111
Period size: 43 Copynumber: 4.8 Consensus size: 43
9092044 TTCCTACAAT
* * * * * *
9092054 GACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTCGGTT
1 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTTCC-AGATC
* * * * * * *
9092098 G-CAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCAGCATC
1 GACAGCGAAGCAGATCGAAGATACCAG-CCTTGCCTTCCAG-ATC
* *
9092142 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGT-
1 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTTCCAGA-TC
* * * * ** * * * * *
9092185 TACAGTGGAGCAGGTTAAAGATAGCAGATCTTACCTTCCTATACC
1 GACAGCGAAGCAGATCGAAGATACCAG-CCTTGCCTTCC-AGATC
*
9092230 GACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
9092265 CCCTGGGTTG
Statistics
Matches: 117, Mismatches: 43, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
43 41 0.35
44 37 0.32
45 39 0.33
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (43 bp):
GACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTTCCAGATC
Found at i:9092347 original size:264 final size:264
Alignment explanation
Indices: 9091848--9092382 Score: 727
Period size: 264 Copynumber: 2.0 Consensus size: 264
9091838 AACAAATCAG
* * *
9091848 TGAAGATAGTATATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCAGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
** * *
9091913 CCCTCGGTTGTAGTGGAGCAGGTTAAACATACCAGATCTTGCCTTCCTACACCGATAGCGAAGCA
66 CCCTCGGTTACAGTGGAGCAGGTTAAACATACCAGATCTTACCTTCCTACACCGACAGCGAAGCA
* * *
9091978 GATCGAAGACACCAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATAGCAGATCTTGC
131 GATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAAGTTAAAGATAGCAGATCTTGC
* * * *** *
9092043 CTTCCTACAATGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGCAGTGGAG
196 CTTCCTACAATGACAGCGAAGCAGAGCAAAGACACCAGCCTTGCCTCCCT-GACCAGCAGTGGAA
9092107 TAGGT
260 TAGGT
* * *
9092112 TGAAGATAGCAGATCTTGCCTTCCAGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCAGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
9092177 CCCT-GAGTTACAGTGGAGCAGGTTAAAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGC
66 CCCTCG-GTTACAGTGGAGCAGGTTAAACATACCAGATCTTACCTTCCTACACCGACAGCGAAGC
*
9092241 AGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAAGTTGAAA-ATAAG-AGATCT
130 AGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAAGTT-AAAGAT-AGCAGATCT
** * * * * *
9092304 TGCCTTCCTGTATTGACGGTGAAGCAGAGCAAAGACCCCAGCCTTGTCTCCCTGACCAGCAGTGG
193 TGCCTTCCTACAATGACAGCGAAGCAGAGCAAAGACACCAGCCTTGCCTCCCTGACCAGCAGTGG
9092369 AATAGGT
258 AATAGGT
9092376 TGAAGAT
1 TGAAGAT
9092383 TGTAAGCCCT
Statistics
Matches: 236, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
263 2 0.01
264 229 0.97
265 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (264 bp):
TGAAGATAGCAGATCTTGCCTTCCAGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTCGGTTACAGTGGAGCAGGTTAAACATACCAGATCTTACCTTCCTACACCGACAGCGAAGCA
GATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAAGTTAAAGATAGCAGATCTTGC
CTTCCTACAATGACAGCGAAGCAGAGCAAAGACACCAGCCTTGCCTCCCTGACCAGCAGTGGAAT
AGGT
Found at i:9092357 original size:88 final size:88
Alignment explanation
Indices: 9091850--9092312 Score: 664
Period size: 88 Copynumber: 5.3 Consensus size: 88
9091840 CAAATCAGTG
* * * *
9091850 AAGATAGTATATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
9091915 CTCGGTTGTAGTGGAGCAGGTTA
66 CTCGGTTGCAGTGGAGCAGGTTA
* * *
9091938 AACATACCAGATCTTGCCTTCCTACACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
9092003 CTCGGTTGTAGTGGAGCAGGTTA
66 CTCGGTTGCAGTGGAGCAGGTTA
** *
9092026 AAGATAGCAGATCTTGCCTTCCTACAATGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* *
9092091 CTCGGTTGCAGTGGAGTAGGTTG
66 CTCGGTTGCAGTGGAGCAGGTTA
* *
9092114 AAGATAGCAGATCTTGCCTTCC-AGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTA-CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
*
9092178 CCT-GAGTTACAGTGGAGCAGGTTA
65 CCTCG-GTTGCAGTGGAGCAGGTTA
* *
9092202 AAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
9092267 CTGGGTTGCAGCGGAGCAAGTTGA
66 CTCGGTTGCAGTGGAGCAGGTT-A
9092291 AA-ATAAG-AGATCTTGCCTTCCT
1 AAGAT-AGCAGATCTTGCCTTCCT
9092313 GTATTGACGG
Statistics
Matches: 338, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
87 2 0.01
88 329 0.97
89 7 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
CTCGGTTGCAGTGGAGCAGGTTA
Found at i:9092369 original size:176 final size:176
Alignment explanation
Indices: 9091850--9092369 Score: 661
Period size: 176 Copynumber: 3.0 Consensus size: 176
9091840 CAAATCAGTG
* * * *
9091850 AAGATAGTATATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* ** * * *
9091915 CTCGGTTGTAGTGGAGCAGGTT-AAACATACCAGATCTTGCCTTCCTACACCGATAGCGAAGCAG
66 CTCGGTTGCAGTGGAGCAGGTTGAAA-ATAAGAGATCTTGCCTTCCTGCATCGACAGCGAAGCAG
* * *
9091979 ATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGTAGTGGAGCAGGTTA
130 ATCGAAGACACCAGCCTTGCCTCCCT-GACTAGCAGTGGAGCAGGTTA
** *
9092026 AAGATAGCAGATCTTGCCTTCCTACAATGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
9092091 CTCGGTTGCAGTGGAGTAGGTTGAAGAT-AGCAGATCTTGCCTTCCAGCATCGACAGCGAAGCAG
66 CTCGGTTGCAGTGGAGCAGGTTGAAAATAAG-AGATCTTGCCTTCCTGCATCGACAGCGAAGCAG
* *
9092155 ATCGAAGATACCAGCCTTGCCTCCCTGAGTTA-CAGTGGAGCAGGTTA
130 ATCGAAGACACCAGCCTTGCCTCCCTGA-CTAGCAGTGGAGCAGGTTA
* *
9092202 AAGATAGCAGATCTTACCTTCCTATACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * * * * * *
9092267 CTGGGTTGCAGCGGAGCAAGTTGAAAATAAGAGATCTTGCCTTCCTGTATTGACGGTGAAGCAGA
66 CTCGGTTGCAGTGGAGCAGGTTGAAAATAAGAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGA
* * * * *
9092332 GCAAAGACCCCAGCCTTGTCTCCCTGACCAGCAGTGGA
131 TCGAAGACACCAGCCTTGCCTCCCTGACTAGCAGTGGA
9092370 ATAGGTTGAA
Statistics
Matches: 296, Mismatches: 42, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
175 2 0.01
176 289 0.98
177 5 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (176 bp):
AAGATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
CTCGGTTGCAGTGGAGCAGGTTGAAAATAAGAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGA
TCGAAGACACCAGCCTTGCCTCCCTGACTAGCAGTGGAGCAGGTTA
Found at i:9092378 original size:88 final size:88
Alignment explanation
Indices: 9091860--9092379 Score: 509
Period size: 88 Copynumber: 5.9 Consensus size: 88
9091850 AAGATAGTAT
* * * * * *
9091860 ATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGT
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GACTAGC
*
9091924 AGTGGAGCAGGTT-AAACATACCAG
65 AGTGGAGCAGGTTGAAA-ATAGCAG
** * * * * *
9091948 ATCTTGCCTTCCTACACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTGT
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GACTAGC
9092012 AGTGGAGCAGGTT-AAAGATAGCAG
65 AGTGGAGCAGGTTGAAA-ATAGCAG
** * * *
9092036 ATCTTGCCTTCCTACAAT-GACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTCG-GTTG
1 ATCTTGCCTTCCT-GTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GACTAG
* *
9092099 CAGTGGAGTAGGTTGAAGATAGCAG
64 CAGTGGAGCAGGTTGAAAATAGCAG
* * * *
9092124 ATCTTGCCTTCCAGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGAGTTA-C
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGA-CTAGC
9092188 AGTGGAGCAGGTT-AAAGATAGCAG
65 AGTGGAGCAGGTTGAAA-ATAGCAG
* * * ** *
9092212 ATCTTACCTTCCTATACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGACTAGCA
* *
9092277 GCGGAGCAAGTTGAAAATAAG-AG
66 GTGGAGCAGGTTGAAAAT-AGCAG
* * * * * * * *
9092300 ATCTTGCCTTCCTGTATTGACGGTGAAGCAGAGCAAAGACCCCAGCCTTGTCTCCCTGACCAGCA
1 ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGACTAGCA
**
9092365 GTGGAATAGGTTGAA
66 GTGGAGCAGGTTGAA
9092380 GATTGTAAGC
Statistics
Matches: 372, Mismatches: 51, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
87 6 0.02
88 357 0.96
89 9 0.02
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (88 bp):
ATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGACTAGCA
GTGGAGCAGGTTGAAAATAGCAG
Found at i:9092416 original size:44 final size:44
Alignment explanation
Indices: 9092350--9092724 Score: 494
Period size: 44 Copynumber: 8.7 Consensus size: 44
9092340 CCCAGCCTTG
*
9092350 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGCCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
9092394 TCTCCCTGACCAACAGTTGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
9092438 GCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* * *
9092482 TCTACCTAACCAACAGTGGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
9092526 TCTCCCTGACTAGCAATGGAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
***
9092570 TCTCCCTGACCAGCAGCAAAATAGGTTGAAGATTGTAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* * *
9092614 TCTCCCTGACCAACAGTGGAATAGG-T--CGA----AAGTCATA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
** * * *
9092651 TCTCTTTGACCAACAGTGAAATAGGTTGAAGATTGCAAGTCCTA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
* *
9092695 TCTCCCTGACCAGTAGTTGAATAGGTTGAA
1 TCTCCCTGACCAGCAGTGGAATAGGTTGAA
9092725 AATTACAAAT
Statistics
Matches: 285, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
37 29 0.10
38 1 0.00
40 2 0.01
41 2 0.01
43 1 0.00
44 250 0.88
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTA
Found at i:9092661 original size:37 final size:37
Alignment explanation
Indices: 9092606--9092676 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
9092596 TGAAGATTGT
* *
9092606 AAGTCCTATCTCCCTGACCAACAGTGGAATAGGTCGA
1 AAGTCATATCTCCCTGACCAACAGTGAAATAGGTCGA
**
9092643 AAGTCATATCTCTTTGACCAACAGTGAAATAGGT
1 AAGTCATATCTCCCTGACCAACAGTGAAATAGGT
9092677 TGAAGATTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (37 bp):
AAGTCATATCTCCCTGACCAACAGTGAAATAGGTCGA
Found at i:9094378 original size:3 final size:3
Alignment explanation
Indices: 9094370--9094422 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
9094360 ACTATTTTCT
* * * * * *
9094370 TTA TTA TTA TTG TTA TTA TTA TTA ATG TTA CTA TAA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9094418 TTA TT
1 TTA TT
9094423 TGTATTAGTT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9094821 original size:22 final size:22
Alignment explanation
Indices: 9094796--9094837 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9094786 TCAAATTTTC
* *
9094796 ATTTATTTATTATTTATTTTAA
1 ATTTATATATAATTTATTTTAA
*
9094818 ATTTATATATAATTTCTTTT
1 ATTTATATATAATTTATTTT
9094838 CTTTCATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTATATATAATTTATTTTAA
Found at i:9097460 original size:11 final size:11
Alignment explanation
Indices: 9097444--9097482 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9097434 CTTTACACTA
9097444 AATGAGCTACG
1 AATGAGCTACG
9097455 AATGAGCTA--
1 AATGAGCTACG
*
9097464 AGTGAGCTACG
1 AATGAGCTACG
9097475 AATGAGCT
1 AATGAGCT
9097483 CGTTGAGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (11 bp):
AATGAGCTACG
Found at i:9097492 original size:20 final size:20
Alignment explanation
Indices: 9097441--9097482 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
9097431 ATTCTTTACA
*
9097441 CTAAATGAGCTACGAATGAG
1 CTAAGTGAGCTACGAATGAG
9097461 CTAAGTGAGCTACGAATGAG
1 CTAAGTGAGCTACGAATGAG
9097481 CT
1 CT
9097483 CGTTGAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (20 bp):
CTAAGTGAGCTACGAATGAG
Found at i:9100446 original size:15 final size:15
Alignment explanation
Indices: 9100422--9100453 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9100412 GCTCTTTTTC
*
9100422 TTCACTCATTTTATT
1 TTCACACATTTTATT
9100437 TTCACACATTTTATT
1 TTCACACATTTTATT
9100452 TT
1 TT
9100454 TTTCTCTCAC
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:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (15 bp):
TTCACACATTTTATT
Found at i:9111655 original size:100 final size:100
Alignment explanation
Indices: 9111524--9111728 Score: 268
Period size: 100 Copynumber: 2.0 Consensus size: 100
9111514 ACAGTGGAGT
* * *
9111524 AGATTGAAGCTGCAACGACAAATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATTGAAGTTACGA
1 AGATTGAAGCTGCAACGACAAATCTTACTTCCCTGGCGGTATAGTGGAACAGATTGAAGCTACGA
*
9111589 CGGCCAATCTTGTTTCCCCGACATTGCAATTAAAA
66 CGGCCAATCTTGTTTCCCCGACATTCCAATTAAAA
* * * * *
9111624 AGATTGAAGGC-GCAACGTCGAATCTTCCTTCCTTGGCGGTATAGTGGAATAGATTGAAGCTACG
1 AGATTGAA-GCTGCAACGACAAATCTTACTTCCCTGGCGGTATAGTGGAACAGATTGAAGCTACG
* ** * *
9111688 ATGGTGAATCTTGTTTCCCCGACATTCCAGTTAAAC
65 ACGGCCAATCTTGTTTCCCCGACATTCCAATTAAAA
9111724 AGATT
1 AGATT
9111729 AAAGATATTA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 88 0.98
101 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (100 bp):
AGATTGAAGCTGCAACGACAAATCTTACTTCCCTGGCGGTATAGTGGAACAGATTGAAGCTACGA
CGGCCAATCTTGTTTCCCCGACATTCCAATTAAAA
Found at i:9111847 original size:45 final size:44
Alignment explanation
Indices: 9111741--9112071 Score: 185
Period size: 44 Copynumber: 7.6 Consensus size: 44
9111731 AGATATTAGG
* * * *
9111741 TCTTATCTCCCTGAGGTTGGAGTGGAGCAGACTGAATAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
* * * * *
9111785 CCTTATC-CCCTTGAAGTTGTAGTGGGGGAGACTGAAGATGACAAA
1 TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAGA-AACAAA
** **
9111830 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTTAG-GCCATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA-AA
* * * * * ** *
9111873 TCCTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGTGATAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
* * * * * * * *
9111917 TCTTATCTCTCTGAAATTGCAG-AGAGCAGA-T-CA-CATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
* * * *
9111957 TTTTATCTCCTTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA-CAAA
* * * *
9112002 TCTTA-CCCCCTGAAATTGCAGTGGGGCAGACT-ACATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AGAAACAAA
* * * *
9112045 TCCTGTCTCCCTTAAGTTGTAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
9112072 TGGATTAGAG
Statistics
Matches: 216, Mismatches: 58, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
40 19 0.09
41 8 0.04
42 5 0.02
43 47 0.22
44 98 0.45
45 36 0.17
46 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACAAA
Found at i:9113721 original size:31 final size:31
Alignment explanation
Indices: 9113683--9113745 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
9113673 AAATGATGTA
* *
9113683 ATTATTATTTTTACTCTT-ATAATTTATATAT
1 ATTATTATTATTA-TCTTCATAATCTATATAT
*
9113714 ATTATTATTATTATTTTCATAATCTATATAT
1 ATTATTATTATTATCTTCATAATCTATATAT
9113745 A
1 A
9113746 CACGTGCACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTATTATTATTATCTTCATAATCTATATAT
Found at i:9122207 original size:14 final size:14
Alignment explanation
Indices: 9122188--9122242 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
9122178 GACATAAAAT
9122188 AAACCTCACAGCAA
1 AAACCTCACAGCAA
**
9122202 AAACCTCACGATTAAAA
1 AAACCTCAC-A--GCAA
9122219 TAAACCTCACAGCAA
1 -AAACCTCACAGCAA
9122234 AAACCTCAC
1 AAACCTCAC
9122243 GATTCTCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.55
15 3 0.09
17 3 0.09
18 9 0.27
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.13
Consensus pattern (14 bp):
AAACCTCACAGCAA
Found at i:9122223 original size:32 final size:32
Alignment explanation
Indices: 9122182--9122246 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9122172 TTTTGAGACA
9122182 TAAAATAAACCTCACAGCAAAAACCTCACGAT
1 TAAAATAAACCTCACAGCAAAAACCTCACGAT
9122214 TAAAATAAACCTCACAGCAAAAACCTCACGAT
1 TAAAATAAACCTCACAGCAAAAACCTCACGAT
9122246 T
1 T
9122247 CTCTCAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.28, G:0.06, T:0.17
Consensus pattern (32 bp):
TAAAATAAACCTCACAGCAAAAACCTCACGAT
Found at i:9125932 original size:20 final size:20
Alignment explanation
Indices: 9125880--9125921 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9125870 TAAATACAAA
* *
9125880 CTAAATGAGCTAGGAATGAG
1 CTAAGTGAGCTAGGAACGAG
9125900 CTAAGTGAGCTAGGAACGAG
1 CTAAGTGAGCTAGGAACGAG
9125920 CT
1 CT
9125922 CGTTGAGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (20 bp):
CTAAGTGAGCTAGGAACGAG
Found at i:9127533 original size:19 final size:19
Alignment explanation
Indices: 9127506--9127598 Score: 63
Period size: 19 Copynumber: 5.1 Consensus size: 19
9127496 TTATTCTAGC
*
9127506 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
9127525 AACTTAATTGACTAAGATGAG
1 AACTTAATTAACTAAGAT--G
* *
9127546 TAACTT-ATT--CCAACA-G
1 -AACTTAATTAACTAAGATG
9127562 --CTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* *
9127579 AACTCAGTTAACTAAGATG
1 AACTTAATTAACTAAGATG
9127598 A
1 A
9127599 GTAATTTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
16 5 0.09
17 1 0.02
19 36 0.63
21 4 0.07
22 5 0.09
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:9129351 original size:11 final size:11
Alignment explanation
Indices: 9129335--9129372 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
9129325 CTCCCGAAAT
9129335 AAAAAAATTCA
1 AAAAAAATTCA
9129346 AAAAAAATT-A
1 AAAAAAATTCA
*
9129356 AAAAAAGTTCA
1 AAAAAAATTCA
9129367 AAAAAA
1 AAAAAA
9129373 TATTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:9129361 original size:21 final size:22
Alignment explanation
Indices: 9129335--9129379 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
9129325 CTCCCGAAAT
9129335 AAAAAAATTCAAAAAAA-ATTA
1 AAAAAAATTCAAAAAAATATTA
*
9129356 AAAAAAGTTCAAAAAAATATTA
1 AAAAAAATTCAAAAAAATATTA
9129378 AA
1 AA
9129380 TTAAAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAAAAATTCAAAAAAATATTA
Found at i:9130748 original size:21 final size:21
Alignment explanation
Indices: 9130697--9130749 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9130687 AATGATTATC
***
9130697 GAAAAAGAAAGAGTGGAAAAA
1 GAAAAAGAAAGAAAAGAAAAA
**
9130718 GAAATTGAAAGAAAAGAAAAA
1 GAAAAAGAAAGAAAAGAAAAA
9130739 GAAAAAGAAAG
1 GAAAAAGAAAG
9130750 TGGAAAAGAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.06
Consensus pattern (21 bp):
GAAAAAGAAAGAAAAGAAAAA
Found at i:9130774 original size:17 final size:15
Alignment explanation
Indices: 9130742--9130799 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
9130732 AGAAAAAGAA
*
9130742 AAAGAAAGTGGAAAAG
1 AAAGAGAGT-GAAAAG
9130758 AAAGAGAGCCTGAAAAG
1 AAAGAGAG--TGAAAAG
**
9130775 AAATCGAGTGAAAAAG
1 AAAGAGAGTG-AAAAG
9130791 AAAGAGAGT
1 AAAGAGAGT
9130800 TTGAAAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 2 0.06
16 19 0.56
17 12 0.35
18 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.29, T:0.09
Consensus pattern (15 bp):
AAAGAGAGTGAAAAG
Found at i:9130790 original size:33 final size:33
Alignment explanation
Indices: 9130748--9130819 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
9130738 AGAAAAAGAA
*
9130748 AGTGGAAAAGAAAGAGAGCCTG-AAAAGAAATCG
1 AGTGAAAAAGAAAGAGAGCCTGAAAAAGAAA-CG
**
9130781 AGTGAAAAAGAAAGAGAGTTTGAAAAAGAAACG
1 AGTGAAAAAGAAAGAGAGCCTGAAAAAGAAACG
9130814 AGTGAA
1 AGTGAA
9130820 GAGAGTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.54, C:0.06, G:0.29, T:0.11
Consensus pattern (33 bp):
AGTGAAAAAGAAAGAGAGCCTGAAAAAGAAACG
Found at i:9130791 original size:16 final size:15
Alignment explanation
Indices: 9130770--9130819 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
9130760 AGAGAGCCTG
9130770 AAAAGAAATCGAGTGA
1 AAAAGAAA-CGAGTGA
*
9130786 AAAAGAAAGAGAGTTTGA
1 AAAAGAAA-CGAG--TGA
9130804 AAAAGAAACGAGTGA
1 AAAAGAAACGAGTGA
9130819 A
1 A
9130820 GAGAGTAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 3 0.10
18 11 0.38
ACGTcount: A:0.58, C:0.04, G:0.26, T:0.12
Consensus pattern (15 bp):
AAAAGAAACGAGTGA
Found at i:9136567 original size:19 final size:19
Alignment explanation
Indices: 9136540--9136578 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9136530 TTATTCCAAC
*
9136540 AACTAAATTAGCTAAGATG
1 AACTAAATTAACTAAGATG
* *
9136559 AACTTAATTAACTAATATG
1 AACTAAATTAACTAAGATG
9136578 A
1 A
9136579 GTAATTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:9136592 original size:54 final size:54
Alignment explanation
Indices: 9136530--9136655 Score: 189
Period size: 54 Copynumber: 2.3 Consensus size: 54
9136520 CAATAATAAA
* * * *
9136530 TTATTCCAACAACTAAATTAGCTAAGATGAACTTAATTAACTAATATGAGTAAT
1 TTATTCCAATAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
* *
9136584 TTATTCCAATAGCTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAATAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
9136638 TTATTCCAGTAACTAAAT
1 TTATTCCAATAACTAAAT
9136656 ACTTATTCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (54 bp):
TTATTCCAATAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:9140301 original size:13 final size:12
Alignment explanation
Indices: 9140265--9140300 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
9140255 AAAATTATAG
9140265 AAAAAATAAAAT
1 AAAAAATAAAAT
*
9140277 ATGAAAATAAAAT
1 A-AAAAATAAAAT
9140290 AAAAAATAAAA
1 AAAAAATAAAA
9140301 AAATATTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:9140301 original size:18 final size:18
Alignment explanation
Indices: 9140267--9140301 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9140257 AATTATAGAA
* *
9140267 AAAATAAAATATGAAAAT
1 AAAATAAAAAATAAAAAT
9140285 AAAATAAAAAATAAAAA
1 AAAATAAAAAATAAAAA
9140302 AATATTCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAAAAATAAAAAT
Found at i:9149630 original size:30 final size:30
Alignment explanation
Indices: 9149596--9149906 Score: 188
Period size: 30 Copynumber: 10.4 Consensus size: 30
9149586 TCATCGACCA
* *
9149596 ATGAAAGGGGATAGCTTTGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* *
9149626 ATGAAAATGGATAGCTTCGGTTATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* * * * * *
9149656 ATGAAAAAGGAT-GGTGACGACCATC-AATA
1 ATGAAAAGGGATAGCT-TCGGCTATCGAATT
* * * *
9149685 ATGAAAAGGGAT-GGTGACGACCATCGGAA-T
1 ATGAAAAGGGATAGCT-TCGGCTATC-GAATT
* * * *
9149715 ATGAAAAGGGATAGCTCCGACTATTGAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* * *
9149745 ATGAAAAGGGTTATCGTCGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* * * * * * *
9149775 ATGAAAAAGCAT-GGTGACGACCATCAAATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAATT
* *
9149805 ATGAAAAGGGATAGCTTCAGCTATCGAATA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* * *
9149835 ATGAAAAGGGA-AG-GT-GACAATGATCAAATT
1 ATGAAAAGGGATAGCTTCGGC--T-ATCGAATT
* *
9149865 ATGAAAAGGGATAGCTTCGACTATCGAACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
9149895 ATGAAAAGGGAT
1 ATGAAAAGGGAT
9149907 GGTGACAAGC
Statistics
Matches: 217, Mismatches: 51, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
27 1 0.00
28 1 0.00
29 35 0.16
30 167 0.77
31 9 0.04
32 1 0.00
33 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATT
Found at i:9149808 original size:60 final size:60
Alignment explanation
Indices: 9149622--9149912 Score: 286
Period size: 60 Copynumber: 4.9 Consensus size: 60
9149612 TTGGCTATCG
* * *
9149622 AATTATGAAAATGGATAGCTTCGGTTATCGAATTATGAAAAAGGATGGTGACGACCATC-
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
* * * * * * * * *
9149681 AATAATGAAAAGGGAT-GGTGACGACCATCGGAA-TATGAAAAGGGATAGCT-CCGACTATTGA
1 AATTATGAAAAGGGATAGCT-TCGGCTATC-GAATTATGAAAAGGGAT-GGTGACGACCA-TCA
* * * * *
9149742 AA-TATGAAAAGGGTTATCGTCGGCTATCGAATTATGAAAAAGCATGGTGACGACCATCA
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
* * * * **
9149801 AATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGAAGGTGACAATGATCA
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
* *
9149861 AATTATGAAAAGGGATAGCTTCGACTATCGAACTATGAAAAGGGATGGTGAC
1 AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGAC
9149913 AAGCATTGTG
Statistics
Matches: 181, Mismatches: 42, Indels: 17
0.75 0.17 0.07
Matches are distributed among these distances:
58 2 0.01
59 45 0.25
60 132 0.73
61 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (60 bp):
AATTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCA
Found at i:9149834 original size:119 final size:120
Alignment explanation
Indices: 9149595--9149912 Score: 319
Period size: 119 Copynumber: 2.7 Consensus size: 120
9149585 ATCATCGACC
* ** * * * * *
9149595 AATGAAAGGGGATAGCTTTGGCTATCGAATTATGAAAATGGATAGCTTCGGTTATCGAATTATGA
1 AATGAAAAGGGATAGCTCCGACTATCGAAATATGAAAAGGGATAGCGTCGGCTATCGAATTATGA
* *
9149660 AAAAGGATGGTGACGACCATCAATAATGAAAAGGGATGGTGACGACCATCGGAAT
66 AAAAGCATGGTGACGACCATCAATAATGAAAAGGGATGGTCACGACCATCGGAAT
* * *
9149715 -ATGAAAAGGGATAGCTCCGACTATTGAAATATGAAAAGGGTTATCGTCGGCTATCGAATTATGA
1 AATGAAAAGGGATAGCTCCGACTATCGAAATATGAAAAGGGATAGCGTCGGCTATCGAATTATGA
* * *
9149779 AAAAGCATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCA-G-CTATC-GAAT
66 AAAAGCATGGTGACGACCATC-AATAATGAAAAGGGAT-G-GTCACGACCATCGGAAT
* * * *
9149834 AATGAAAAGGGA-AGGT--GACAATGATC-AAATTATGAAAAGGGATAGCTTCGACTATCGAACT
1 AATGAAAAGGGATAGCTCCGAC--T-ATCGAAA-TATGAAAAGGGATAGCGTCGGCTATCGAATT
* *
9149895 ATGAAAAGGGATGGTGAC
62 ATGAAAAAGCATGGTGAC
9149913 AAGCATTGTG
Statistics
Matches: 165, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
117 3 0.02
119 84 0.51
120 74 0.45
121 2 0.01
122 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.23
Consensus pattern (120 bp):
AATGAAAAGGGATAGCTCCGACTATCGAAATATGAAAAGGGATAGCGTCGGCTATCGAATTATGA
AAAAGCATGGTGACGACCATCAATAATGAAAAGGGATGGTCACGACCATCGGAAT
Found at i:9149898 original size:90 final size:87
Alignment explanation
Indices: 9149618--9149906 Score: 246
Period size: 90 Copynumber: 3.2 Consensus size: 87
9149608 AGCTTTGGCT
* * * * * *
9149618 ATCGAATTATGAAAATGGATAGCTTCGGTTATCGAATTATGAAAAAGGATGGTGACGACCATCAA
1 ATCGAATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATGGTGAC-A-TATCAA
* *
9149683 TAATGAAAAGGGATGGTGACGACC
64 TTATGAAAAGGGATGCTGACGACC
* * * *
9149707 ATCGGAA-TATGAAAAGGGATAGC-TCCGACTATTGAA-ATATGAAAAGGGTTATCGTCGGC-TA
1 ATC-GAATTATGAAAAGGGATAGCTTCAG-CTATCGAATA-ATGAAAAGGG--ATGGT-GACATA
* * *
9149768 TCGAATTATGAAAAAGCATGGTGACGACC
60 TC-AATTATGAAAAGGGATGCTGACGACC
* *
9149797 ATCAAATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGAAGGTGACAATGATCAA
1 ATCGAATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATGGTGAC-AT-ATC-A
* *
9149862 ATTATGAAAAGGGATAGCT-TCGACT
63 ATTATGAAAAGGGAT-GCTGACGACC
*
9149887 ATCGAACTATGAAAAGGGAT
1 ATCGAATTATGAAAAGGGAT
9149907 GGTGACAAGC
Statistics
Matches: 160, Mismatches: 26, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
87 2 0.01
88 6 0.04
89 39 0.24
90 101 0.63
91 10 0.06
92 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (87 bp):
ATCGAATTATGAAAAGGGATAGCTTCAGCTATCGAATAATGAAAAGGGATGGTGACATATCAATT
ATGAAAAGGGATGCTGACGACC
Found at i:9156111 original size:12 final size:12
Alignment explanation
Indices: 9156094--9156123 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9156084 TCAGTGAGTT
9156094 ACACGGCCTAGC
1 ACACGGCCTAGC
*
9156106 ACACGGCCTGGC
1 ACACGGCCTAGC
9156118 ACACGG
1 ACACGG
9156124 GCGTGTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:9164822 original size:42 final size:42
Alignment explanation
Indices: 9164751--9164901 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
9164741 ACGACCGAAC
* * **
9164751 CACACGCCCGTGTGCCAGGCCATACAACTCTCGAAATGGCCT
1 CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
* * *
9164793 CACACACCTGTGTGCCAAGCCGTGTAACTCTCAAAATGGCCT
1 CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
* *
9164835 CACACGCCCATGTGCTAAGCCGTGTAACTCTCGAAATGGCCT
1 CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
* *
9164877 CACACGCCCGTGTGTCAAGTCGTGT
1 CACACGCCCGTGTGCCAAGCCGTGT
9164902 GCTAGGTCGT
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (42 bp):
CACACGCCCGTGTGCCAAGCCGTGTAACTCTCGAAATGGCCT
Found at i:9167719 original size:26 final size:26
Alignment explanation
Indices: 9167690--9167789 Score: 112
Period size: 26 Copynumber: 3.8 Consensus size: 26
9167680 CCAATATCGT
* *
9167690 AGCAAAGCTGCCAGTAATAGTAACGC
1 AGCAAAGCTACCAGTAACAGTAACGC
9167716 AGCATAA-CTACCAGTAACAGTAACGC
1 AGCA-AAGCTACCAGTAACAGTAACGC
* *
9167742 AACAGAGCTACCAGTAACAGTAACGC
1 AGCAAAGCTACCAGTAACAGTAACGC
* * * *
9167768 AGTAGAGTTGCCAGTAACAGTA
1 AGCAAAGCTACCAGTAACAGTA
9167790 TTTGTGGCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.02
26 61 0.95
27 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTACCAGTAACAGTAACGC
Found at i:9168051 original size:27 final size:27
Alignment explanation
Indices: 9167966--9168151 Score: 182
Period size: 27 Copynumber: 7.0 Consensus size: 27
9167956 GGGTATAACA
* *
9167966 GTCATTTCACCCTAT-GAGGGTA-TTCC
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* * *
9167992 ATCATTTTACCCTTCGA-AGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
9168018 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
9168045 GTCATTTTACCCTTTG-GAGGTATTTCA
1 GTCATTTTACCCTTCGAG-GGTATTTCG
* *
9168072 GTCATTTAACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
9168099 ATCATTTTACCCTTCAAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
9168126 GTAATTTTATCCTTCAAGGGTATTTC
1 GTCATTTTACCCTTCGAGGGTATTTC
9168152 AATAATTTGT
Statistics
Matches: 131, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
25 4 0.03
26 31 0.24
27 95 0.73
28 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:9172131 original size:23 final size:23
Alignment explanation
Indices: 9172102--9172147 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9172092 TTCCTTCTAG
* *
9172102 TTTCTCAAATTCTTTTTCTCTTT
1 TTTCTCAAATTCTCTTTCACTTT
*
9172125 TTTCTCACATTCTCTTTCACTTT
1 TTTCTCAAATTCTCTTTCACTTT
9172148 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTCTCAAATTCTCTTTCACTTT
Found at i:9172237 original size:21 final size:21
Alignment explanation
Indices: 9172200--9172246 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
9172190 ACTCTTTTTC
*
9172200 TTTTTCATGTTCTTCAATCTA
1 TTTTTCATGTTCTTCAAGCTA
* *
9172221 TTTTT-ATTTTCTCTCAAGCTC
1 TTTTTCATGTTCT-TCAAGCTA
9172242 TTTTT
1 TTTTT
9172247 TTCTAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTCATGTTCTTCAAGCTA
Found at i:9172243 original size:48 final size:45
Alignment explanation
Indices: 9172147--9172246 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 45
9172137 TCTTTCACTT
* *
9172147 TCTTTTTCTTTTTCATTTTCATCTTTTTTTTCTTTTCTCACACAC
1 TCTTTTTCTTTTTCATTTTCATCTTATTTTTATTTTCTCACACAC
*
9172192 TCTTTTTCTTTTTCATGTTCTTCAATC-TATTTTTATTTTCTCTCA-AGC
1 TCTTTTTCTTTTTCA--TT-TTC-ATCTTATTTTTATTTTCTCACACA-C
9172240 TCTTTTT
1 TCTTTTT
9172247 TTCTAGATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
45 15 0.32
47 3 0.06
48 26 0.55
49 3 0.06
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (45 bp):
TCTTTTTCTTTTTCATTTTCATCTTATTTTTATTTTCTCACACAC
Found at i:9172662 original size:14 final size:14
Alignment explanation
Indices: 9172643--9172684 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
9172633 CTTATAGGGT
9172643 TGTGGGTGCTTCAA
1 TGTGGGTGCTTCAA
9172657 TGTGGGTAAG-TTCAA
1 TGTGGGT--GCTTCAA
9172672 TGTGGGTGCTTCA
1 TGTGGGTGCTTCA
9172685 TCGAGTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.04
14 11 0.44
15 12 0.48
16 1 0.04
ACGTcount: A:0.17, C:0.12, G:0.36, T:0.36
Consensus pattern (14 bp):
TGTGGGTGCTTCAA
Found at i:9173322 original size:23 final size:23
Alignment explanation
Indices: 9173296--9173340 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9173286 TCCAAACTCT
*
9173296 TTTTTGAATCACAATTCATTTTC
1 TTTTTGAATCACAATTAATTTTC
*
9173319 TTTTTGAATCTCAATTAATTTT
1 TTTTTGAATCACAATTAATTTT
9173341 TTTAGTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTTGAATCACAATTAATTTTC
Found at i:9183612 original size:20 final size:21
Alignment explanation
Indices: 9183571--9183613 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9183561 GCTACGTAGA
*
9183571 GGGTATGTCACGACATAGGAG
1 GGGTATGTCACGACATACGAG
*
9183592 GGGTATGTCATGACAT-CGAG
1 GGGTATGTCACGACATACGAG
9183612 GG
1 GG
9183614 TAGGTTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.26, C:0.14, G:0.40, T:0.21
Consensus pattern (21 bp):
GGGTATGTCACGACATACGAG
Found at i:9187616 original size:22 final size:22
Alignment explanation
Indices: 9187585--9187626 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9187575 TGCTACGTTC
*
9187585 AGTCCTAGAATCAATTAAATTT
1 AGTCCAAGAATCAATTAAATTT
9187607 AGTCCAAGAATCAATTAAAT
1 AGTCCAAGAATCAATTAAAT
9187627 CATAGCTCTA
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:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
AGTCCAAGAATCAATTAAATTT
Found at i:9191489 original size:17 final size:17
Alignment explanation
Indices: 9191467--9191499 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9191457 CACTATCATT
*
9191467 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
9191484 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
9191500 GTGTACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:9212916 original size:15 final size:16
Alignment explanation
Indices: 9212892--9212921 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9212882 AAAACTAACC
9212892 TTTTTCTTTTCACAAA
1 TTTTTCTTTTCACAAA
9212908 TTTTT-TTTTCACAA
1 TTTTTCTTTTCACAA
9212922 CTTGATATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTCTTTTCACAAA
Found at i:9214882 original size:9 final size:10
Alignment explanation
Indices: 9214835--9214882 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
9214825 TAAAATGTTG
*
9214835 AATTTTAATT
1 AATTTTTATT
9214845 AATTTTATAATT
1 AATTTT-T-ATT
*
9214857 AATTTTGATT
1 AATTTTTATT
9214867 AATTTTTATT
1 AATTTTTATT
9214877 -ATTTTT
1 AATTTTT
9214883 GACAAATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 6 0.18
10 18 0.55
12 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
AATTTTTATT
Found at i:9215073 original size:15 final size:15
Alignment explanation
Indices: 9215055--9215084 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9215045 ATTTAATTTG
9215055 TGTTAAATAAATTAT
1 TGTTAAATAAATTAT
*
9215070 TGTTAATTAAATTAT
1 TGTTAAATAAATTAT
9215085 GAAAAGGGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TGTTAAATAAATTAT
Found at i:9221363 original size:15 final size:15
Alignment explanation
Indices: 9221343--9221376 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9221333 GTATTGTTCC
9221343 TTGATAACACGGTGA
1 TTGATAACACGGTGA
*
9221358 TTGATAACACGGTGT
1 TTGATAACACGGTGA
9221373 TTGA
1 TTGA
9221377 GGCATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:9221684 original size:22 final size:22
Alignment explanation
Indices: 9221659--9221710 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
9221649 AGTGGTTTTC
9221659 ACACGGGCGTGTAAGGGGTTGG
1 ACACGGGCGTGTAAGGGGTTGG
*
9221681 ACACGGGCGTGTAAGGTGTTGG
1 ACACGGGCGTGTAAGGGGTTGG
9221703 ACACGGGC
1 ACACGGGC
9221711 ATGTGGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.46, T:0.17
Consensus pattern (22 bp):
ACACGGGCGTGTAAGGGGTTGG
Found at i:9224235 original size:20 final size:19
Alignment explanation
Indices: 9224205--9224265 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
9224195 GAAGATGAGT
9224205 AACAGAGGCACTGAAGTGCA
1 AACAGAGGCAC-GAAGTGCA
9224225 AAC-GAAGGCAC-AATTGTGCA
1 AACAG-AGGCACGAA--GTGCA
9224245 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCA-CGAAGTGCA
9224265 A
1 A
9224266 TTCTGTACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 28 0.80
21 2 0.06
22 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.10
Consensus pattern (19 bp):
AACAGAGGCACGAAGTGCA
Found at i:9230994 original size:66 final size:66
Alignment explanation
Indices: 9230888--9231021 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 66
9230878 ATTCTGAAGC
* * * * * * *
9230888 TGTAGTTGGAGTTCACCGTATTTTCTTGTTGCCTCTATTTCCCTCGCTGTTGCCTCCATTTTAAG
1 TGTAGTTGGAGTTCACCATATTTTATTGTAGCCTCTATTTCCATCGATGCTGCCTCCACTTTAAG
9230953 T
66 T
* *
9230954 TGTAGTTGGAGTTCATCATATTTTATT-TAAGCCTCTATTTCTATCGATGCTGCCTCCACTTTAA
1 TGTAGTTGGAGTTCACCATATTTTATTGT-AGCCTCTATTTCCATCGATGCTGCCTCCACTTTAA
9231018 GT
65 GT
9231020 TG
1 TG
9231022 AGCAATTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 1 0.02
66 57 0.98
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (66 bp):
TGTAGTTGGAGTTCACCATATTTTATTGTAGCCTCTATTTCCATCGATGCTGCCTCCACTTTAAG
T
Found at i:9237075 original size:13 final size:13
Alignment explanation
Indices: 9237057--9237083 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9237047 TTTAAAGATA
9237057 TTAAATTGATTAT
1 TTAAATTGATTAT
9237070 TTAAATTGATTAT
1 TTAAATTGATTAT
9237083 T
1 T
9237084 CTGGTTTTTT
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTAAATTGATTAT
Found at i:9237706 original size:72 final size:71
Alignment explanation
Indices: 9237555--9237859 Score: 297
Period size: 72 Copynumber: 4.3 Consensus size: 71
9237545 ACATATTACC
* * * ** * * * *
9237555 AAATAAACAATTCTACTTAATATTAAAACTCAATAAATCAAATTAATTTAA-TCTTCTCAAAACA
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTAACT-TTTTAAAAACA
*
9237619 TATAACTT
65 CATAA-TT
* * * * * * * * *
9237627 GAGTAAACGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAATA
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTA-ACTTTTTAAAAACA
9237692 CATAATT
65 CATAATT
** * * * *
9237699 GGATAAACGGTTCTACTTAATATCAAAATTCAATAAATTTAACTAAATTAAATTTTTAAAAACAC
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTAACTTTTTAAAAACAC
9237764 ATAATT
66 ATAATT
** * *
9237770 AAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAAACTTTTTAAAAACA
1 AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATT-AACTTTTTAAAAACA
9237835 CATAATT
65 CATAATT
*
9237842 AAATAAACGAATTTACTT
1 AAATAAACGATTTTACTT
9237860 GATAATTAAT
Statistics
Matches: 188, Mismatches: 42, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
71 58 0.31
72 117 0.62
73 12 0.06
74 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (71 bp):
AAATAAACGATTTTACTTAATATCAAAACTCAATAAATTTAACTAAATTAACTTTTTAAAAACAC
ATAATT
Found at i:9237859 original size:143 final size:145
Alignment explanation
Indices: 9237555--9237859 Score: 332
Period size: 143 Copynumber: 2.1 Consensus size: 145
9237545 ACATATTACC
* * * *
9237555 AAATAAAC-AATTCTACTTAATATTAAAACTCAATAAATCAAATTAATTTAATCTTCTCAAAACA
1 AAATAAACGAATTCTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTAAAAACA
* * * * * * * * **
9237619 TATAACTTGAGTAAACGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTT
66 CATAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAAACTTTT
*
9237684 TAAAAATACATAATT
131 TAAAAACACATAATT
** * * * * *
9237699 GGATAAACG-GTTCTACTTAATATCAAAATTCAATAAATTTAACTAAATTAAAT-TTTTAAAAAC
1 AAATAAACGAATTCTACTTAATATCAAAACTCAATAAA-TCAAATAAATTAAATCTTCTAAAAAC
* * * *
9237762 ACATAA-TTAAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAAACTTT
65 ACATAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAAACTTT
9237826 TTAAAAACACATAATT
130 TTAAAAACACATAATT
9237842 AAATAAACGAATT-TACTT
1 AAATAAACGAATTCTACTT
9237860 GATAATTAAT
Statistics
Matches: 129, Mismatches: 29, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
143 72 0.56
144 46 0.36
145 11 0.09
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (145 bp):
AAATAAACGAATTCTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTAAAAACA
CATAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAAACTTTT
TAAAAACACATAATT
Found at i:9237889 original size:71 final size:70
Alignment explanation
Indices: 9237680--9237859 Score: 202
Period size: 71 Copynumber: 2.5 Consensus size: 70
9237670 TAAAATAGCC
* ** * * * * *
9237680 TTTTTAAAAATACATAATTGGATAAACG-GTTCTACTTAATATCAAAATTCAATAAATTTAACTA
1 TTTTTAAAAACACATAATTAAATAAACGATTTC-ACTT-AGATCAAAACTGAATAAATCTAACTA
9237744 AATTAAA
64 AATTAAA
* * *
9237751 TTTTTAAAAACACATAATTAAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAA
1 TTTTTAAAAACACATAATTAAATAAACGATTTCACTT-AGATCAAAACTGAATAAATCTAACTAA
9237816 ATTAAA
65 ATTAAA
9237822 CTTTTTAAAAACACATAATTAAATAAACGAATTT-ACTT
1 -TTTTTAAAAACACATAATTAAATAAACG-ATTTCACTT
9237860 GATAATTAAT
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 59 0.61
72 34 0.35
73 4 0.04
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (70 bp):
TTTTTAAAAACACATAATTAAATAAACGATTTCACTTAGATCAAAACTGAATAAATCTAACTAAA
TTAAA
Found at i:9238284 original size:23 final size:23
Alignment explanation
Indices: 9238254--9238298 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9238244 AGTTTGCAAG
9238254 TACAGGACAATAAAGGCTTTAAA
1 TACAGGACAATAAAGGCTTTAAA
* *
9238277 TACAGGACAATGACGGCTTTAA
1 TACAGGACAATAAAGGCTTTAA
9238299 CAGTTTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (23 bp):
TACAGGACAATAAAGGCTTTAAA
Found at i:9239895 original size:21 final size:23
Alignment explanation
Indices: 9239870--9239918 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
9239860 ATAACATAAT
*
9239870 AAAAATTAAT-GATA-TAACCCA
1 AAAAATTAATAAATATTAACCCA
9239891 AAAAA-TAATAAATATTAACCCA
1 AAAAATTAATAAATATTAACCCA
9239913 AAAAAT
1 AAAAAT
9239919 AGATGTTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAATAAATATTAACCCA
Found at i:9240100 original size:25 final size:24
Alignment explanation
Indices: 9240043--9240106 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
9240033 TATTGTTTTG
* *
9240043 GGGCAGAAGAGTGTCGACGGTGAT
1 GGGCAGAGGAGTGTCGACGGTAAT
* *
9240067 GCAGTAGAGGAGTGTCGACGGTAAT
1 G-GGCAGAGGAGTGTCGACGGTAAT
9240092 AGGGCAGAGGAGTGT
1 -GGGCAGAGGAGTGT
9240107 TGATGGCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.45, T:0.17
Consensus pattern (24 bp):
GGGCAGAGGAGTGTCGACGGTAAT
Found at i:9240359 original size:40 final size:41
Alignment explanation
Indices: 9240299--9240378 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 41
9240289 TGATACTTTG
* * *
9240299 CGGCATTTTTCTCATAAACGCCGCTATTGGTT-ACCTTTTA
1 CGGCATTTTTCTCATAAACGCCACTACTGCTTGACCTTTTA
*
9240339 CGGCGTTTTTCTCATAAACGCCACTACTGCTTGACCTTTT
1 CGGCATTTTTCTCATAAACGCCACTACTGCTTGACCTTTT
9240379 GTAGCATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.39
Consensus pattern (41 bp):
CGGCATTTTTCTCATAAACGCCACTACTGCTTGACCTTTTA
Found at i:9240389 original size:41 final size:40
Alignment explanation
Indices: 9240301--9240389 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
9240291 ATACTTTGCG
* * * *
9240301 GCATTTTTCTCATAAACGCCGCTATTGGTTACCTTTTACG
1 GCATTTTTCTCATAAACGCCACTACTGCTTACCTTTTACA
* **
9240341 GCGTTTTTCTCATAAACGCCACTACTGCTTGACCTTTTGTA
1 GCATTTTTCTCATAAACGCCACTACTGCTT-ACCTTTTACA
9240382 GCATTTTT
1 GCATTTTT
9240390 TCGTTAGCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (40 bp):
GCATTTTTCTCATAAACGCCACTACTGCTTACCTTTTACA
Found at i:9242081 original size:17 final size:17
Alignment explanation
Indices: 9242059--9242107 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
9242049 AAAAAGGAAT
9242059 AATAAGAATA-AAAACAA
1 AATAAGAA-ACAAAACAA
*
9242076 AATAAGAAACAAAATAA
1 AATAAGAAACAAAACAA
* *
9242093 AATAAAAAATAAAAC
1 AATAAGAAACAAAAC
9242108 TAACTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (17 bp):
AATAAGAAACAAAACAA
Found at i:9242087 original size:12 final size:11
Alignment explanation
Indices: 9242065--9242106 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
9242055 GAATAATAAG
9242065 AATAAAAACAA
1 AATAAAAACAA
9242076 AATAAGAAACAA
1 AATAA-AAACAA
*
9242088 AATAAAATAAAA
1 AATAAAA-ACAA
9242100 AATAAAA
1 AATAAAA
9242107 CTAACTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (11 bp):
AATAAAAACAA
Found at i:9242261 original size:24 final size:24
Alignment explanation
Indices: 9242223--9242357 Score: 87
Period size: 24 Copynumber: 5.7 Consensus size: 24
9242213 AGTTTAAAAA
** * *
9242223 TAAAAATAATGATAATAATAGTGG
1 TAAAAATAAAAATAATAATAATAG
* *
9242247 TAAAAATAAAAATAAAAATATTAG
1 TAAAAATAAAAATAATAATAATAG
* * *
9242271 TAATAATAAAAGTAATAGTAATAG
1 TAAAAATAAAAATAATAATAATAG
* *
9242295 TAATAATAACAATAATAATAA-A-
1 TAAAAATAAAAATAATAATAATAG
* * * * *
9242317 T-ACAATAAGAGTAATAGTAATAT
1 TAAAAATAAAAATAATAATAATAG
9242340 TAAAAAAATAAAAATAAT
1 T--AAAAATAAAAATAAT
9242358 GGTAATACTA
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
21 15 0.17
22 2 0.02
23 2 0.02
24 56 0.65
26 11 0.13
ACGTcount: A:0.63, C:0.01, G:0.08, T:0.27
Consensus pattern (24 bp):
TAAAAATAAAAATAATAATAATAG
Found at i:9242278 original size:12 final size:12
Alignment explanation
Indices: 9242235--9242315 Score: 63
Period size: 12 Copynumber: 6.8 Consensus size: 12
9242225 AAAATAATGA
* *
9242235 TAATAATAGTGG
1 TAATAATAATAG
* * *
9242247 TAAAAATAAAAA
1 TAATAATAATAG
* *
9242259 TAAAAATATTAG
1 TAATAATAATAG
*
9242271 TAATAATAAAAG
1 TAATAATAATAG
*
9242283 TAATAGTAATAG
1 TAATAATAATAG
* *
9242295 TAATAATAACAA
1 TAATAATAATAG
9242307 TAATAATAA
1 TAATAATAA
9242316 ATACAATAAG
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 53 1.00
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.28
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:9242278 original size:18 final size:18
Alignment explanation
Indices: 9242257--9242316 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
9242247 TAAAAATAAA
*
9242257 AATAAAAATATTAGTAAT
1 AATAAAAATAATAGTAAT
*
9242275 AATAAAAGTAATAGTAAT
1 AATAAAAATAATAGTAAT
* * * *
9242293 AGTAATAATAACAATAAT
1 AATAAAAATAATAGTAAT
9242311 AATAAA
1 AATAAA
9242317 TACAATAAGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (18 bp):
AATAAAAATAATAGTAAT
Found at i:9242570 original size:6 final size:6
Alignment explanation
Indices: 9242561--9242593 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
9242551 ATAGCAATAT
*
9242561 TAAAAA TAAAAA TAAAAA TAAAAG TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA
9242594 TGGTAATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:9242636 original size:237 final size:241
Alignment explanation
Indices: 9242343--9242788 Score: 729
Period size: 237 Copynumber: 1.9 Consensus size: 241
9242333 GTAATATTAA
9242343 AAAAATAAAAATAATGGTAATACTATTAAAATTAATTAATTTAATAGCAAAAATGACAAAAATGA
1 AAAAATAAAAATAATGGTAATACTATTAAAATTAATTAATTTAATAGCAAAAATGACAAAAATGA
* *
9242408 CTAATTTGAACTTAAAACAGAAATTTG-GGGGCAAATATGCAAATAAAT-AAA-AAA-GGACCAA
66 CTAATTTGAACTTAAAACAAAAATTTGAGGGGCAAATACGCAAATAAATAAAAGAAAGGGACCAA
* *
9242469 AACGAGTGCACGAATAATAAGGAGGGACTAAAGGAGAAAATATCCCTGCCCTCCAAAACGCAGTG
131 AACGAGTGCACGAATAATAAGGAGGGACTAAAGGAGAAAATATCCCTGCCCTCCAAAACACAGCG
9242534 CTTTACACGGGACAATAATAGCAATATTAAAAATAAAAATAAAAAT
196 CTTTACACGGGACAATAATAGCAATATTAAAAATAAAAATAAAAAT
* *
9242580 AAAAGTAAAAATAATGGTAATACTATTGAAATTAATTAATTTAATAGCAAAAATGACAAAAATGA
1 AAAAATAAAAATAATGGTAATACTATTAAAATTAATTAATTTAATAGCAAAAATGACAAAAATGA
* *
9242645 CTAATTTGAACTTAAAACAAAAATTTGAGGGGCAAATCCGTAAATAAATAAAAAGAAAGGGACCA
66 CTAATTTGAACTTAAAACAAAAATTTGAGGGGCAAATACGCAAATAAAT-AAAAGAAAGGGACCA
* * * *
9242710 AAATGAGTGCGCGAATAATAAGGAGGGACTAAAGGGGAAAATATCCCTGCTCTCCAAAACACAGC
130 AAACGAGTGCACGAATAATAAGGAGGGACTAAAGGAGAAAATATCCCTGCCCTCCAAAACACAGC
**
9242775 GCTTTGTACGGGAC
195 GCTTTACACGGGAC
9242789 TCAAATGAAA
Statistics
Matches: 190, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
237 89 0.47
238 18 0.09
240 3 0.02
241 3 0.02
242 77 0.41
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (241 bp):
AAAAATAAAAATAATGGTAATACTATTAAAATTAATTAATTTAATAGCAAAAATGACAAAAATGA
CTAATTTGAACTTAAAACAAAAATTTGAGGGGCAAATACGCAAATAAATAAAAGAAAGGGACCAA
AACGAGTGCACGAATAATAAGGAGGGACTAAAGGAGAAAATATCCCTGCCCTCCAAAACACAGCG
CTTTACACGGGACAATAATAGCAATATTAAAAATAAAAATAAAAAT
Found at i:9252591 original size:22 final size:22
Alignment explanation
Indices: 9252564--9252615 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
9252554 GGACATGCCA
9252564 CCACTGATTTATAGATAAACTG
1 CCACTGATTTATAGATAAACTG
*
9252586 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTATAGATAAACTG
9252608 CCACTGAT
1 CCACTGAT
9252616 AACACTGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (22 bp):
CCACTGATTTATAGATAAACTG
Found at i:9255359 original size:50 final size:53
Alignment explanation
Indices: 9255277--9255423 Score: 203
Period size: 56 Copynumber: 2.8 Consensus size: 53
9255267 NNNNNNNNNA
*
9255277 AGGATGCCAATGCCATGTCCCAGACATGGTCTTACCATGGGAGC-CTC-ATCTC
1 AGGATGCCAATGCCATGTCCCAGACATGGTCTTA-CATGGGACCTCTCAATCTC
* *
9255329 -GG-TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTC
1 AGGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA--ATCTC
9255382 AAGGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -AGGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
9255424 TCTTTTTACC
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
49 7 0.08
50 32 0.39
51 2 0.02
53 5 0.06
55 2 0.02
56 35 0.42
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.23
Consensus pattern (53 bp):
AGGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAATCTC
Found at i:9262874 original size:319 final size:318
Alignment explanation
Indices: 9262295--9262931 Score: 1238
Period size: 319 Copynumber: 2.0 Consensus size: 318
9262285 TGTGTGTGAT
9262295 GGCAATGATTATGAAAATGGTATCTTGATGAGTAGTTTGACTTGTATGTTTGTTTGCTTAAATGC
1 GGCAATGATTATGAAAATGGTATCTTGATGAGTAGTTTGACTTGTATGTTTGTTTGCTTAAATGC
9262360 TTACTAGATGATGTACCAAGGAATAGGTGGGTAAAGGTGATTTATTGTAACGCCCTTAACCCGAC
66 TTACTAGATGATGTACCAAGGAATAGGTGGGTAAAGGTGATTTATTGTAACGCCCTTAACCCGAC
9262425 TTGATTCGTCAGGTCCAGATCTCGGGTGTTACTACACACAATACTTATCAATTTTGCAAAAAATT
131 TTGATTCGTCAGGTCCAGATCTCGGGTGTTACTACACACAATACTTATCAATTTTGCAAAAAATT
9262490 TACAAACTTCCATCTAATTATTTTAATTAACAAACTTTAATCTCTCTAATTATTTTAAAACAGCT
196 TACAAACTTCCATCTAATTATTTTAATTAACAAACTTTAATCTCTCTAATTATTTTAAAACAGCT
* *
9262555 AAAAGAAAGGTTTTTAATTTTTATTTTTAATAAATAGGATGATACCAACTAATATATAC
261 AAAAGAAAGGTTTTTAATTTTTA-TTTTAATAAATAGAATGATAACAACTAATATATAC
9262614 GGCAATGATTATGAAAATGGTATCTTGATGAGTAGTTTGACTTGTATGTTTGTTTGCTTAAATGC
1 GGCAATGATTATGAAAATGGTATCTTGATGAGTAGTTTGACTTGTATGTTTGTTTGCTTAAATGC
9262679 TTACTAGATGATGTACCAAGGAATAGGTGGGTAAAGGTGATTTATTGTAACGCCCTTAACCCGAC
66 TTACTAGATGATGTACCAAGGAATAGGTGGGTAAAGGTGATTTATTGTAACGCCCTTAACCCGAC
9262744 TTGATTCGTCAGGTCCAGATCTCGGGTGTTACTACACACAATACTTATCAATTTTGCAAAAAATT
131 TTGATTCGTCAGGTCCAGATCTCGGGTGTTACTACACACAATACTTATCAATTTTGCAAAAAATT
9262809 TACAAACTTCCATCTAATTATTTTAATTAACAAACTTTAATCTCTCTAATTATTTTAAAACAGCT
196 TACAAACTTCCATCTAATTATTTTAATTAACAAACTTTAATCTCTCTAATTATTTTAAAACAGCT
*
9262874 AAAAGAAAGGTTTTTAATTTTTATTTTAATAAATAGAATGATAAGAACTAATATATAC
261 AAAAGAAAGGTTTTTAATTTTTATTTTAATAAATAGAATGATAACAACTAATATATAC
9262932 TTATATTTTA
Statistics
Matches: 315, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
318 32 0.10
319 283 0.90
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (318 bp):
GGCAATGATTATGAAAATGGTATCTTGATGAGTAGTTTGACTTGTATGTTTGTTTGCTTAAATGC
TTACTAGATGATGTACCAAGGAATAGGTGGGTAAAGGTGATTTATTGTAACGCCCTTAACCCGAC
TTGATTCGTCAGGTCCAGATCTCGGGTGTTACTACACACAATACTTATCAATTTTGCAAAAAATT
TACAAACTTCCATCTAATTATTTTAATTAACAAACTTTAATCTCTCTAATTATTTTAAAACAGCT
AAAAGAAAGGTTTTTAATTTTTATTTTAATAAATAGAATGATAACAACTAATATATAC
Found at i:9264473 original size:40 final size:40
Alignment explanation
Indices: 9264423--9264588 Score: 224
Period size: 40 Copynumber: 4.2 Consensus size: 40
9264413 GAGTTACAGG
* * * * * *
9264423 AGTATAAATAGGGGCACGTAAGTGCTTTTAGGGGTCCCGT
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
* * *
9264463 AGTACAAATAGGGGCACGTATGTGCATTTCGGGGTACTGA
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
* *
9264503 AGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
*
9264543 AGTACAAACATGGGCACGTATGTGCATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
9264583 AGTACA
1 AGTACA
9264589 GGGGCAAGTA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
Found at i:9267845 original size:25 final size:25
Alignment explanation
Indices: 9267817--9267870 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
9267807 TGTAGTGGTA
9267817 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
* * *
9267842 AGGTGGTGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
9267867 AGGT
1 AGGT
9267871 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.48, T:0.19
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:9269414 original size:27 final size:27
Alignment explanation
Indices: 9269370--9269584 Score: 256
Period size: 27 Copynumber: 8.0 Consensus size: 27
9269360 TGTTCGAATG
*
9269370 ATCGAAATACCCTTGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
*
9269397 ATCAAAATACCCTCGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
*
9269424 A-CAAAAATACTCC-CGAAGGGTAAAATT
1 ATC-GAAATAC-CCTCGAAGGGTAAAATT
* *
9269451 ATCGAAATACCCCCGAAAGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* * *
9269478 ATTGAAATAACCTTGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* *
9269505 ACCGAAATACTCTCGAAGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* *
9269532 ATAGAAATACCCTCGATGGGTAAAATT
1 ATCGAAATACCCTCGAAGGGTAAAATT
* *
9269559 ATCGAATTACCC-CTGTAGGGTAAAAT
1 ATCGAAATACCCTC-GAAGGGTAAAAT
9269585 GATTGTAATG
Statistics
Matches: 161, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 4 0.02
27 154 0.96
28 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (27 bp):
ATCGAAATACCCTCGAAGGGTAAAATT
Found at i:9269505 original size:81 final size:81
Alignment explanation
Indices: 9269370--9269584 Score: 295
Period size: 81 Copynumber: 2.7 Consensus size: 81
9269360 TGTTCGAATG
* * *
9269370 ATCGAAATACCCTTGAAGGGTAAAATTATCAAAATACCCTCGAAGGGTAAAATTACAAAAATACT
1 ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACAAAAATACT
9269435 CCCGAAGGGTAAAATT
66 CCCGAAGGGTAAAATT
* * * * **
9269451 ATCGAAATACCCCCGAAAGGTAAAATTATTGAAATAACCTTGAAGGGTAAAATTACCGAAATACT
1 ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACAAAAATACT
*
9269516 CTCGAAGGGTAAAATT
66 CCCGAAGGGTAAAATT
* * * * *
9269532 ATAGAAATACCCTCGATGGGTAAAATTATCGAATTACCCCTGTAGGGTAAAAT
1 ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAAT
9269585 GATTGTAATG
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 115 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (81 bp):
ATCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACAAAAATACT
CCCGAAGGGTAAAATT
Found at i:9269607 original size:54 final size:53
Alignment explanation
Indices: 9269373--9269609 Score: 235
Period size: 54 Copynumber: 4.4 Consensus size: 53
9269363 TCGAATGATC
* **
9269373 GAAATACCCTTGAAGGGTAAAATTATCAAAATA-CCCTCGAAGGGTAAAATTACA
1 GAAATACCC-TGAAGGGTAAAATTATCGAAATACCCCT-GAAGGGTAAAATTATT
* * * *
9269427 AAAATACTCCCGAAGGGTAAAATTATCGAAATACCCCCGAAAGGTAAAATTATT
1 GAAATAC-CCTGAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATT
* * * *
9269481 GAAATAACCTTGAAGGGTAAAATTACCGAAATA-CTCTCGAAGGGTAAAATTATA
1 GAAAT-ACCCTGAAGGGTAAAATTATCGAAATACCCCT-GAAGGGTAAAATTATT
* * * *
9269535 GAAATACCCTCGATGGGTAAAATTATCGAATTACCCCTGTAGGGTAAAATGATT
1 GAAATACCCT-GAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATT
* * *
9269589 GTAATGCCCCTAAAGGGTAAA
1 GAAAT-ACCCTGAAGGGTAAA
9269610 TAACTGTTTT
Statistics
Matches: 149, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
53 6 0.04
54 129 0.87
55 14 0.09
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (53 bp):
GAAATACCCTGAAGGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATT
Found at i:9269677 original size:24 final size:24
Alignment explanation
Indices: 9269630--9269702 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
9269620 GCCCCTCGAG
* *
9269630 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCTGTGA
*
9269654 TGTAAATGACTGATTTGTTTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
9269678 TTGGT--ATGACTGATTTGTCTGTGA
1 -T-GTAAATGACTGATTTGTCTGTGA
9269702 T
1 T
9269703 TTATAAGACA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
23 1 0.02
24 39 0.91
25 1 0.02
26 2 0.05
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.45
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCTGTGA
Found at i:9269716 original size:24 final size:24
Alignment explanation
Indices: 9269640--9269716 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
9269630 TGTAAATGAT
* *
9269640 TGATTTGTCCGTGATGTA-AATGAC
1 TGATTTGTCTGTGATTTATAA-GAC
* ** *
9269664 TGATTTGTTTGTGATTGGTATGAC
1 TGATTTGTCTGTGATTTATAAGAC
9269688 TGATTTGTCTGTGATTTATAAGAC
1 TGATTTGTCTGTGATTTATAAGAC
*
9269712 AGATT
1 TGATT
9269717 CTGAGCATGG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (24 bp):
TGATTTGTCTGTGATTTATAAGAC
Found at i:9274915 original size:20 final size:20
Alignment explanation
Indices: 9274890--9275058 Score: 70
Period size: 20 Copynumber: 8.4 Consensus size: 20
9274880 GGAGTATAAA
*
9274890 CAGGGGCACGGAAGTGCATT
1 CAGGGGCACCGAAGTGCATT
* * ** **
9274910 CAGGGGTACCAAAGTATAAA
1 CAGGGGCACCGAAGTGCATT
*
9274930 CAGGGGCA-CGTATGTGCATT
1 CAGGGGCACCG-AAGTGCATT
* * * * **
9274950 TAGGGGTACTGAAGTACAAA
1 CAGGGGCACCGAAGTGCATT
** *
9274970 CAGGGGCACATATGTGCATT
1 CAGGGGCACCGAAGTGCATT
* * * **
9274990 AAGGGGTACCGAAGTACAAA
1 CAGGGGCACCGAAGTGCATT
** *
9275010 CAGGGGCACATATGTGCATT
1 CAGGGGCACCGAAGTGCATT
* **
9275030 CAGGGGTACCGAAGTGCAAA
1 CAGGGGCACCGAAGTGCATT
9275050 CAGGGGCAC
1 CAGGGGCAC
9275059 GTATGTGCAT
Statistics
Matches: 95, Mismatches: 52, Indels: 4
0.63 0.34 0.03
Matches are distributed among these distances:
19 1 0.01
20 93 0.98
21 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.33, T:0.17
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCATT
Found at i:9275066 original size:20 final size:20
Alignment explanation
Indices: 9274927--9275067 Score: 74
Period size: 20 Copynumber: 7.0 Consensus size: 20
9274917 ACCAAAGTAT
9274927 AAACAGGGGCACGTATGTGC
1 AAACAGGGGCACGTATGTGC
*** * * *
9274947 ATTTAGGGGTAC-TGAAGTAC
1 AAACAGGGGCACGT-ATGTGC
*
9274967 AAACAGGGGCACATATGTGC
1 AAACAGGGGCACGTATGTGC
* * * *
9274987 ATTA-AGGGGTACCG-AAGTAC
1 A-AACAGGGGCA-CGTATGTGC
*
9275007 AAACAGGGGCACATATGTGC
1 AAACAGGGGCACGTATGTGC
** * *
9275027 ATTCAGGGGTACCG-AAGTGC
1 AAACAGGGGCA-CGTATGTGC
9275047 AAACAGGGGCACGTATGTGC
1 AAACAGGGGCACGTATGTGC
9275067 A
1 A
9275068 TTTAGGGGTA
Statistics
Matches: 82, Mismatches: 31, Indels: 16
0.64 0.24 0.12
Matches are distributed among these distances:
19 5 0.06
20 73 0.89
21 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (20 bp):
AAACAGGGGCACGTATGTGC
Found at i:9275100 original size:120 final size:120
Alignment explanation
Indices: 9274882--9275189 Score: 526
Period size: 120 Copynumber: 2.6 Consensus size: 120
9274872 GAGTTACTGG
* ** * *
9274882 AGTATAAACAGGGGCACGGAAGTGCATTCAGGGGTACCAAAGTATAAACAGGGGCACGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
9274947 ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
66 ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
* *
9275002 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGTGCAAACAGGGGCACGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
* *
9275067 ATTTAGGGGTACTGAAGTACGAACAGGGGCACATATGTGCATTAAGGGTTACCGA
66 ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
*
9275122 AGTACAAACAGGGGCACATATGTGCATTCATGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
9275187 ATT
66 ATT
9275190 CATTAAATAA
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 176 1.00
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (120 bp):
AGTACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
ATTTAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCATTAAGGGGTACCGA
Found at i:9275114 original size:20 final size:20
Alignment explanation
Indices: 9274971--9275114 Score: 55
Period size: 20 Copynumber: 7.2 Consensus size: 20
9274961 AAGTACAAAC
9274971 AGGGGCACATATGTGCATTA
1 AGGGGCACATATGTGCATTA
* ** * * *
9274991 AGGGGTACCGAAGTACA-AA
1 AGGGGCACATATGTGCATTA
*
9275010 CAGGGGCACATATGTGCATTC
1 -AGGGGCACATATGTGCATTA
* ** * *
9275031 AGGGGTACCGAAGTGCA-AA
1 AGGGGCACATATGTGCATTA
* *
9275050 CAGGGGCACGTATGTGCATTT
1 -AGGGGCACATATGTGCATTA
* * *
9275071 AGGGGTAC-TGAAGTACGA--A
1 AGGGGCACAT-ATGTGC-ATTA
9275090 CAGGGGCACATATGTGCATTA
1 -AGGGGCACATATGTGCATTA
9275111 AGGG
1 AGGG
9275115 TTACCGAAGT
Statistics
Matches: 82, Mismatches: 32, Indels: 20
0.61 0.24 0.15
Matches are distributed among these distances:
19 3 0.04
20 76 0.93
21 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (20 bp):
AGGGGCACATATGTGCATTA
Done.