Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 58 of 163
Found at i:19125702 original size:203 final size:204
Alignment explanation
Indices: 19125343--19125749 Score: 807
Period size: 203 Copynumber: 2.0 Consensus size: 204
19125333 TCAACTATGG
19125343 TCCAACCAATTGCTTTCTTGAATTTCTTTAGAACAATAATTAGTTGTTCCTCTTGATCTTTTGTC
1 TCCAACCAATTGCTTTCTTGAATTTCTTTAGAACAATAATTAGTTGTTCCTCTTGATCTTTTGTC
19125408 AGTTCCGCTGAAATAATCACAGTTAAAGTAGAACAATCACCTAAATAAATGTATTTCAAATGGGA
66 AGTTCCGCTGAAATAATCACAGTTAAAGTAGAACAATCACCTAAATAAATGTATTTCAAATGGGA
19125473 AGGAAGTACCTTTAGTTCGAGTTTAGGTGGTTCTTCAATTGGCAACTTGGGTTGCACAAATTTTC
131 AGGAAGTACCTTTAGTTCGAGTTTAGGTGGTTCTTCAATTGGCAACTTGGGTTGCACAAATTTTC
19125538 TGACCTCCA
196 TGACCTCCA
19125547 TCCAACCAA-TGCTTTCTTGAATTTCTTTAGAACAATAATTAGTTGTTCCTCTTGATCTTTTGTC
1 TCCAACCAATTGCTTTCTTGAATTTCTTTAGAACAATAATTAGTTGTTCCTCTTGATCTTTTGTC
19125611 AGTTCCGCTGAAATAATCACAGTTAAAGTAGAACAATCACCTAAATAAATGTATTTCAAATGGGA
66 AGTTCCGCTGAAATAATCACAGTTAAAGTAGAACAATCACCTAAATAAATGTATTTCAAATGGGA
19125676 AGGAAGTACCTTTAGTTCGAGTTTAGGTGGTTCTTCAATTGGCAACTTGGGTTGCACAAATTTTC
131 AGGAAGTACCTTTAGTTCGAGTTTAGGTGGTTCTTCAATTGGCAACTTGGGTTGCACAAATTTTC
19125741 TGACCTCCA
196 TGACCTCCA
19125750 ACTCCAACGA
Statistics
Matches: 203, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
203 194 0.96
204 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (204 bp):
TCCAACCAATTGCTTTCTTGAATTTCTTTAGAACAATAATTAGTTGTTCCTCTTGATCTTTTGTC
AGTTCCGCTGAAATAATCACAGTTAAAGTAGAACAATCACCTAAATAAATGTATTTCAAATGGGA
AGGAAGTACCTTTAGTTCGAGTTTAGGTGGTTCTTCAATTGGCAACTTGGGTTGCACAAATTTTC
TGACCTCCA
Found at i:19135634 original size:42 final size:42
Alignment explanation
Indices: 19135571--19135663 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
19135561 CTCAAATATG
* * *
19135571 GGCCGTGTACCCTTCGTAATAACCCCATATGCCCGTGTGCTA
1 GGCCGTGTACCCTTCGGAATAACCCCATACGCCCGTGTGCCA
*
19135613 GGCCGTGTACCCTTTGGAATAACCCCATACGCCCGTGTGCCA
1 GGCCGTGTACCCTTCGGAATAACCCCATACGCCCGTGTGCCA
*
19135655 GGTCGTGTA
1 GGCCGTGTA
19135664 ATAGCCTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.32, G:0.25, T:0.25
Consensus pattern (42 bp):
GGCCGTGTACCCTTCGGAATAACCCCATACGCCCGTGTGCCA
Found at i:19135766 original size:43 final size:43
Alignment explanation
Indices: 19135709--19135819 Score: 177
Period size: 43 Copynumber: 2.6 Consensus size: 43
19135699 GACACACGAC
*
19135709 CACGGCTAAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
1 CACGGCTGAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
* * *
19135752 CACGGTTGAGACACACGACCATGTCACCTAGCCGTGTGTGACA
1 CACGGCTGAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
*
19135795 CACGGCTGAGACACACGTCCGTGTC
1 CACGGCTGAGACACACGACCGTGTC
19135820 TCTGACTGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.17
Consensus pattern (43 bp):
CACGGCTGAGACACACGACCGTGTCACCTAGCCGTGTGTCACA
Found at i:19140279 original size:7 final size:7
Alignment explanation
Indices: 19140269--19140300 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
19140259 CATATGTCAT
19140269 ATATCAC
1 ATATCAC
19140276 ATATCAC
1 ATATCAC
19140283 ATATCAC
1 ATATCAC
19140290 ATATCAC
1 ATATCAC
19140297 ATAT
1 ATAT
19140301 TGATTGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (7 bp):
ATATCAC
Found at i:19142341 original size:4 final size:4
Alignment explanation
Indices: 19142332--19142359 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
19142322 GGGATTCCAT
19142332 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
19142360 GGGAATACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:19146457 original size:50 final size:50
Alignment explanation
Indices: 19146308--19146597 Score: 343
Period size: 50 Copynumber: 5.8 Consensus size: 50
19146298 GATAATAACA
* ** * *
19146308 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** *
19146357 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * * *
19146407 TGCCCATGTCATGTCCTAGACATGGTCTTACAGGGGACCTCTCTTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19146457 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
19146507 TGCCAACGCCATGTCCCAAACATGGTCTTATATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19146557 TGCC-ACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19146598 TTACCCAAAT
Statistics
Matches: 208, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
48 1 0.00
49 73 0.35
50 134 0.64
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19146578 original size:149 final size:149
Alignment explanation
Indices: 19146308--19146597 Score: 359
Period size: 149 Copynumber: 1.9 Consensus size: 149
19146298 GATAATAACA
** * * *
19146308 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTACTACCAATGCCATATCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTACTACCAACGCCATATCC
* * ** * * * *
19146373 CAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGTCCTAGACATGGTCTTAC
66 CAAACATGGTCTTACATGGGACCTCTCATATCAGTGCCCACGCCATGTCCCAGACATGGTCTTAC
19146438 AGGGGACCTCTCTTCTCGG
131 AGGGGACCTCTCTTCTCGG
* * * *
19146457 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC--TACCAACGCCATAT
* *
19146521 CCCAAACATGGTCTTATATGGGACCTCTCATCTCAGTG-CCACGCCATGTCCCAGACATGGTCTT
64 CCCAAACATGGTCTTACATGGGACCTCTCATATCAGTGCCCACGCCATGTCCCAGACATGGTCTT
* *
19146585 ACATGGGATCTCT
129 ACAGGGGACCTCT
19146598 TTACCCAAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
148 1 0.01
149 75 0.64
150 42 0.36
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (149 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTACTACCAACGCCATATCC
CAAACATGGTCTTACATGGGACCTCTCATATCAGTGCCCACGCCATGTCCCAGACATGGTCTTAC
AGGGGACCTCTCTTCTCGG
Found at i:19153852 original size:17 final size:17
Alignment explanation
Indices: 19153830--19153864 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19153820 ATGATAATAA
19153830 CATGCCAAAACCATGTC
1 CATGCCAAAACCATGTC
*
19153847 CATGCCAAAGCCATGTC
1 CATGCCAAAACCATGTC
19153864 C
1 C
19153865 CAGACATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.17
Consensus pattern (17 bp):
CATGCCAAAACCATGTC
Found at i:19153966 original size:50 final size:50
Alignment explanation
Indices: 19153849--19154139 Score: 304
Period size: 50 Copynumber: 5.8 Consensus size: 50
19153839 ACCATGTCCA
* * * ** * *
19153849 TGCCAAAGCCATGTCCCAGACATTGTCTTACATAGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* ** * ** *
19153898 TACCAATGCCACATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
19153948 TGCCCATGCCATGTCCCAGACATGGTATTAC-TGGGGACCTCTCTTCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTCATCTCGG
* *
19153998 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGCCCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19154048 TGCCAGCATG--ATGTCCAAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCA--ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
19154098 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19154140 TTACCCAAAT
Statistics
Matches: 200, Mismatches: 34, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.01
49 37 0.19
50 157 0.79
51 1 0.00
52 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19160426 original size:21 final size:22
Alignment explanation
Indices: 19160402--19160447 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
19160392 TAACCCAAAC
*
19160402 TAAACTAAATTAAATT-AAAAT
1 TAAAATAAATTAAATTAAAAAT
* *
19160423 TAAAATTAATTATATTAAAAAT
1 TAAAATAAATTAAATTAAAAAT
19160445 TAA
1 TAA
19160448 TATTCATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAATAAATTAAATTAAAAAT
Found at i:19168216 original size:27 final size:25
Alignment explanation
Indices: 19168186--19168253 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
19168176 GTTCTGACCT
*
19168186 ACAGCTCGTGTGAGCAGGCTCATTTTC
1 ACAGCTCGTGTGAGCAGGCT-A-ATTC
* **
19168213 ACAGCTTGTGTGAGCATTCTAATTC
1 ACAGCTCGTGTGAGCAGGCTAATTC
*
19168238 ACAGCTCGTATGAGCA
1 ACAGCTCGTGTGAGCA
19168254 TACATGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 17 0.49
26 1 0.03
27 17 0.49
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCAGGCTAATTC
Found at i:19171585 original size:25 final size:25
Alignment explanation
Indices: 19171557--19171642 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
19171547 TATGCTCATA
19171557 CGAGCTATGAATCGGTATGTTCACT
1 CGAGCTATGAATCGGTATGTTCACT
* *
19171582 CGAGCTGT-AGATCAGTATGCTCTCA-T
1 CGAGCTATGA-ATCGGTATG-T-TCACT
* * * *
19171608 -GAGCTATAAACCGGTATGCTCTCT
1 CGAGCTATGAATCGGTATGTTCACT
19171632 CGAGCTATGAA
1 CGAGCTATGAA
19171643 GTATCCGCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 37 0.79
26 3 0.06
27 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
CGAGCTATGAATCGGTATGTTCACT
Found at i:19171799 original size:17 final size:18
Alignment explanation
Indices: 19171774--19171807 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19171764 CAACCATGTA
*
19171774 AATTTATAAA-AATTCAC
1 AATTCATAAATAATTCAC
19171791 AATTCATAAATAATTCA
1 AATTCATAAATAATTCA
19171808 ATATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTCATAAATAATTCAC
Found at i:19181733 original size:23 final size:22
Alignment explanation
Indices: 19181690--19181733 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
19181680 TGAGAACCGG
* *
19181690 CTAAATTGTAGCCCTGATACCA
1 CTAAAATGTAGCCCTCATACCA
*
19181712 CTAAAATGTAGCACCTCTTACC
1 CTAAAATGTAGC-CCTCATACC
19181734 CATATTCATC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (22 bp):
CTAAAATGTAGCCCTCATACCA
Found at i:19183158 original size:51 final size:49
Alignment explanation
Indices: 19183040--19183220 Score: 204
Period size: 51 Copynumber: 3.6 Consensus size: 49
19183030 TCGATATACG
* * * *
19183040 TAGTAGCCTTCATATAGTACTACACATGTGATC-AAGTTTTACGGTCCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTT-CGGTACAC
*
19183089 TAGTAGCCTCCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACAC
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTTCGGTACAC
* * * *
19183139 ATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACAC
1 -TAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTT-TCGGTACAC
*
19183190 GTGGTAGCCTTCACATAGTACTACACACGTG
1 -TAGTAGCCTTCACATAGTACTACACACGTG
19183221 TTCATCAATA
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 29 0.26
50 13 0.12
51 70 0.62
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (49 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCGGTACAC
Found at i:19190744 original size:9 final size:9
Alignment explanation
Indices: 19190730--19190755 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19190720 AAATTAAATA
19190730 ACCAAAAGT
1 ACCAAAAGT
19190739 ACCAAAAGT
1 ACCAAAAGT
19190748 ACCAAAAG
1 ACCAAAAG
19190756 AGTCGATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.23, G:0.12, T:0.08
Consensus pattern (9 bp):
ACCAAAAGT
Found at i:19192280 original size:37 final size:37
Alignment explanation
Indices: 19192230--19192304 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
19192220 CCACTAACTC
* *
19192230 ATAAATGGTCTAATTACCATGTAAGGATCTCCAATTT
1 ATAAATGGTCTAATTACCATATAAGGACCTCCAATTT
19192267 ATAAATGGTCTAATTACCATATAAGGACCTCCAATTT
1 ATAAATGGTCTAATTACCATATAAGGACCTCCAATTT
19192304 A
1 A
19192305 AAGTTCCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (37 bp):
ATAAATGGTCTAATTACCATATAAGGACCTCCAATTT
Found at i:19192941 original size:22 final size:21
Alignment explanation
Indices: 19192909--19192950 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
19192899 TTGGTATTTA
19192909 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
19192930 GGAATTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAAATGGTA
19192951 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:19193997 original size:30 final size:30
Alignment explanation
Indices: 19193939--19193997 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
19193929 TTGAAAAGGT
* *
19193939 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
19193969 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
19193998 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:19196546 original size:14 final size:14
Alignment explanation
Indices: 19196529--19196574 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
19196519 TTGGGAATTT
19196529 AGAATAAAAAATCG
1 AGAATAAAAAATCG
*
19196543 AGAATAAAAAATTG
1 AGAATAAAAAATCG
* * *
19196557 AGAACAATAAGTCG
1 AGAATAAAAAATCG
19196571 AGAA
1 AGAA
19196575 CAATAAGTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.61, C:0.07, G:0.17, T:0.15
Consensus pattern (14 bp):
AGAATAAAAAATCG
Found at i:19196575 original size:14 final size:14
Alignment explanation
Indices: 19196556--19196582 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19196546 ATAAAAAATT
19196556 GAGAACAATAAGTC
1 GAGAACAATAAGTC
19196570 GAGAACAATAAGT
1 GAGAACAATAAGT
19196583 TGAAAGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (14 bp):
GAGAACAATAAGTC
Found at i:19198532 original size:26 final size:26
Alignment explanation
Indices: 19198450--19198532 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
19198440 AAAAAAGTTT
*
19198450 AAAAG-TTTTGGGGGAAAGCAAAAGGAA
1 AAAAGTTTTTGGGGAAAAGCAAAA-G-A
*** *** *
19198477 AAAAGTTTTTGGGGTTTAGGGGAAGT
1 AAAAGTTTTTGGGGAAAAGCAAAAGA
*
19198503 AAAAGTTTTTGGGGAAAAGTAAAAGA
1 AAAAGTTTTTGGGGAAAAGCAAAAGA
19198529 AAAA
1 AAAA
19198533 AAGTTTTGGG
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
26 23 0.56
27 6 0.15
28 12 0.29
ACGTcount: A:0.45, C:0.01, G:0.31, T:0.23
Consensus pattern (26 bp):
AAAAGTTTTTGGGGAAAAGCAAAAGA
Found at i:19198537 original size:54 final size:54
Alignment explanation
Indices: 19198449--19198566 Score: 170
Period size: 54 Copynumber: 2.2 Consensus size: 54
19198439 AAAAAAAGTT
* * *
19198449 TAAAAG-TTTTGGGGGAAAGCAAAAGGAAAAAAGTTTT-TGGGGTTTAGGGGAAG
1 TAAAAGTTTTTGGGGAAAAGCAAAAGAAAAAAAGTTTTGGGGGGTTT-GGGGAAG
*
19198502 TAAAAGTTTTTGGGGAAAAGTAAAAGAAAAAAAGTTTTGGGGGGTTTGGGGAAG
1 TAAAAGTTTTTGGGGAAAAGCAAAAGAAAAAAAGTTTTGGGGGGTTTGGGGAAG
19198556 TAAAA-TTTTTG
1 TAAAAGTTTTTG
19198567 AGGGGAAGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 12 0.20
54 40 0.68
55 7 0.12
ACGTcount: A:0.38, C:0.01, G:0.33, T:0.28
Consensus pattern (54 bp):
TAAAAGTTTTTGGGGAAAAGCAAAAGAAAAAAAGTTTTGGGGGGTTTGGGGAAG
Found at i:19198584 original size:20 final size:19
Alignment explanation
Indices: 19198549--19198599 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
19198539 TGGGGGGTTT
*
19198549 GGGGAAGTAAAATTTTTGA
1 GGGGAAGTAAAATTTTGGA
19198568 GGGGAAGTAACAATTTTGGA
1 GGGGAAGTAA-AATTTTGGA
*
19198588 GTGGAAGTAAAA
1 GGGGAAGTAAAA
19198600 GAAAAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.39, C:0.02, G:0.33, T:0.25
Consensus pattern (19 bp):
GGGGAAGTAAAATTTTGGA
Found at i:19199232 original size:23 final size:22
Alignment explanation
Indices: 19199202--19199244 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
19199192 AAAAAAATCG
*
19199202 AATTGATTTGATTAACTCGATT
1 AATTGATTTGAATAACTCGATT
*
19199224 AATTCGATTTGAATAATTCGA
1 AATT-GATTTGAATAACTCGA
19199245 AATTTGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (22 bp):
AATTGATTTGAATAACTCGATT
Found at i:19200966 original size:29 final size:29
Alignment explanation
Indices: 19200923--19200979 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
19200913 TTACGTCAAC
* *
19200923 TATGGTTAAATTTTAATTTTATAAAATTG
1 TATGGTAAAAATTTAATTTTATAAAATTG
19200952 TATGGTAAAAATTTAATTTTATAAAATT
1 TATGGTAAAAATTTAATTTTATAAAATT
19200980 AATCAAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (29 bp):
TATGGTAAAAATTTAATTTTATAAAATTG
Found at i:19200979 original size:15 final size:15
Alignment explanation
Indices: 19200929--19200979 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
19200919 CAACTATGGT
*
19200929 TAAATTTTAATTTTA
1 TAAAATTTAATTTTA
**
19200944 TAAAATTGT-ATGGTA
1 TAAAATT-TAATTTTA
19200959 -AAAATTTAATTTTA
1 TAAAATTTAATTTTA
19200973 TAAAATT
1 TAAAATT
19200980 AATCAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
TAAAATTTAATTTTA
Found at i:19206575 original size:7 final size:7
Alignment explanation
Indices: 19206565--19206594 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
19206555 AGAAGATAAT
19206565 TTCTTGG
1 TTCTTGG
19206572 TTCTTGG
1 TTCTTGG
19206579 TTCTTGG
1 TTCTTGG
19206586 TTCTTGG
1 TTCTTGG
19206593 TT
1 TT
19206595 AGAACTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.27, T:0.60
Consensus pattern (7 bp):
TTCTTGG
Found at i:19207747 original size:51 final size:52
Alignment explanation
Indices: 19207687--19207802 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 52
19207677 TCCTCTCTAA
19207687 TCCTCTCAATTTCCTTCCAAAA-TTCTCTCAAACCCATATTTAATGTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTTCTCTCAAACCCATATTTAATGTCAATT
* * *
19207738 TCCTCTCAATTTCCTTCCAAAATTTCTCTCAAATCCATATTTAATTTTAATT
1 TCCTCTCAATTTCCTTCCAAAATTTCTCTCAAACCCATATTTAATGTCAATT
* *
19207790 TCCCCTAAATTTC
1 TCCTCTCAATTTC
19207803 ATTTTTTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
51 22 0.37
52 37 0.63
ACGTcount: A:0.28, C:0.28, G:0.01, T:0.42
Consensus pattern (52 bp):
TCCTCTCAATTTCCTTCCAAAATTTCTCTCAAACCCATATTTAATGTCAATT
Found at i:19207831 original size:10 final size:10
Alignment explanation
Indices: 19207803--19207868 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
19207793 CCTAAATTTC
19207803 ATTTTTTTAAA
1 ATTTTTTT-AA
**
19207814 ATAATTTTAA
1 ATTTTTTTAA
*
19207824 ATTTTTTTAT
1 ATTTTTTTAA
*
19207834 ATTTTTTAAA
1 ATTTTTTTAA
**
19207844 ATAATTTTAA
1 ATTTTTTTAA
*
19207854 ATTTTTTTAT
1 ATTTTTTTAA
19207864 ATTTT
1 ATTTT
19207869 CATCAATGGC
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
10 36 0.86
11 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:19207839 original size:30 final size:30
Alignment explanation
Indices: 19207805--19207868 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
19207795 TAAATTTCAT
19207805 TTTTTTAAAATAATTTTAAATTTTTTTATA
1 TTTTTTAAAATAATTTTAAATTTTTTTATA
19207835 TTTTTTAAAATAATTTTAAATTTTTTTATA
1 TTTTTTAAAATAATTTTAAATTTTTTTATA
19207865 TTTT
1 TTTT
19207869 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTTTAAAATAATTTTAAATTTTTTTATA
Found at i:19208948 original size:7 final size:7
Alignment explanation
Indices: 19208936--19208960 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19208926 AGTCGATTGA
19208936 TATTTAG
1 TATTTAG
19208943 TATTTAG
1 TATTTAG
19208950 TATTTAG
1 TATTTAG
19208957 TATT
1 TATT
19208961 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:19209633 original size:18 final size:18
Alignment explanation
Indices: 19209607--19209641 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19209597 AGGTGTGTTT
* *
19209607 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
19209625 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
19209642 TCCTTTTCCG
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:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:19210364 original size:29 final size:29
Alignment explanation
Indices: 19210322--19210378 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
19210312 NNNNNNNACT
19210322 CTAACCTAATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
19210351 CTAACCTAATTTAATTAAAAACCCTAAC
1 CTAACCTAATTTAATTAAAAACCCTAAC
19210379 TTAATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
CTAACCTAATTTAATTAAAAACCCTAACC
Found at i:19210382 original size:18 final size:18
Alignment explanation
Indices: 19210355--19210443 Score: 93
Period size: 18 Copynumber: 5.3 Consensus size: 18
19210345 CTAACCCTAA
*
19210355 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
19210373 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
19210391 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
19210402 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
19210420 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
19210438 CCTAAC
1 CCTAAC
19210444 CCTAACCTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
11 5 0.09
12 2 0.04
14 1 0.02
15 1 0.02
17 2 0.04
18 46 0.81
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:19210395 original size:47 final size:47
Alignment explanation
Indices: 19210326--19210472 Score: 276
Period size: 47 Copynumber: 3.1 Consensus size: 47
19210316 NNNACTCTAA
*
19210326 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
19210373 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
19210420 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
19210467 CCTAAC
1 CCTAAC
19210473 ACTAACCTAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
Found at i:19210452 original size:29 final size:29
Alignment explanation
Indices: 19210420--19210482 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
19210410 AATTAAAAAC
*
19210420 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACACTAA
19210449 CCTAACTTAATTAAAAACCCTAACACTAA
1 CCTAACTTAATTAAAAACCCTAACACTAA
19210478 CCTAA
1 CCTAA
19210483 TTTTACATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACACTAA
Found at i:19210545 original size:55 final size:55
Alignment explanation
Indices: 19210480--19210671 Score: 357
Period size: 55 Copynumber: 3.5 Consensus size: 55
19210470 AACACTAACC
*
19210480 TAATTTTACATAATTTGGTAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
* *
19210535 TAAGTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
19210590 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
19210645 TAATTTTACATAATTTGATAATTTTAC
1 TAATTTTACATAATTTGATAATTTTAC
19210672 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 132 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
Found at i:19214085 original size:125 final size:123
Alignment explanation
Indices: 19213808--19214120 Score: 520
Period size: 125 Copynumber: 2.5 Consensus size: 123
19213798 NNNNNNNNNN
19213808 GATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAGGCGATTTTATACTATTTGCTCAGAAAC
1 GATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAGGCGATTTTATACTATTTGCTCAGAAAC
* *
19213873 GTCAAAAAAATTATTTCTTACATGACCTACTGTAGCAAAATCGCGTCCACGAGGGTGC
66 GTCAAAAAAATTATTTCTTACATGACCTACTATAGCAAAATCGCGTCCACGAGGGCGC
19213931 GATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAGGCGATTTTATACTATTTGCTCAGAAAC
1 GATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAGGCGATTTTATACTATTTGCTCAGAAAC
* *
19213996 GTCAAAAAAAAATTATTTTTTACATGACCTACTATAGCAAAATCGCGTCCAGGAGGGCGC
66 GTC--AAAAAAATTATTTCTTACATGACCTACTATAGCAAAATCGCGTCCACGAGGGCGC
* * * *
19214056 GATTTCATAATTTCTTCTCAAATATCATCCTGGTAGAAGCGATTATATACTATTTGAC-CAGAAA
1 GATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAGGCGATTTTATACTATTTG-CTCAGAAA
19214120 C
65 C
19214121 ACCAACTCGA
Statistics
Matches: 179, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
123 68 0.38
125 110 0.61
126 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (123 bp):
GATTTCACAATTTCTTCTCAAATAACATCCTGGTAGAGGCGATTTTATACTATTTGCTCAGAAAC
GTCAAAAAAATTATTTCTTACATGACCTACTATAGCAAAATCGCGTCCACGAGGGCGC
Found at i:19214402 original size:28 final size:28
Alignment explanation
Indices: 19214341--19214403 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
19214331 CGCAATTTCC
19214341 TGAAAAATGGCCCATTCCGGTAAATAAT
1 TGAAAAATGGCCCATTCCGGTAAATAAT
** * *
19214369 CAAAAAATCGGCCCATTTCGGTAAAT-TT
1 TGAAAAAT-GGCCCATTCCGGTAAATAAT
19214397 TGAAAAA
1 TGAAAAA
19214404 AAACGGCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (28 bp):
TGAAAAATGGCCCATTCCGGTAAATAAT
Found at i:19216928 original size:5 final size:5
Alignment explanation
Indices: 19216918--19216990 Score: 83
Period size: 5 Copynumber: 14.6 Consensus size: 5
19216908 ATATATATAT
* * * * *
19216918 ATTCC ATTCC ATACC ATTCC ATTCC ATACT ATTCC ATTTC ATACC ATTCC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
* *
19216968 ATTTC ATACC ATTCC ATTCC ATT
1 ATTCC ATTCC ATTCC ATTCC ATT
19216991 TCATCAAGCT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCC
Found at i:19216938 original size:15 final size:15
Alignment explanation
Indices: 19216918--19216989 Score: 117
Period size: 15 Copynumber: 4.8 Consensus size: 15
19216908 ATATATATAT
19216918 ATTCCATTCCATACC
1 ATTCCATTCCATACC
*
19216933 ATTCCATTCCATACT
1 ATTCCATTCCATACC
*
19216948 ATTCCATTTCATACC
1 ATTCCATTCCATACC
*
19216963 ATTCCATTTCATACC
1 ATTCCATTCCATACC
19216978 ATTCCATTCCAT
1 ATTCCATTCCAT
19216990 TTCATCAAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:19217956 original size:50 final size:50
Alignment explanation
Indices: 19217894--19218182 Score: 271
Period size: 51 Copynumber: 5.7 Consensus size: 50
19217884 TCATTCGATA
19217894 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAT-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CAATCTTTTACGGTT
* *
19217944 CACGTAATAGCCTTCACATAGTACTACACACGTGATCAA-GTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CAATCTTTTACGGTT
* * *
19217994 CACATAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGAC-AAT-CTTTTACGGTT
* * * * * * * **
19218045 CACATAGTAGTCTTCACTTAGTACAACACATGTGACCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACAATCTTTTA-CGGTT
* * * * *
19218096 CATGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-C-AATCTTTTACGGTT
** * * *
19218147 CATATTGTAGCCTTCACTTAGTACTACACATGTGAC
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGAC
19218183 CATTATTTAT
Statistics
Matches: 196, Mismatches: 35, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
49 5 0.03
50 85 0.43
51 97 0.49
52 5 0.03
53 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACAATCTTTTACGGTT
Found at i:19218130 original size:102 final size:102
Alignment explanation
Indices: 19217894--19218193 Score: 347
Period size: 102 Copynumber: 3.0 Consensus size: 102
19217884 TCATTCGATA
* * *
19217894 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-TCAAT--TTTTACGGTTCACGTAATAGCC
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACT-AATGCTTTT-CGGTACACATAGTAGCC
* * * *** **
19217956 TTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTT
64 TTCACTTAGTACTACACATGTGACCATCATTTATCAATT
* * *
19217994 CACATAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTTTCGGTACACATAGTAGTCTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACTAATGCTTTTCGGTACACATAGTAGCCTT
*
19218059 CACTTAGTACAACACATGTGACCATCATTTATCAATT
66 CACTTAGTACTACACATGTGACCATCATTTATCAATT
* * * * * * *
19218096 CATGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGTAGCCTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACTAATGCTTTTCGGTACACATAGTAGCCTT
*
19218161 CACTTAGTACTACACATGTGACCATTATTTATC
66 CACTTAGTACTACACATGTGACCATCATTTATC
19218194 GATTACCATT
Statistics
Matches: 169, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
100 36 0.21
101 40 0.24
102 93 0.55
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACTAATGCTTTTCGGTACACATAGTAGCCTT
CACTTAGTACTACACATGTGACCATCATTTATCAATT
Found at i:19218576 original size:37 final size:37
Alignment explanation
Indices: 19218526--19218602 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
19218516 ATTCTCATGA
19218526 AACACGTTTACTAACTTTCCAAATCACTAATCAATTT
1 AACACGTTTACTAACTTTCCAAATCACTAATCAATTT
*
19218563 AACACTTTTACTAACTTTCCAAATCACTAATCAATTT
1 AACACGTTTACTAACTTTCCAAATCACTAATCAATTT
19218600 AAC
1 AAC
19218603 TCTATAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.35
Consensus pattern (37 bp):
AACACGTTTACTAACTTTCCAAATCACTAATCAATTT
Found at i:19219718 original size:18 final size:19
Alignment explanation
Indices: 19219690--19219725 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19219680 CTAATATTTC
*
19219690 TTCCAAAACTATTTTTACT
1 TTCCAAAACTATTATTACT
19219709 TTCC-AAACTATTATTAC
1 TTCCAAAACTATTATTAC
19219726 CTCTGTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCCAAAACTATTATTACT
Found at i:19221260 original size:5 final size:5
Alignment explanation
Indices: 19221250--19221312 Score: 81
Period size: 5 Copynumber: 12.6 Consensus size: 5
19221240 TCATATATAT
* * * * *
19221250 ATTCC ATTCC ATACC ATTCC ATTCC ATACT ATTCC ATTTC ATACC ATTCC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
19221300 ATTCC ATTCC ATT
1 ATTCC ATTCC ATT
19221313 TCATCAAGCA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCC
Found at i:19221270 original size:15 final size:15
Alignment explanation
Indices: 19221250--19221312 Score: 99
Period size: 15 Copynumber: 4.2 Consensus size: 15
19221240 TCATATATAT
19221250 ATTCCATTCCATACC
1 ATTCCATTCCATACC
*
19221265 ATTCCATTCCATACT
1 ATTCCATTCCATACC
*
19221280 ATTCCATTTCATACC
1 ATTCCATTCCATACC
*
19221295 ATTCCATTCCATTCC
1 ATTCCATTCCATACC
19221310 ATT
1 ATT
19221313 TCATCAAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:19222394 original size:51 final size:50
Alignment explanation
Indices: 19222222--19222658 Score: 389
Period size: 51 Copynumber: 8.6 Consensus size: 50
19222212 TCGATACATG
* *
19222222 TAGTAGCCTTCACATAGTGCTACACACGTGA-TCAAT-TTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACT-AATGTTTT-CGGTTCACA
*
19222272 TAATAGCCTTCACATAGTACTACACACGTGA-TCAA-GTTTTGCGGTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACT-AATGTTTT-CGGTTCACA
* * *
19222322 TAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTTTCTGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACTAATG-TTTTCGGTTCACA
* * *
19222373 TAGTAGCCTTCACTTAGTACTACACATGTGATTAA-GTTTTGCGGTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACTAATGTTTT-CGGTTCACA
* * * * *
19222423 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACATA
1 TAGTAGCCTTCACATAGTACTACACACGTGACTAATG-TTTTCGGTTCACA
* * * * * * * * *
19222474 TTGGAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACTAATGTTT-TCGGTTCACA
* * * * * *
19222525 TAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATA
1 TAGTAGCCTTCACATAGTACTACACACGTGACTAATG-TTTTCGGTTCACA
* * * * * * * *
19222576 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACTAATGTTT-TCGGTTCACA
* * *
19222627 TAGTTGCCTTCACACAATACTACACACGTGAC
1 TAGTAGCCTTCACATAGTACTACACACGTGAC
19222659 CAACACTTTC
Statistics
Matches: 313, Mismatches: 64, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
49 4 0.01
50 119 0.38
51 181 0.58
52 9 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACTAATGTTTTCGGTTCACA
Found at i:19222410 original size:101 final size:101
Alignment explanation
Indices: 19222222--19222661 Score: 491
Period size: 102 Copynumber: 4.3 Consensus size: 101
19222212 TCGATACATG
* * * * * * *
19222222 TAGTAGCCTTCACATAGTGCTACACACGTGATC-AA-TTTTTACGGTTCACGTAATAGCCTTCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAGTAGCCTTCAC
* * *
19222285 ATAGTACTACACACGTGATCAAGTTTTGCGGTTCACA
65 TTAGTACTACACATGTGATTAAGTTTTGCGGTTCACA
* * * * *
19222322 TAGTAGCCTTCACATAGTACTACATACGTGACTAATGCTTTTCTGTACACATAGTAGCCTTCACT
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACT
19222387 TAGTACTACACATGTGATTAAGTTTTGCGGTTCACA
66 TAGTACTACACATGTGATTAAGTTTTGCGGTTCACA
* * *
19222423 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGGAGCCTTCACT
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACT
* *
19222488 TAGTACTACACATGTGACCATT-A-TTTAT-CGATTCACG
66 TAGTACTACACATGTG---ATTAAGTTT-TGCGGTTCACA
* * *
19222525 TAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGTAGCCTTCACT
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACT
* *
19222590 TAGTACTACACATGTGACCATT-A-TTTAT-CGATTCACG
66 TAGTACTACACATGTG---ATTAAGTTT-TGCGGTTCACA
* * *
19222627 TAGTTGCCTTCACACAATACTACACACGTGACCAA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAA
19222662 CACTTTCACT
Statistics
Matches: 307, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
100 29 0.09
101 126 0.41
102 147 0.48
103 2 0.01
104 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACT
TAGTACTACACATGTGATTAAGTTTTGCGGTTCACA
Found at i:19222555 original size:102 final size:103
Alignment explanation
Indices: 19222275--19222661 Score: 513
Period size: 102 Copynumber: 3.8 Consensus size: 103
19222265 GTTCACGTAA
* * * * *
19222275 TAGCCTTCACATAGTACTACACACGTGATCA--AGTTTTGCGGTTCACATAGTAGCCTTCACATA
1 TAGCCTTCACTTAGTACTACACATGTGACCATTAGTTTTGCGATTCACATAGTAGCCTTCACACA
* * * * * * *
19222338 GTACTACATACGTGACTAATGCTTTTCTGTACACATAG
66 GTACTACACACGTGACCAAAGCTTCTCGGTACATATTG
* *
19222376 TAGCCTTCACTTAGTACTACACATGTG---ATTAAGTTTTGCGGTTCACATAGTAGCCTTCACAT
1 TAGCCTTCACTTAGTACTACACATGTGACCATT-AGTTTTGCGATTCACATAGTAGCCTTCACAC
19222438 AGTACTACACACGTGACCAAAGCTTCTCGGTACATATTG
65 AGTACTACACACGTGACCAAAGCTTCTCGGTACATATTG
* *
19222477 GAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT-CGATTCACGTAGTAGCCTTCACAC
1 TAGCCTTCACTTAGTACTACACATGTGACCATTAGTTT-TGCGATTCACATAGTAGCCTTCACAC
19222540 AGTACTACACACGTGACCAAAGCTTCTCGGTACATATTG
65 AGTACTACACACGTGACCAAAGCTTCTCGGTACATATTG
* *
19222579 TAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT-CGATTCACGTAGTTGCCTTCACAC
1 TAGCCTTCACTTAGTACTACACATGTGACCATTAGTTT-TGCGATTCACATAGTAGCCTTCACAC
*
19222642 AATACTACACACGTGACCAA
65 AGTACTACACACGTGACCAA
19222662 CACTTTCACT
Statistics
Matches: 263, Mismatches: 16, Indels: 13
0.90 0.05 0.04
Matches are distributed among these distances:
98 1 0.00
101 114 0.43
102 143 0.54
103 2 0.01
104 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (103 bp):
TAGCCTTCACTTAGTACTACACATGTGACCATTAGTTTTGCGATTCACATAGTAGCCTTCACACA
GTACTACACACGTGACCAAAGCTTCTCGGTACATATTG
Found at i:19229975 original size:19 final size:20
Alignment explanation
Indices: 19229951--19229991 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
19229941 CATGCAGATT
19229951 AAATAAACAAAA-AAATAAA
1 AAATAAACAAAACAAATAAA
*
19229970 AAATAAATAAAACCAAATAAA
1 AAATAAACAAAA-CAAATAAA
19229991 A
1 A
19229992 TAAAATTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (20 bp):
AAATAAACAAAACAAATAAA
Found at i:19238245 original size:44 final size:44
Alignment explanation
Indices: 19238118--19238589 Score: 520
Period size: 44 Copynumber: 10.8 Consensus size: 44
19238108 TTTATTAGCG
* *
19238118 TGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
* * * * * *
19238162 GGAAATAGATCAAAGAT-GCAGATCTTGTCTTCATGTATTGGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
*
19238205 TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
* * * * * *
19238249 GGAAATAGATCAAAGAT-GCAGATCTTGTCTTCATGTATTGGTG
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
* * *
19238292 TGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
* * * *
19238336 GGAAGTGGATCGAAGAT-GCAGATCTTATCTTCCTATATTGGTGG
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGT-A
* * * * *
19238380 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
* * *
19238424 TGAAGTAGATCGAAAATAGTAGGTCTTGTCTTCCTATATTGGTA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
* * * * *
19238468 GGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGT-A
* * * *
19238512 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
* * *
19238556 TGAAGTAGATCGAAAATAGCAAATCTTGCCTTCC
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCC
19238590 AGCACCGACA
Statistics
Matches: 348, Mismatches: 74, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
43 115 0.33
44 192 0.55
45 41 0.12
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (44 bp):
TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTA
Found at i:19238264 original size:87 final size:87
Alignment explanation
Indices: 19238118--19238576 Score: 544
Period size: 87 Copynumber: 5.2 Consensus size: 87
19238108 TTTATTAGCG
* *
19238118 TGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAATAGATCAAAGATGCAG
1 TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAG
19238183 ATCTTGTCTTCATGTATTGGCA
66 ATCTTGTCTTCATGTATTGGCA
*
19238205 TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAATAGATCAAAGATGCAG
1 TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAG
**
19238270 ATCTTGTCTTCATGTATTGGTG
66 ATCTTGTCTTCATGTATTGGCA
* * * *
19238292 TGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAG
1 TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAG
* * * **
19238357 ATCTTATCTTCCTATATTGGTGG
66 ATCTTGTCTTCATGTATTGG-CA
* * * * * * * *
19238380 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAA-ATAGT
1 TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATC-AAAGAT-GC
* * * *
19238444 AGGTCTTGTCTTCCTATATTGGTA
64 AGATCTTGTCTTCATGTATTGGCA
* * * * * * * *
19238468 GGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
1 TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTAGATCAAAG-ATGC
19238532 AGATCTTGTCTTCATGTATTGGCA
64 AGATCTTGTCTTCATGTATTGGCA
*
19238556 TGAAGTAGATCGAAAATAGCA
1 TGAAGTAGATCGAAGATAGCA
19238577 AATCTTGCCT
Statistics
Matches: 317, Mismatches: 48, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
87 183 0.58
88 107 0.34
89 27 0.09
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (87 bp):
TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAG
ATCTTGTCTTCATGTATTGGCA
Found at i:19238583 original size:132 final size:132
Alignment explanation
Indices: 19238117--19238589 Score: 614
Period size: 132 Copynumber: 3.6 Consensus size: 132
19238107 ATTTATTAGC
* * * * * * * *
19238117 GTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAATAGATCAAAGAT-GC
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGC
* * * * * *
19238181 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
66 AGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCTATATTG
*
19238246 GTA
130 GTG
* * * **
19238249 G-GAAATAGATCAAAG-ATGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGC
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGC
* * *
19238312 AGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCTATATTGG
66 AGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATTGG
19238377 TG
131 TG
*
19238379 GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAA-ATAG
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC-AAAGATAG
* * * *
19238443 TAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTG
65 CAGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATTG
19238508 GTG
130 GTG
19238511 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAA-ATAG
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC-AAAGATAG
* *
19238575 CAAATCTTGCCTTCC
65 CAGATCTTGTCTTCC
19238590 AGCACCGACA
Statistics
Matches: 301, Mismatches: 36, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
130 60 0.20
131 60 0.20
132 178 0.59
133 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (132 bp):
GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGC
AGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATTGG
TG
Found at i:19238810 original size:44 final size:43
Alignment explanation
Indices: 19238714--19238942 Score: 110
Period size: 44 Copynumber: 5.2 Consensus size: 43
19238704 ACCTCAGCCC
* * * *
19238714 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGT-GAATT
1 TATCTCCCTGGACAACAGTGGAATAGATTGAAGATTGTAG-ATT
*
19238757 CTA-CTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCT
1 -TATC-TCCCTGGACAACAGTGGAATAGATTGAAGATTGTAGAT-T
* ** ** * * **
19238802 TATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTGGA-CAACAGTGGAATAGATTGAAGATTGTAGA-TT
* *** * * ***
19238846 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCCGTA-ATT
1 TATCTCCCTG-GACAACAGTGGAATAGATTGAAGATTGTAGATT
19238889 CTA-CTTCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCT
1 -TATC-TCCCTGGACAACAGTGGAATAGATTGAAGATTGT-AGAT-T
19238934 TATCTCCCT
1 TATCTCCCT
19238943 AAGCAGTAGT
Statistics
Matches: 133, Mismatches: 38, Indels: 28
0.67 0.19 0.14
Matches are distributed among these distances:
42 1 0.01
43 24 0.18
44 87 0.65
45 21 0.16
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TATCTCCCTGGACAACAGTGGAATAGATTGAAGATTGTAGATT
Found at i:19239088 original size:132 final size:132
Alignment explanation
Indices: 19238753--19239073 Score: 529
Period size: 132 Copynumber: 2.4 Consensus size: 132
19238743 AAAGATTGTG
*
19238753 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTAAGATCTTATCTCCCTAAGCAGT
* * *
19238818 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCC
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA
19238883 GT
131 GT
*
19238885 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTAAGATCTTATCTCCCTAAGCAGT
19238950 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA
66 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA
19239015 GT
131 GT
* * * * *
19239017 AATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGGTATAAG-TCTTATCTCCCT
1 AATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATTTAAGATCTTATCTCCCT
19239074 GAAGTTGCAG
Statistics
Matches: 178, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
131 13 0.07
132 165 0.93
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (132 bp):
AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTAAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA
GT
Found at i:19239295 original size:4 final size:4
Alignment explanation
Indices: 19239286--19239316 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
19239276 CCATGCAGAT
19239286 TAAA TAAA TAAA TAAA TAAA -AAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
19239317 ACCAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:19239311 original size:11 final size:11
Alignment explanation
Indices: 19239286--19239317 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
19239276 CCATGCAGAT
19239286 TAAATAAATAAA
1 TAAATAAA-AAA
19239298 TAAATAAAAAA
1 TAAATAAAAAA
19239309 TAAATAAAA
1 TAAATAAAA
19239318 CCAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
TAAATAAAAAA
Found at i:19241970 original size:29 final size:29
Alignment explanation
Indices: 19241937--19241995 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
19241927 TAAAAGCTAC
19241937 ATGAATG-CATG-AAATAGATAAAAATCAAA
1 ATGAATGACATGAAAATAG--AAAAATCAAA
19241966 ATGAATGATCATGAAAATAGAAAAATCAAA
1 ATGAATGA-CATGAAAATAGAAAAATCAAA
19241996 GCTTGGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.26
30 10 0.37
31 4 0.15
32 6 0.22
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (29 bp):
ATGAATGACATGAAAATAGAAAAATCAAA
Found at i:19261588 original size:43 final size:42
Alignment explanation
Indices: 19261484--19261655 Score: 204
Period size: 43 Copynumber: 4.0 Consensus size: 42
19261474 AAATGCCACA
* *
19261484 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAATGCCGTT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAACGCCGCT
* * *
19261526 AAAAATCATGTT-TTATAGCGGTGTTTGTAGTAAAACCACCGCT
1 AAAGATCATGTTCTT-TAGCGGCGTTTGTAGTAAAA-CGCCGCT
* * *
19261569 AAAGATCATGTTCTTTAGCGGCATTTGTTGTAAAAGCGTCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAA-CGCCGCT
* *
19261612 AAAGACCATGTTCTATAGCGGCGTTTGTGAG-AAAACGCCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGT-AGTAAAACGCCGCT
19261654 AA
1 AA
19261656 CATTAATAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.02
42 38 0.35
43 66 0.61
44 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAACGCCGCT
Found at i:19261653 original size:85 final size:85
Alignment explanation
Indices: 19261484--19261655 Score: 224
Period size: 85 Copynumber: 2.0 Consensus size: 85
19261474 AAATGCCACA
* * * * *
19261484 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAATGCCGTTAAAAATCATGTTTTATAGCGGTG
1 AAAGATCATGTTCTTTAGCGGCATTTGTAGTAAAATGCCGCTAAAAACCATGTTCTATAGCGGCG
19261549 TTTGTAGTAAAACCACCGCT
66 TTTGTAGTAAAACCACCGCT
* *
19261569 AAAGATCATGTTCTTTAGCGGCATTTGTTGTAAAA-GCGTCGCTAAAGACCATGTTCTATAGCGG
1 AAAGATCATGTTCTTTAGCGGCATTTGTAGTAAAATGC--CGCTAAAAACCATGTTCTATAGCGG
*
19261633 CGTTTGTGAG-AAAA-CGCCGCT
64 CGTTTGT-AGTAAAACCACCGCT
19261654 AA
1 AA
19261656 CATTAATAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 2 0.03
85 41 0.54
86 31 0.41
87 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (85 bp):
AAAGATCATGTTCTTTAGCGGCATTTGTAGTAAAATGCCGCTAAAAACCATGTTCTATAGCGGCG
TTTGTAGTAAAACCACCGCT
Found at i:19263018 original size:15 final size:16
Alignment explanation
Indices: 19262998--19263027 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19262988 GGTCTCTCCA
19262998 TTTCTTTAC-TAATTC
1 TTTCTTTACATAATTC
19263013 TTTCTTTACATAATT
1 TTTCTTTACATAATT
19263028 ATCCTAGACC
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):
TTTCTTTACATAATTC
Found at i:19264235 original size:32 final size:32
Alignment explanation
Indices: 19264199--19264259 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
19264189 GAATTCTTTA
19264199 CTTCTGTTCTTTCATGGAGGACCAGTGTTTTG
1 CTTCTGTTCTTTCATGGAGGACCAGTGTTTTG
19264231 CTTCTGTTCTTTCATGGAGGACCAGTGTT
1 CTTCTGTTCTTTCATGGAGGACCAGTGTT
19264260 CTTTCATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.13, C:0.20, G:0.25, T:0.43
Consensus pattern (32 bp):
CTTCTGTTCTTTCATGGAGGACCAGTGTTTTG
Found at i:19264261 original size:21 final size:21
Alignment explanation
Indices: 19264235--19264275 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
19264225 GTTTTGCTTC
19264235 TGTTCTTTCATGGAGGACCAG
1 TGTTCTTTCATGGAGGACCAG
19264256 TGTTCTTTCATGGAGGACCA
1 TGTTCTTTCATGGAGGACCA
19264276 AACTTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTTCTTTCATGGAGGACCAG
Found at i:19265839 original size:20 final size:20
Alignment explanation
Indices: 19265814--19265853 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19265804 AATATTTTCC
*
19265814 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
19265834 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19265854 TCATTTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19267225 original size:27 final size:27
Alignment explanation
Indices: 19267187--19267421 Score: 317
Period size: 27 Copynumber: 8.6 Consensus size: 27
19267177 ATTTTTGGGC
*
19267187 AAATGACCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
*
19267214 AAATGACCGAATTACCCCCGAGGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
*
19267241 AAATGACCGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
*
19267268 AAATGACCGAATTACCCCCCGAAGGTTA
1 AAATGACCGAATTA-CCCCCGAAGGGTA
* *
19267296 AAATGATCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
* *
19267323 AAATGACCGAATTATCCTCGAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTA
* * *
19267350 AAATGACTGAATTACCCCCAAAGGTTA
1 AAATGACCGAATTACCCCCGAAGGGTA
**
19267377 AAATGACTAAATTACCCCCCGAAGGGTA
1 AAATGACCGAATTA-CCCCCGAAGGGTA
* *
19267405 AAATGACCAAAATACCC
1 AAATGACCGAATTACCC
19267422 TTGTAAGGTA
Statistics
Matches: 183, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 136 0.74
28 47 0.26
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCGAAGGGTA
Found at i:19267323 original size:82 final size:80
Alignment explanation
Indices: 19267187--19267440 Score: 348
Period size: 82 Copynumber: 3.1 Consensus size: 80
19267177 ATTTTTGGGC
* *
19267187 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCGAATTACCCCCGAGGGGTAAAATGACCGAA
1 AAATGACCGAATTACCCCCAAAGGTTAAAATGA-CGAATTACCCCCGAAGGGTAAAATGACCGAA
19267252 TTACCCTCGAAGGGTA
65 TTACCCTCGAAGGGTA
* *
19267268 AAATGACCGAATTACCCCCCGAAGGTTAAAATGATCGAATTACCCCCAAAGGGTAAAATGACCGA
1 AAATGACCGAATTA-CCCCCAAAGGTTAAAATGA-CGAATTACCCCCGAAGGGTAAAATGACCGA
*
19267333 ATTATCCTCGAAGGGTA
64 ATTACCCTCGAAGGGTA
* * *
19267350 AAATGACTGAATTACCCCCAAAGGTTAAAATGACTAAATTACCCCCCGAAGGGTAAAATGACCAA
1 AAATGACCGAATTACCCCCAAAGGTTAAAATGAC-GAATTA-CCCCCGAAGGGTAAAATGACCGA
* *
19267415 AATACCCTTGTAA-GGTA
64 ATTACCCTCG-AAGGGTA
*
19267432 GAATGACCG
1 AAATGACCG
19267441 TAATGCCCCT
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
80 1 0.01
81 37 0.24
82 113 0.74
83 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (80 bp):
AAATGACCGAATTACCCCCAAAGGTTAAAATGACGAATTACCCCCGAAGGGTAAAATGACCGAAT
TACCCTCGAAGGGTA
Found at i:19267379 original size:109 final size:109
Alignment explanation
Indices: 19267187--19267421 Score: 353
Period size: 109 Copynumber: 2.2 Consensus size: 109
19267177 ATTTTTGGGC
*
19267187 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCGAATTACCCCCGAGGGGTAAAATGACCGAA
1 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACCGAA
* * * *
19267252 TTACCCTCGAAGGGTAAAATGACCGAATTACCCCCCGAAGGTTA
66 TTACCCCCAAAGGGTAAAATGACCAAATTACCCCCCGAAGGGTA
* * * *
19267296 AAATGATCGAATTACCCCCAAAGGGTAAAATGACCGAATTATCCTCGAAGGGTAAAATGACTGAA
1 AAATGACCGAATTACCCCCAAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACCGAA
* *
19267361 TTACCCCCAAAGGTTAAAATGACTAAATTACCCCCCGAAGGGTA
66 TTACCCCCAAAGGGTAAAATGACCAAATTACCCCCCGAAGGGTA
* *
19267405 AAATGACCAAAATACCC
1 AAATGACCGAATTACCC
19267422 TTGTAAGGTA
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
109 112 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (109 bp):
AAATGACCGAATTACCCCCAAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACCGAA
TTACCCCCAAAGGGTAAAATGACCAAATTACCCCCCGAAGGGTA
Found at i:19267494 original size:25 final size:24
Alignment explanation
Indices: 19267447--19267495 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19267437 ACCGTAATGC
* *
19267447 CCCTTGAGGGTAAATGACTATTTG
1 CCCTCGAGGGTAAATGACGATTTG
*
19267471 CCCTCGAGGTTAAATGATCGATTTG
1 CCCTCGAGGGTAAATGA-CGATTTG
19267496 TCTGTGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (24 bp):
CCCTCGAGGGTAAATGACGATTTG
Found at i:19267509 original size:24 final size:24
Alignment explanation
Indices: 19267482--19267550 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
19267472 CCTCGAGGTT
19267482 AAATGATCGATTTGTCTGTGATGA
1 AAATGATCGATTTGTCTGTGATGA
* * **
19267506 AAATGATTGATTTGTTTGTGATTT
1 AAATGATCGATTTGTCTGTGATGA
*
19267530 AAATGA-CTATTTTGTCTGTGA
1 AAATGATCGA-TTTGTCTGTGA
19267551 ATTGTATGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.45
Consensus pattern (24 bp):
AAATGATCGATTTGTCTGTGATGA
Found at i:19267707 original size:32 final size:32
Alignment explanation
Indices: 19267671--19267818 Score: 154
Period size: 32 Copynumber: 4.7 Consensus size: 32
19267661 GATGCTGCTA
* *
19267671 ATGGCTTTGTGCCGATCATATTACCGTTGCTG
1 ATGGCTTTGTGCCGATCATATTACCGCTACTG
* * * * * *
19267703 ATGGCTGTGTGTCGATAATATCACTGCTATTG
1 ATGGCTTTGTGCCGATCATATTACCGCTACTG
* **
19267735 ATGGCTTTGTACCGATCATATTACCATTAC-G
1 ATGGCTTTGTGCCGATCATATTACCGCTACTG
* * *
19267766 ATGGCTGTGTGCCGATCATATTGCTGCTACTG
1 ATGGCTTTGTGCCGATCATATTACCGCTACTG
*
19267798 ATGGCTTTGTGCCAATCATAT
1 ATGGCTTTGTGCCGATCATAT
19267819 AACTGTATTT
Statistics
Matches: 90, Mismatches: 25, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
31 25 0.28
32 65 0.72
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (32 bp):
ATGGCTTTGTGCCGATCATATTACCGCTACTG
Found at i:19267801 original size:63 final size:64
Alignment explanation
Indices: 19267671--19267818 Score: 208
Period size: 63 Copynumber: 2.3 Consensus size: 64
19267661 GATGCTGCTA
* * * *
19267671 ATGGCTTTGTGCCGATCATATTACCGTTGCTGATGGCTGTGTGTCGATAATATCACTGCTATTG
1 ATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATAATATCACTGCTACTG
* * **
19267735 ATGGCTTTGTACCGATCATATTACCATTAC-GATGGCTGTGTGCCGATCATATTGCTGCTACTG
1 ATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATAATATCACTGCTACTG
*
19267798 ATGGCTTTGTGCCAATCATAT
1 ATGGCTTTGTGCCGATCATAT
19267819 AACTGTATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
63 47 0.64
64 27 0.36
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (64 bp):
ATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATAATATCACTGCTACTG
Found at i:19267873 original size:22 final size:22
Alignment explanation
Indices: 19267824--19267873 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
19267814 CATATAACTG
* * *
19267824 TATTTATGGCTTGTAGCCATTC
1 TATTTATAGCTTATAGCCATCC
* *
19267846 TGTTTATAGCTTATAGCTATCC
1 TATTTATAGCTTATAGCCATCC
19267868 TATTTA
1 TATTTA
19267874 CGACTCTTAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (22 bp):
TATTTATAGCTTATAGCCATCC
Found at i:19276968 original size:25 final size:25
Alignment explanation
Indices: 19276913--19276973 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
19276903 TTTTAAGTGT
* * *
19276913 TTTCAGTATAGTCTATCTATAGTAG
1 TTTCAGTATATTCTACCTATAGCAG
* *
19276938 TCTCAGTATATTCTACCTGTAGCAG
1 TTTCAGTATATTCTACCTATAGCAG
*
19276963 TTTCAGGATAT
1 TTTCAGTATAT
19276974 ACTATCCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TTTCAGTATATTCTACCTATAGCAG
Found at i:19283874 original size:53 final size:53
Alignment explanation
Indices: 19283807--19283920 Score: 221
Period size: 53 Copynumber: 2.2 Consensus size: 53
19283797 CTCTCAAACA
19283807 TTTT-AAGTGAAAAAGACGAATGCAAAAGGATAGTTTTGAAAATTTCGATCTC
1 TTTTAAAGTGAAAAAGACGAATGCAAAAGGATAGTTTTGAAAATTTCGATCTC
19283859 TTTTAAAGTGAAAAAGACGAATGCAAAAGGATAGTTTTGAAAATTTCGATCTC
1 TTTTAAAGTGAAAAAGACGAATGCAAAAGGATAGTTTTGAAAATTTCGATCTC
19283912 TTTTAAAGT
1 TTTTAAAGT
19283921 TTTTCATTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 4 0.07
53 57 0.93
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (53 bp):
TTTTAAAGTGAAAAAGACGAATGCAAAAGGATAGTTTTGAAAATTTCGATCTC
Found at i:19284481 original size:22 final size:23
Alignment explanation
Indices: 19284444--19284511 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
19284434 TTACGGTTAC
19284444 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
* *
19284467 TTCA-TGTT-TATAATATGA-TTAC
1 TTAAGTGTTCTA-AATA-GATTTAA
19284489 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
19284512 GTCAAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.46
Consensus pattern (23 bp):
TTAAGTGTTCTAAATAGATTTAA
Found at i:19284497 original size:23 final size:23
Alignment explanation
Indices: 19284440--19284510 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
19284430 TAAATTACGG
19284440 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
* *
19284463 TTAATTCA-TGTT-TATAATATGA-
1 TTACTTAAGTGTTCTA-AATA-GAT
19284485 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
19284508 TTA
1 TTA
19284511 AGTCAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
21 2 0.05
22 16 0.41
23 19 0.49
24 2 0.05
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (23 bp):
TTACTTAAGTGTTCTAAATAGAT
Found at i:19288198 original size:21 final size:21
Alignment explanation
Indices: 19288174--19288213 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19288164 ATAAACTTTT
*
19288174 CAATTGATTGAATAAAACAAA
1 CAATAGATTGAATAAAACAAA
* *
19288195 CAATAGGTTGTATAAAACA
1 CAATAGATTGAATAAAACA
19288214 GTATACATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
CAATAGATTGAATAAAACAAA
Found at i:19288762 original size:13 final size:13
Alignment explanation
Indices: 19288741--19288775 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
19288731 ACATTATTCG
*
19288741 AAATTTAGAAAAA
1 AAATATAGAAAAA
19288754 AAATATAG-AAAA
1 AAATATAGAAAAA
19288766 AAATATAGAA
1 AAATATAGAA
19288776 TGAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (13 bp):
AAATATAGAAAAA
Found at i:19289251 original size:41 final size:40
Alignment explanation
Indices: 19289158--19289258 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
19289148 GAAAAATGGT
* *
19289158 GCTATTGCTTTACCATTAGCGGCGTTTATGAAAAAACACC
1 GCTATTGCTTTACCTTTTGCGGCGTTTATGAAAAAACACC
*
19289198 GCTATTGTTTTACCTTTTGCGGCGTTTATGAGAAAAACACC
1 GCTATTGCTTTACCTTTTGCGGCGTTTATGA-AAAAACACC
*
19289239 GCTACTGCTTTACCTTTTGC
1 GCTATTGCTTTACCTTTTGC
19289259 AGCTTTTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 28 0.51
41 27 0.49
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (40 bp):
GCTATTGCTTTACCTTTTGCGGCGTTTATGAAAAAACACC
Found at i:19290773 original size:18 final size:20
Alignment explanation
Indices: 19290743--19290780 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
19290733 TAAAATCAAT
19290743 TTTTCTAAAAATATT-TTTA
1 TTTTCTAAAAATATTATTTA
19290762 TTTTCT-AAAATATTATTTA
1 TTTTCTAAAAATATTATTTA
19290781 CCAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCTAAAAATATTATTTA
Found at i:19295299 original size:16 final size:15
Alignment explanation
Indices: 19295278--19295321 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
19295268 TTTTAAAGGT
*
19295278 TAATTAAGTAATTTGA
1 TAATTAAGTAA-ATGA
*
19295294 TAATTAAGTTAAATGT
1 TAATTAAG-TAAATGA
19295310 TAATTAAGTAAA
1 TAATTAAGTAAA
19295322 AGATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (15 bp):
TAATTAAGTAAATGA
Found at i:19295312 original size:32 final size:31
Alignment explanation
Indices: 19295249--19295320 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
19295239 TGGATAGGTT
*
19295249 TTAATGTAATTATGATAATTTTTAAAGGTTAA
1 TTAA-GTAATTATGATAATTGTTAAAGGTTAA
*
19295281 TTAAGTAATT-TGATAATTAAGTTAAATGTTAA
1 TTAAGTAATTATGATAATT--GTTAAAGGTTAA
19295313 TTAAGTAA
1 TTAAGTAA
19295321 AAGATGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 8 0.22
31 6 0.17
32 22 0.61
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (31 bp):
TTAAGTAATTATGATAATTGTTAAAGGTTAA
Found at i:19296130 original size:40 final size:39
Alignment explanation
Indices: 19296075--19296206 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 39
19296065 TACCCGTGTG
*
19296075 TGTACTTCGGTACCCCTAATTTCACATACGTGCCCCTAGT
1 TGTACTTCGGTACCCCTAATTGCACATACGTGCCCCT-GT
* *
19296115 TGTACTTCAGTACCCCTGAA-TGCACATACGTGCCCATGTT
1 TGTACTTCGGTACCCCT-AATTGCACATACGTGCCCCTG-T
* *
19296155 TGTACTTTGGTACCCCTAATTGCAGATACGTGCCCCTGGT
1 TGTACTTCGGTACCCCTAATTGCACATACGTGCCCCT-GT
*
19296195 TGTACTTTGGTA
1 TGTACTTCGGTA
19296207 ATCCTGAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
39 3 0.04
40 75 0.93
41 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (39 bp):
TGTACTTCGGTACCCCTAATTGCACATACGTGCCCCTGT
Found at i:19298363 original size:50 final size:50
Alignment explanation
Indices: 19298260--19298549 Score: 287
Period size: 50 Copynumber: 5.7 Consensus size: 50
19298250 TAAAGAGATT
**
19298260 CCATGTAAGACCATGTCTGACACATGGCATTGGCATCCTTGAGACCATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAG---ATGAGAGGTC
* *
19298316 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGACGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* * *
19298366 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGGGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* * * * **
19298416 TCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 -CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* * * * * * * **
19298466 CCATGTAAGACCATATATGGGATATGGCATTGGAAGT-ACATGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
* *
19298515 CCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19298550 TGTTATTATC
Statistics
Matches: 200, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
49 39 0.19
50 122 0.61
51 2 0.01
53 4 0.02
54 1 0.00
56 32 0.16
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTC
Found at i:19299964 original size:12 final size:12
Alignment explanation
Indices: 19299947--19299972 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19299937 TGAGTTACAT
19299947 GGCCTAGCACAC
1 GGCCTAGCACAC
19299959 GGCCTAGCACAC
1 GGCCTAGCACAC
19299971 GG
1 GG
19299973 GTGTGTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:19301665 original size:20 final size:20
Alignment explanation
Indices: 19301642--19301680 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19301632 GTATACATGT
*
19301642 TGGTGTCCCTGTTTGCACTA
1 TGGTGCCCCTGTTTGCACTA
19301662 TGGTGCCCCTGTTTGCACT
1 TGGTGCCCCTGTTTGCACT
19301681 TCAGTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.28, G:0.26, T:0.38
Consensus pattern (20 bp):
TGGTGCCCCTGTTTGCACTA
Found at i:19303997 original size:24 final size:24
Alignment explanation
Indices: 19303970--19304059 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 24
19303960 TGTCTATGAC
* *
19303970 GCCTTTATGGTGTATTCTATTAAT
1 GCCTTTATGGCGTATTCTATAAAT
19303994 GCCTTTATGGCGTATTCTATAAAT
1 GCCTTTATGGCGTATTCTATAAAT
* *
19304018 ACC-CTATTGGCGTATTCTATAAAT
1 GCCTTTA-TGGCGTATTCTATAAAT
* * *
19304042 TCCTTTGTGGTGTATTCT
1 GCCTTTATGGCGTATTCT
19304060 GTGTTGCCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.04
24 53 0.95
25 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.46
Consensus pattern (24 bp):
GCCTTTATGGCGTATTCTATAAAT
Found at i:19306264 original size:19 final size:20
Alignment explanation
Indices: 19306240--19306282 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
19306230 GCATTAGAAC
19306240 TTTTATTTT-TATTTACTTA-
1 TTTTATTTTAT-TTTACTTAG
19306259 TTTTATTTTATTTTACTTAG
1 TTTTATTTTATTTTACTTAG
19306279 TTTT
1 TTTT
19306283 TTAATCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTATTTTATTTTACTTAG
Found at i:19321701 original size:20 final size:18
Alignment explanation
Indices: 19321654--19321702 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
19321644 CAAGATAAAC
19321654 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
19321671 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
19321691 ATTAAATTAATA
1 ATTAAATTAATA
19321703 AAATACCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:19325448 original size:21 final size:22
Alignment explanation
Indices: 19325418--19325460 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
19325408 TCTTGTTCAA
19325418 TCTCAATCTCGTTT-TTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
* *
19325439 TCTCACTCTCTTTTATTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
19325461 CTCGAGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.63
Consensus pattern (22 bp):
TCTCAATCTCGTTTATTCTTTT
Found at i:19325531 original size:15 final size:16
Alignment explanation
Indices: 19325511--19325540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19325501 ATCTCTGGTC
19325511 TTTA-TTTTCTTTTTA
1 TTTATTTTTCTTTTTA
19325526 TTTATTTTTCTTTTT
1 TTTATTTTTCTTTTT
19325541 GCCTCGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTTCTTTTTA
Found at i:19327554 original size:22 final size:20
Alignment explanation
Indices: 19327517--19327557 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
19327507 CTAGTTCATA
19327517 TAACATCAAGAAAAATTAAT
1 TAACATCAAGAAAAATTAAT
*
19327537 TAACATACTAAGATAAATTAA
1 TAACAT-C-AAGAAAAATTAA
19327558 AAACAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (20 bp):
TAACATCAAGAAAAATTAAT
Found at i:19335428 original size:20 final size:18
Alignment explanation
Indices: 19335381--19335479 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 18
19335371 AAAGATAAAC
19335381 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
19335398 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
* *
19335418 ATTAAATTAATAAATTACT
1 ATTAAATTAAT-ATTTAAT
19335437 ATTAAGA-TAAGTATTTAAT
1 ATTAA-ATTAA-TATTTAAT
*
19335456 -TT-AATTCAATATTAAACT
1 ATTAAATT-AATATTTAA-T
19335474 ATTAAA
1 ATTAAA
19335480 AGGATATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
16 1 0.02
17 16 0.25
18 6 0.09
19 21 0.33
20 20 0.31
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:19338645 original size:41 final size:40
Alignment explanation
Indices: 19338599--19338872 Score: 217
Period size: 41 Copynumber: 6.6 Consensus size: 40
19338589 CTTTGAATAT
* *
19338599 AAAGGGTTGCTAAGTGCAGATTCCCCGA-ATCATTGATCAAA
1 AAAGGGTTGCTAAGTGCTGATTCCCC-ATATCATTGAT-TAA
* *
19338640 AAAGGGTTGCTATGTGCTGATTCCCCATATCATTGATTAT
1 AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
* * * *
19338680 AAGGTGGTTGCTAAGTGTTGATTCCACCATATCCTTGATTGTGA
1 AAAG-GGTTGCTAAGTGCTGATTCC-CCATATCATTGA-T-TAA
* * * **
19338724 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTCT
1 AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
* * * *
19338764 AAGGTGGTTGCTAAGTGCTGATTCCACCTTATCCTTGATTGTGA
1 AAAG-GGTTGCTAAGTGCTGATTCC-CCATATCATTGA-T-TAA
* * * * *
19338808 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTAT
1 AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
** *
19338848 ATGGTGGTTACTAAGTGCTGATTCC
1 AAAG-GGTTGCTAAGTGCTGATTCC
19338873 ACCGGGATCC
Statistics
Matches: 192, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
40 14 0.07
41 89 0.46
42 41 0.21
43 38 0.20
44 10 0.05
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (40 bp):
AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
Found at i:19338744 original size:84 final size:84
Alignment explanation
Indices: 19338643--19338875 Score: 403
Period size: 84 Copynumber: 2.8 Consensus size: 84
19338633 GATCAAAAAA
* *
19338643 GGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
19338708 ATATCCTTGATTGTGAAAG
66 ATATCCTTGATTGTGAAAG
*
19338727 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTCTAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
*
19338792 TTATCCTTGATTGTGAAAG
66 ATATCCTTGATTGTGAAAG
* * *
19338811 GGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATATGGTGGTTACTAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
19338876 GGGATCCTTT
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 141 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (84 bp):
GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
ATATCCTTGATTGTGAAAG
Found at i:19338866 original size:125 final size:125
Alignment explanation
Indices: 19338591--19338919 Score: 348
Period size: 125 Copynumber: 2.6 Consensus size: 125
19338581 CCGGGATTCT
* * * * *
19338591 TTGAATATAAA-GGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAAAAAG-GGTTGCTATG
1 TTGATTATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATC-ATAAGGTGGTTGCTAAG
*
19338654 TGCTGATTCC-CCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCATATCC
65 TGCTGATTCCACCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCATATCA
* * *
19338714 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTC-TAAGGTGGTTGCTAA
1 TTGATTAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGA-TCATAAGGTGGTTGCTAA
* * * * *
19338778 GTGCTGATTCCACCTTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-CCGTATCA
64 GTGCTGATTCCACCATATCATTGATTAT--AAGGTGGTTGCTAAGTGTTGATTCCACCATATCA
* * * * * *
19338840 TTGATTAT-ATGGTGGTTACTAAGTGCTGATTCCACCGGGATCCTTTGAACATGAGGTGGTTGCT
1 TTGATTATAAAGG-GGTTGCTAAGTGCTGATTCC-CC-GAAT-CATTGATCATAAGGTGGTTGCT
19338904 AAGTGCTGATTCCACC
62 AAGTGCTGATTCCACC
19338920 GTGTAACGGT
Statistics
Matches: 172, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
123 6 0.03
124 9 0.05
125 67 0.39
126 30 0.17
127 23 0.13
128 37 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (125 bp):
TTGATTATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATCATAAGGTGGTTGCTAAGT
GCTGATTCCACCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCATATCA
Found at i:19340919 original size:16 final size:16
Alignment explanation
Indices: 19340886--19340931 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19340876 AATTATGAAT
*
19340886 ATTAATTCTTAA-TATA
1 ATTAATT-TTAATTTTA
19340902 ATTAATTTTAATTTTA
1 ATTAATTTTAATTTTA
19340918 ATTCAA-TTTAATTT
1 ATT-AATTTTAATTT
19340932 GGGTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 4 0.15
16 21 0.78
17 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATTTTAATTTTA
Found at i:19342320 original size:16 final size:16
Alignment explanation
Indices: 19342299--19342334 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19342289 TTTTACTTAG
19342299 TTAAAAATCTTAGCTT
1 TTAAAAATCTTAGCTT
19342315 TTAAAAATCTTAGCTT
1 TTAAAAATCTTAGCTT
19342331 TTAA
1 TTAA
19342335 TCACCTCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (16 bp):
TTAAAAATCTTAGCTT
Found at i:19351318 original size:13 final size:13
Alignment explanation
Indices: 19351300--19351326 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19351290 AGGTATCTAT
19351300 ATTTGGGATTTAA
1 ATTTGGGATTTAA
19351313 ATTTGGGATTTAA
1 ATTTGGGATTTAA
19351326 A
1 A
19351327 ATGTGCAGGG
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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (13 bp):
ATTTGGGATTTAA
Found at i:19360977 original size:8 final size:8
Alignment explanation
Indices: 19360964--19360988 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19360954 TTAGGGTAGA
19360964 CCCATGAT
1 CCCATGAT
19360972 CCCATGAT
1 CCCATGAT
19360980 CCCATGAT
1 CCCATGAT
19360988 C
1 C
19360989 TTTTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:19365365 original size:25 final size:25
Alignment explanation
Indices: 19365331--19365385 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
19365321 TCAGTTTGTA
19365331 TGAGCAGACCATTTTACAGCTCGTG
1 TGAGCAGACCATTTTACAGCTCGTG
19365356 TGAGCAGACCATTTTACAGCTCGTG
1 TGAGCAGACCATTTTACAGCTCGTG
19365381 TGAGC
1 TGAGC
19365386 TACGATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (25 bp):
TGAGCAGACCATTTTACAGCTCGTG
Found at i:19366683 original size:406 final size:406
Alignment explanation
Indices: 19365931--19366744 Score: 1619
Period size: 406 Copynumber: 2.0 Consensus size: 406
19365921 CCAAGGTTAT
19365931 AATAGCATGTATAGGTGAACTTATGTTTAAAGTTTGGACTAAATGCTAAATGTTAATTTTGGTAT
1 AATAGCATGTATAGGTGAACTTATGTTTAAAGTTTGGACTAAATGCTAAATGTTAATTTTGGTAT
19365996 GTATATATATGTTGGTTGTTTGGCACCATTTGTAAATGGTTGCTTTGTGTCACTTGGGTGATTTT
66 GTATATATATGTTGGTTGTTTGGCACCATTTGTAAATGGTTGCTTTGTGTCACTTGGGTGATTTT
19366061 GATGTATGTGAGTAATGGTCTAAATGGTAAGTTTATATTGACATAGTATAGGTGAAATATGGTAT
131 GATGTATGTGAGTAATGGTCTAAATGGTAAGTTTATATTGACATAGTATAGGTGAAATATGGTAT
19366126 GTTTTGAAATGGTAGTAATGCGTTCAAATATGCATAAGTTTAGGTATGTTTGTTTGATTATGATT
196 GTTTTGAAATGGTAGTAATGCGTTCAAATATGCATAAGTTTAGGTATGTTTGTTTGATTATGATT
19366191 GAGGTTCCTATATCGCATATTGGTTAAATGGGATTTGGTCATTTGAATTGTAACACCCCTAACCC
261 GAGGTTCCTATATCGCATATTGGTTAAATGGGATTTGGTCATTTGAATTGTAACACCCCTAACCC
19366256 GAATCCGTCGCCAGATTAGGGTTACGAAGCATTACCGATCAAACACAGTTTAGAATAGTTATTCA
326 GAATCCGTCGCCAGATTAGGGTTACGAAGCATTACCGATCAAACACAGTTTAGAATAGTTATTCA
19366321 ATACAATTCAAGAACA
391 ATACAATTCAAGAACA
19366337 AATAGCATGTATAGGTGAACTTATGTTTAAAGTTTGGACTAAATGCTAAATGTTAATTTTGGTAT
1 AATAGCATGTATAGGTGAACTTATGTTTAAAGTTTGGACTAAATGCTAAATGTTAATTTTGGTAT
19366402 GTATATATATGTTGGTTGTTTGGCACCATTTGTAAATGGTTGCTTTGTGTCACTTGGGTGATTTT
66 GTATATATATGTTGGTTGTTTGGCACCATTTGTAAATGGTTGCTTTGTGTCACTTGGGTGATTTT
19366467 GATGTATGTGAGTAATGGTCTAAATGGTAAGTTTATATTGACATAGTATAGGTGAAATATGGTAT
131 GATGTATGTGAGTAATGGTCTAAATGGTAAGTTTATATTGACATAGTATAGGTGAAATATGGTAT
19366532 GTTTTGAAATGGTAGTAATGCGTTCAAATATGCATAAGTTTAGGTATGTTTGTTTGATTATGATT
196 GTTTTGAAATGGTAGTAATGCGTTCAAATATGCATAAGTTTAGGTATGTTTGTTTGATTATGATT
*
19366597 GAGGTTCCTATATCGCATATTGGTTAAATGGGATTTGGTCATTTGAATTGTAACACCCCTAGCCC
261 GAGGTTCCTATATCGCATATTGGTTAAATGGGATTTGGTCATTTGAATTGTAACACCCCTAACCC
19366662 GAATCCGTCGCCAGATTAGGGTTACGAAGCATTACCGATCAAACACAGTTTAGAATAGTTATTCA
326 GAATCCGTCGCCAGATTAGGGTTACGAAGCATTACCGATCAAACACAGTTTAGAATAGTTATTCA
19366727 ATACAATTCAAGAACA
391 ATACAATTCAAGAACA
19366743 AA
1 AA
19366745 GTAATATAAT
Statistics
Matches: 407, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
406 407 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (406 bp):
AATAGCATGTATAGGTGAACTTATGTTTAAAGTTTGGACTAAATGCTAAATGTTAATTTTGGTAT
GTATATATATGTTGGTTGTTTGGCACCATTTGTAAATGGTTGCTTTGTGTCACTTGGGTGATTTT
GATGTATGTGAGTAATGGTCTAAATGGTAAGTTTATATTGACATAGTATAGGTGAAATATGGTAT
GTTTTGAAATGGTAGTAATGCGTTCAAATATGCATAAGTTTAGGTATGTTTGTTTGATTATGATT
GAGGTTCCTATATCGCATATTGGTTAAATGGGATTTGGTCATTTGAATTGTAACACCCCTAACCC
GAATCCGTCGCCAGATTAGGGTTACGAAGCATTACCGATCAAACACAGTTTAGAATAGTTATTCA
ATACAATTCAAGAACA
Found at i:19367994 original size:43 final size:43
Alignment explanation
Indices: 19367919--19368092 Score: 194
Period size: 43 Copynumber: 4.1 Consensus size: 43
19367909 AAACATATAT
* * * *
19367919 ATCACATA-CAATGCCA-TATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
* *
19367960 ATCACATATCGATGCCTCTGTCCCAGACAGGGTCTTACATG-A
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
* * * * *
19368002 ATCATATA-CGGTGCCACTGTTCCAAACATGGTCTTACACGTA
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
* * *
19368044 ATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
19368087 ATCACA
1 ATCACA
19368093 CCTCGAAAGT
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
41 34 0.32
42 20 0.19
43 53 0.50
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
Found at i:19370045 original size:97 final size:97
Alignment explanation
Indices: 19369922--19370110 Score: 360
Period size: 97 Copynumber: 1.9 Consensus size: 97
19369912 TCGTTATTAA
* *
19369922 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTTCATCTTCAATCCCTTGGCCAAAACTTGC
1 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
19369987 ATGGAGAAACCATGGCTAGGGTTTTTCAAGTT
66 ATGGAGAAACCATGGCTAGGGTTTTTCAAGTT
19370019 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
1 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
19370084 ATGGAGAAACCATGGCTAGGGTTTTTC
66 ATGGAGAAACCATGGCTAGGGTTTTTC
19370111 CAGCTTCCAA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (97 bp):
AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
ATGGAGAAACCATGGCTAGGGTTTTTCAAGTT
Found at i:19375391 original size:47 final size:47
Alignment explanation
Indices: 19375339--19375433 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
19375329 CATGACGGAT
19375339 ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
1 ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
*
19375386 ATGCAGATTGGAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
1 ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
19375433 A
1 A
19375434 GTGTTTCTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (47 bp):
ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
Found at i:19381930 original size:43 final size:44
Alignment explanation
Indices: 19381872--19381958 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
19381862 ATTACAAGAA
* * * *
19381872 TCATATACGGTGCCAATGACCCATACATGGTCTTACACGTAATC
1 TCATATACGATGCCAATGACCCAGACAAGGTCTTACACGAAATC
* *
19381916 TCATAT-CGATGCCAATGTCCCAGACAAGGTCTTGCACGAAATC
1 TCATATACGATGCCAATGACCCAGACAAGGTCTTACACGAAATC
19381959 ACACCTTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 31 0.84
44 6 0.16
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (44 bp):
TCATATACGATGCCAATGACCCAGACAAGGTCTTACACGAAATC
Found at i:19390699 original size:3 final size:3
Alignment explanation
Indices: 19390691--19390717 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19390681 GGCTCCAATA
19390691 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
19390718 AAAGTCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:19408290 original size:697 final size:697
Alignment explanation
Indices: 19406955--19408345 Score: 2239
Period size: 697 Copynumber: 2.0 Consensus size: 697
19406945 GCTAATGCAT
* *
19406955 GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACATGACCCAAGAACACATGCATGTGA
1 GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACAAGACCCAAGAACACAGGCATGTGA
* * * *
19407020 AATAGCAGACGTGTGTGTAGGATAGTCACACGCCCATGTTAAGAGCCACACGGTCTAGCACACGG
66 AATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCACACGGCCTAGCACACGG
* * *
19407085 TCGACGACACGACCATGTGTCCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACACG
131 CCGACAACACGACCATGTGACCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACACG
* *
19407150 ATCATGTGTCCCAACTTTGTAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAAGAGTC
196 ATCATGTGTCCCAACTTTGAAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAACAGTC
* *
19407215 GTGTGTCCCCTGTTTCTAAGTATTTTTGAGATTGCCTTAAAACTTTCAAAATTGTTCCATATTAG
261 GTATGTCCCCTGTTTCTAAGTATTTTTGAGATTACCTTAAAACTTTCAAAATTGTTCCATATTAG
* * * *
19407280 TCCCTATTTGTTCTTAGGCTATTTCTAAGAATCTGTAGACTCGTATTAAGGACTGTAAGAGTATT
326 TCCCTATTTGTTCATAGGCTATTTCTAAGAATCTGCAGACTCATATTAAGAACTGTAAGAGTATT
* *
19407345 TTTATTTTGATTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTTCTAATATC
391 TTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAATATC
*
19407410 ATCGAAGGTAGTAATAGTCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCTTGT
456 ATCGAAGGTAGTAATAGCCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCTTGT
* *
19407475 TATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAGTGGAAGAC
521 TATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAAAAC
19407540 CAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATATTA
586 CAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATATTA
*
19407605 AATTAGCATATATTTCCCCTGTATAATGTGATGCTAATAGTTAGTAC
651 AATTAGCATATATTGCCCCTGTATAATGTGATGCTAATAGTTAGTAC
* * * *
19407652 GGCCTGAGACATGGCCGTGTGAGATTAATTCTAGTGATACACAG-CCCAAGCACACGGGCATGTG
1 GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACA-AGACCCAAGAACACAGGCATGTG
* *
19407716 AAATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCATATGGCCT-GACACAC
65 AAATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCACACGGCCTAG-CACAC
* * * * * * *
19407780 GGCCGACAACATGGCCATGTGACCCAAGTTAGTGAGTTTCATGGGTAGAGACACAAGTTGGGACA
129 GGCCGACAACACGACCATGTGACCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACA
* * * *
19407845 C-AGTCATGTGTCCCAACTTTGAAATTCATATGGTTTGGGGCGTTCCACACGGCCTGGCCAAACA
194 CGA-TCATGTGTCCCAACTTTGAAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAACA
* * * *
19407909 GTCGTATGTCCCCTGTTTCTAGGTATTTTTTAGATTACCTTAAAATTTTCAAAATTGTTTCATAT
258 GTCGTATGTCCCCTGTTTCTAAGTATTTTTGAGATTACCTTAAAACTTTCAAAATTGTTCCATAT
* *
19407974 TAGTCCTTATTTGTTCATAGGCTATTTCTAAGGATCTGCAGACTCATATTAAGAACTGTAAGAGT
323 TAGTCCCTATTTGTTCATAGGCTATTTCTAAGAATCTGCAGACTCATATTAAGAACTGTAAGAGT
19408039 ATTTTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAAT
388 ATTTTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAAT
*
19408104 ATCATCGAAGGTAGTAATAGCCGGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCT
453 ATCATCGAAGGTAGTAATAGCCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCT
*
19408169 TGTTATGTATCCAAGTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAA
518 TGTTATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAA
* * *
19408234 AACCAAGTTTAGCATTTCATAGCATGAGTCATTATTCGATTGTATAAGACACTAATATGGAAATA
583 AACCAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATA
* * * *
19408299 TTAAATTAGCATTTATTGCCTCTGTATGATGTGATGTTAATAGTTAG
648 TTAAATTAGCATATATTGCCCCTGTATAATGTGATGCTAATAGTTAG
19408346 CGTGCACCAT
Statistics
Matches: 636, Mismatches: 55, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
696 2 0.00
697 633 1.00
698 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (697 bp):
GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACAAGACCCAAGAACACAGGCATGTGA
AATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCACACGGCCTAGCACACGG
CCGACAACACGACCATGTGACCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACACG
ATCATGTGTCCCAACTTTGAAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAACAGTC
GTATGTCCCCTGTTTCTAAGTATTTTTGAGATTACCTTAAAACTTTCAAAATTGTTCCATATTAG
TCCCTATTTGTTCATAGGCTATTTCTAAGAATCTGCAGACTCATATTAAGAACTGTAAGAGTATT
TTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAATATC
ATCGAAGGTAGTAATAGCCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCTTGT
TATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAAAAC
CAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATATTA
AATTAGCATATATTGCCCCTGTATAATGTGATGCTAATAGTTAGTAC
Found at i:19409454 original size:24 final size:24
Alignment explanation
Indices: 19409427--19409487 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
19409417 AACACCTTTA
19409427 TGGCGTATTCTGTAAATGCCCTAT-
1 TGGCGTATTCTGTAAATG-CCTATG
* * *
19409451 TGGCGTATTATGCAAATGCCTTTG
1 TGGCGTATTCTGTAAATGCCTATG
19409475 TGGCGTATTCTGT
1 TGGCGTATTCTGT
19409488 GTTACCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (24 bp):
TGGCGTATTCTGTAAATGCCTATG
Found at i:19413125 original size:47 final size:47
Alignment explanation
Indices: 19413071--19413166 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
19413061 ACTATAACGG
*
19413071 GCCTTTCACAACTATCTGGTGGCACCGTCCCTTCTACAGGAGCGAGA
1 GCCTTTCACAACTATCTAGTGGCACCGTCCCTTCTACAGGAGCGAGA
* *
19413118 GCCTTTCACTACTATCTAGTGGCACCGTCCCTTCTACGGGAGCGAGA
1 GCCTTTCACAACTATCTAGTGGCACCGTCCCTTCTACAGGAGCGAGA
19413165 GC
1 GC
19413167 ATTACTTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (47 bp):
GCCTTTCACAACTATCTAGTGGCACCGTCCCTTCTACAGGAGCGAGA
Found at i:19419429 original size:41 final size:41
Alignment explanation
Indices: 19419322--19419464 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 41
19419312 TCAGGTTCTG
* * * * **
19419322 TGCCTAGCAGGCTTTATACCGGTGAATTATATCAGGCTTTA
1 TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
* *
19419363 TACCTAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
1 TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
* * * *
19419404 TGCCTAGCAGGCTTCGTGCCAGTGTATCATATCTGGCTTTG
1 TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
* *
19419445 TGCCTAGAAGGCTTTATGCC
1 TGCCTAGCAGGCTTCATGCC
19419465 TATGTGGTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
Found at i:19424630 original size:20 final size:20
Alignment explanation
Indices: 19424586--19424624 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
19424576 AAAATTAAAC
*
19424586 ACGAGCTCGATTGAGCTGAA
1 ACGAGCTCGATGGAGCTGAA
19424606 ACGAGCTC-ATGGAGCTGAA
1 ACGAGCTCGATGGAGCTGAA
19424625 TTCGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.18
Consensus pattern (20 bp):
ACGAGCTCGATGGAGCTGAA
Found at i:19427573 original size:23 final size:23
Alignment explanation
Indices: 19427542--19427592 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
19427532 ACCTACTTTC
*
19427542 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
19427565 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
19427588 TTACA
1 TTACA
19427593 ATTTCAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:19427944 original size:20 final size:20
Alignment explanation
Indices: 19427919--19427957 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19427909 TACCTTCTTC
19427919 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
19427939 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
19427958 AAATAACTCA
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:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:19431060 original size:20 final size:20
Alignment explanation
Indices: 19431035--19431085 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
19431025 AAATCATCAT
19431035 TTTCATGAACATAGATATAC
1 TTTCATGAACATAGATATAC
19431055 TTTCATGAACATAGATATAC
1 TTTCATGAACATAGATATAC
*
19431075 TTTCATTAACA
1 TTTCATGAACA
19431086 CTTCCTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (20 bp):
TTTCATGAACATAGATATAC
Found at i:19434187 original size:40 final size:41
Alignment explanation
Indices: 19434064--19434200 Score: 165
Period size: 40 Copynumber: 3.4 Consensus size: 41
19434054 CGTTTGGATA
* *
19434064 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTCA-
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTTAG
* *
19434104 AAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT-G
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTTAG
* *
19434144 AAAAACGCCGCTAAAAAT-GAGCATTAACGACG-TTTCTTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT-TTAG
* *
19434184 AAAAGCGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
19434201 CCTAAGCCCA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 3 0.04
39 14 0.17
40 67 0.80
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTTAG
Found at i:19434294 original size:41 final size:40
Alignment explanation
Indices: 19434237--19434389 Score: 191
Period size: 41 Copynumber: 3.7 Consensus size: 40
19434227 ACCTTTCGGG
19434237 GCTTTAGCCGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
1 GCTTTAG-CGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
* *
19434278 GCTTTAGCGACGTTTTTGGAAAAGCGCTGCTAATGCTCAGA
1 GCTTTAGCG-CGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
* * *
19434319 GCTTTAGCGGCGTTTTTTAGAAAAGCGTCGCTAATGCTC-GG
1 GCTTTAGC-GCGTTTTTGA-AAAAGCGCCGCTAATGCTCAGA
* *
19434360 GATTTAGCTGCGTTTTTAAAAAAGCGCCGC
1 GCTTTAGC-GCGTTTTTGAAAAAGCGCCGC
19434390 AAAAACATTT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
40 12 0.12
41 68 0.69
42 18 0.18
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
GCTTTAGCGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
Found at i:19435649 original size:122 final size:126
Alignment explanation
Indices: 19435395--19435696 Score: 434
Period size: 122 Copynumber: 2.4 Consensus size: 126
19435385 AAAATTTAGC
* *
19435395 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAATTAATTTTTTGCGACGTTTTAGTAAGCAATAG
1 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCG--TTAGTAAGCAATAG
* * *
19435460 CGGCGTTTTATAAAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGCGCCATTTTAT
64 CGACATTTTATAAAAAAAACGCCACAAAAAATAAATTTA-TTTAAAAAAATAGCGCCATTTTAT
* *
19435524 ATAGCAAAATAGTGTC-TTTTAATCCAAATGAAATAA-TTTTTGCGGCGTTAGGTAAGCAATAGC
1 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTA-GTAAGCAATAGC
* *
19435587 GACATTTT-TATAAAAAATGCCAC-AAAAATAAATTT-TTTAAAAAAATAGCGCCATTTTAT
65 GACATTTTATAAAAAAAACGCCACAAAAAATAAATTTATTTAAAAAAATAGCGCCATTTTAT
* *
19435646 ATAGCAAAACAGTGTCGTTTTATTCCAAATGCAATAATTTTTTGTGGCGTT
1 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTT
19435697 TTTTATAAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
122 39 0.25
123 18 0.11
124 23 0.15
125 16 0.10
126 18 0.11
127 10 0.06
128 18 0.11
129 15 0.10
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (126 bp):
ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTAGTAAGCAATAGCG
ACATTTTATAAAAAAAACGCCACAAAAAATAAATTTATTTAAAAAAATAGCGCCATTTTAT
Done.