Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 180 of 333
Found at i:59110626 original size:11 final size:11
Alignment explanation
Indices: 59110610--59110634 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59110600 AAGTTGGTGA
59110610 TAAGGTATTTT
1 TAAGGTATTTT
59110621 TAAGGTATTTT
1 TAAGGTATTTT
59110632 TAA
1 TAA
59110635 AAGTTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TAAGGTATTTT
Found at i:59114033 original size:25 final size:25
Alignment explanation
Indices: 59113975--59114024 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
59113965 TATGTATATG
59113975 TATGAATGGTTTTAAGTTGCATGAA
1 TATGAATGGTTTTAAGTTGCATGAA
*
59114000 TATGAATGGTTTTAAGTTGCCTGAA
1 TATGAATGGTTTTAAGTTGCATGAA
59114025 ATTTTATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (25 bp):
TATGAATGGTTTTAAGTTGCATGAA
Found at i:59116287 original size:42 final size:42
Alignment explanation
Indices: 59116228--59116349 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
59116218 TAGGGTTTGT
* * *
59116228 TGAGATTACGTGTAAGACCATATCCGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
59116270 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGACATCAATA
1 TGAGATTACATGTAAGACCATATCTGGGATA-TGGCATCAATA
**
59116313 TGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
59116350 TTGTATGATA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:59125994 original size:12 final size:12
Alignment explanation
Indices: 59125977--59126003 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59125967 ATTCCGAAGT
59125977 ATATATATATAC
1 ATATATATATAC
59125989 ATATATATATAC
1 ATATATATATAC
59126001 ATA
1 ATA
59126004 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:59126512 original size:27 final size:27
Alignment explanation
Indices: 59126481--59126658 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
59126471 TAAATTGTAC
59126481 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59126508 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59126534 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
59126562 GGCACTAAGTGTACGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
59126590 AGCACTAAGTGTGCGATATGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59126617 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59126644 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59126659 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59126595 original size:82 final size:81
Alignment explanation
Indices: 59126482--59126637 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59126472 AAATTGTACA
* * *
59126482 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59126546 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* *
59126563 GCACTAAGTGTACGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACGTAGCACTAAGTG
1 GCACTAAGTGTACGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59126628 TGCGAGTTGA
65 TGCGAATTGA
59126638 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59126649 original size:82 final size:81
Alignment explanation
Indices: 59126478--59126655 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 81
59126468 GATTAAATTG
* * *
59126478 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59126543 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
59126559 TGCGGCACTAAGTGTACGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACG-TAGCACT
1 TACAGCACTAAGTGTACGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59126623 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59126641 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
59126656 GCGGGCTCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59126669 original size:27 final size:27
Alignment explanation
Indices: 59126589--59126669 Score: 63
Period size: 27 Copynumber: 3.0 Consensus size: 27
59126579 TTTGACTATG
** * * **
59126589 TAGCACTAAGTGTGCGATATGATTACG
1 TAGCACTAAGTGTGCGAGCTCAATATA
* * *
59126616 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
59126643 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
59126670 CATTCGTGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:59134244 original size:12 final size:12
Alignment explanation
Indices: 59134227--59134252 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59134217 CATTCCGAAG
59134227 TATATATATACA
1 TATATATATACA
59134239 TATATATATACA
1 TATATATATACA
59134251 TA
1 TA
59134253 AGTATGCCAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:59134757 original size:27 final size:27
Alignment explanation
Indices: 59134726--59134903 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
59134716 TAAATTGCAC
59134726 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59134753 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59134779 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59134807 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
59134835 AGCACTAAGTGTGCGATATGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59134862 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59134889 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59134904 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59134840 original size:82 final size:81
Alignment explanation
Indices: 59134727--59134882 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
59134717 AAATTGCACA
* *
59134727 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59134791 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* *
59134808 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59134873 TGCGAGTTGA
65 TGCGAATTGA
59134883 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59134894 original size:82 final size:81
Alignment explanation
Indices: 59134724--59134903 Score: 236
Period size: 82 Copynumber: 2.2 Consensus size: 81
59134714 ATTAAATTGC
* *
59134724 ACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
59134789 TGTGCGAATTGACCAT
66 TGTGCGAATTGACCAT
* * * *
59134805 GCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATATGATTACG-TAGCACTA
1 ACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
59134869 AGTGTGCGAGTTGATTAT
64 AGTGTGCGAATTGACCAT
* *
59134887 ATAGCACTGAGTGTGCG
1 ACAGCACTAAGTGTGCG
59134904 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 17 0.20
82 67 0.80
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCAT
Found at i:59134914 original size:27 final size:27
Alignment explanation
Indices: 59134808--59134914 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
59134798 TGACCATGCG
* * * *
59134808 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
59134836 GCACTAAGTGTGCGATATGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
59134863 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
59134890 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
59134915 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:59146186 original size:27 final size:27
Alignment explanation
Indices: 59146169--59146402 Score: 216
Period size: 27 Copynumber: 8.6 Consensus size: 27
59146159 ATATTAAGTC
59146169 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
59146196 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
59146224 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
59146251 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
59146279 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
59146306 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
59146334 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
59146361 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* *
59146388 CACACACTTAGTGCT
1 CGCACACTCAGTGCT
59146403 GCACAATTTA
Statistics
Matches: 197, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
27 118 0.60
28 79 0.40
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:59146253 original size:55 final size:55
Alignment explanation
Indices: 59146169--59146402 Score: 389
Period size: 55 Copynumber: 4.3 Consensus size: 55
59146159 ATATTAAGTC
* * * *
59146169 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
59146224 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
59146279 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* *
59146334 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
59146388 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
59146403 GCACAATTTA
Statistics
Matches: 172, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
54 17 0.10
55 155 0.90
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:59155500 original size:3 final size:3
Alignment explanation
Indices: 59155492--59155534 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
59155482 TGACTTGTGG
59155492 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
59155535 GGGAGGGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59155611 original size:16 final size:17
Alignment explanation
Indices: 59155575--59155611 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
59155565 AAGTAGTGTT
*
59155575 TTATGTTTTTTTGTATT
1 TTATGTTTTTTTGTATG
59155592 TTATGTTTTTTT-TATG
1 TTATGTTTTTTTGTATG
59155608 TTAT
1 TTAT
59155612 AATTTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (17 bp):
TTATGTTTTTTTGTATG
Found at i:59155904 original size:16 final size:16
Alignment explanation
Indices: 59155883--59155913 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59155873 TAAATATAAC
59155883 CATGCATATATAAAAT
1 CATGCATATATAAAAT
*
59155899 CATGCATCTATAAAA
1 CATGCATATATAAAA
59155914 CTTTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.29
Consensus pattern (16 bp):
CATGCATATATAAAAT
Found at i:59165333 original size:47 final size:48
Alignment explanation
Indices: 59165210--59165341 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 48
59165200 GCCACATTAT
*
59165210 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
* * * * * *
59165258 GAGAGCTAGTGTATGA-GATTTCTAGGACATGGCATCGAC-TTGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
**
59165304 TTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
59165342 GTACCTTACC
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
46 18 0.26
47 37 0.54
48 14 0.20
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
Found at i:59169789 original size:29 final size:29
Alignment explanation
Indices: 59169731--59169818 Score: 133
Period size: 29 Copynumber: 3.1 Consensus size: 29
59169721 ATACATGTAC
* * * *
59169731 ATGGCCCACTAAGCCC-AATCTCATTAAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
59169759 ATGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
59169788 ATGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
59169817 AT
1 AT
59169819 ACATGCTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
28 14 0.25
29 41 0.75
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTCAT
Found at i:59175183 original size:21 final size:21
Alignment explanation
Indices: 59175143--59175183 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59175133 TCAGACCGTG
*
59175143 TGGCTCAAACACATGGTCGTA
1 TGGCTCAAACACATGATCGTA
*
59175164 TGGCTCAAACACATTATCGT
1 TGGCTCAAACACATGATCGT
59175184 GTTGCCAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (21 bp):
TGGCTCAAACACATGATCGTA
Found at i:59179527 original size:42 final size:43
Alignment explanation
Indices: 59179426--59179582 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
59179416 AACATATACA
* * * **
59179426 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAGATACCG
* * *
59179469 ATGCCACTGCCCCAGACACGGTCTTACATGAAATCAGATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAGATACCG
* *
59179511 ATGCCAATGTCCCAGACATGGTCTTACACGCAAAAT-AGAAACCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG--AAATCAGATACCG
* **
59179555 ATGCCAATGTCTCAGAGGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
59179583 CGCAGAATAG
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 27 0.28
43 38 0.40
44 31 0.32
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAGATACCG
Found at i:59179577 original size:44 final size:44
Alignment explanation
Indices: 59179426--59179593 Score: 141
Period size: 44 Copynumber: 3.9 Consensus size: 44
59179416 AACATATACA
* * * **
59179426 ATGCCAACGTCCCAGACATGGTCTTACATG--TAATCA-AATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAAAAT-AGAA-ACCG
* * * * *
59179469 ATGCCACTGCCCCAGACACGGTCTTACATG--AAATCAGATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAAAAT-AGAAACCG
59179511 ATGCCAATGTCCCAGACATGGTCTTACACGCAAAATAGAAACCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAAAATAGAAACCG
* ** *
59179555 ATGCCAATGTCTCAGAGGTGGTCTTACACGCAGAATAGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAAAATAGA
59179594 TATCGGAATT
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.26
43 36 0.34
44 42 0.40
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGCAAAATAGAAACCG
Found at i:59189323 original size:40 final size:39
Alignment explanation
Indices: 59189232--59189337 Score: 140
Period size: 39 Copynumber: 2.7 Consensus size: 39
59189222 TCCTCGTTCA
* * * **
59189232 AATGCCTTCGGGACGTAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
*
59189271 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
*
59189310 GAATGCCTTCGGGACTTAACCCGGATTT
1 -AATGCCTTCGGGACATAACCCGGATTT
59189338 TGTATCTCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 33 0.56
40 26 0.44
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
Found at i:59189347 original size:40 final size:40
Alignment explanation
Indices: 59189230--59189454 Score: 199
Period size: 40 Copynumber: 5.7 Consensus size: 40
59189220 ACTCCTCGTT
* * *
59189230 CAAATGCCTTCGGGACGTAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTT-GTAACTCGCA
* ***
59189270 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
* *
59189309 CGAATGCCTTCGGGACTTAACCCGGATTTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
* * * * *
59189349 CAAAGGACTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
** * * *
59189389 CAAATGCCTTC-GGATCTTAGTCCGGATATAT-TCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTTGTAAC-TCGCA
*
59189430 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59189455 CAGCATTCAA
Statistics
Matches: 152, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
39 31 0.20
40 108 0.71
41 13 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
Found at i:59189463 original size:41 final size:41
Alignment explanation
Indices: 59189386--59189463 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59189376 TTTGTATCTC
* * *
59189386 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59189427 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59189464 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59196631 original size:26 final size:26
Alignment explanation
Indices: 59196592--59196653 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
59196582 GATTGAAGTG
59196592 AATTATG--ATCATGATATTATGGTA
1 AATTATGTTATCATGATATTATGGTA
59196616 AATTATGTTATCATGATATTATGGTA
1 AATTATGTTATCATGATATTATGGTA
*
59196642 AAGTATGTTATC
1 AATTATGTTATC
59196654 TTATGTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 7 0.20
26 28 0.80
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (26 bp):
AATTATGTTATCATGATATTATGGTA
Found at i:59196733 original size:17 final size:17
Alignment explanation
Indices: 59196711--59196752 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
59196701 TCTTTATACG
59196711 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
59196728 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
*
59196745 AACTTACT
1 AGCTTACT
59196753 TCGTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (17 bp):
AGCTTACTAAGCTATAT
Found at i:59197213 original size:15 final size:17
Alignment explanation
Indices: 59197183--59197214 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59197173 TTGATACTTG
59197183 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
59197200 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
59197215 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:59198936 original size:46 final size:45
Alignment explanation
Indices: 59198869--59199044 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
59198859 ATGTAACCCG
* *
59198869 TCCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTC
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTC
* *
59198915 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTC
* *** * * *
59198961 TACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCG-C
1 TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTC
*
59199007 ATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 -TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
59199045 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 69 0.65
47 34 0.32
48 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (45 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTC
Found at i:59199036 original size:93 final size:93
Alignment explanation
Indices: 59198877--59199049 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
59198867 CGTCCATAAG
* * * *
59198877 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTCTCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGTCTCCATAAGTGAACTCGGACTCAACTCA
59198942 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
59198970 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCG-CATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGTC-TCCATAAGTGAACTCGGACTCAACTC
*
59199034 AACGAGTTCGGATGCC
65 AACGAGCTCGGATGCC
59199050 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGTCTCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:59199064 original size:46 final size:45
Alignment explanation
Indices: 59198921--59199051 Score: 124
Period size: 47 Copynumber: 2.8 Consensus size: 45
59198911 CGTCTCCATA
* *
59198921 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * *
59198969 --TCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCC
59199014 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
59199052 AATATCCCAG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
44 5 0.07
45 1 0.01
46 27 0.40
47 30 0.44
48 1 0.01
49 4 0.06
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:59201475 original size:15 final size:14
Alignment explanation
Indices: 59201427--59201508 Score: 56
Period size: 15 Copynumber: 5.6 Consensus size: 14
59201417 CAAAGATAAC
*
59201427 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
59201441 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
59201456 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
59201471 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
59201486 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
59201501 AAGAAACC
1 AAGAAACC
59201509 TAAGATACGA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:59201502 original size:30 final size:30
Alignment explanation
Indices: 59201436--59201515 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
59201426 CAAGAAAACC
* *
59201436 GAATAAAGAAATCCAAGATAGAGAAACCCG
1 GAATAAAGAAATCCAAGATAAAGAAACCAG
*
59201466 GAATAAAGAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGA-AACCAG
59201497 G-ATAAAGAAA-CCTAAGATA
1 GAATAAAGAAATCC-AAGATA
59201516 CGATACTATG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
29 4 0.09
30 32 0.74
31 7 0.16
ACGTcount: A:0.55, C:0.14, G:0.19, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCAG
Found at i:59204566 original size:46 final size:46
Alignment explanation
Indices: 59204418--59204590 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
59204408 TGTAACCCGC
* * *
59204418 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
59204464 CCAT-AGTGAACTC-GACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
59204508 ACATCTCCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
59204554 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
59204591 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
44 25 0.24
45 14 0.13
46 57 0.54
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:59204609 original size:46 final size:46
Alignment explanation
Indices: 59204468--59204609 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
59204458 TCGCATCCAT
* *
59204468 AGTGAACTC-GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CC
* * * *
59204516 ---GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCC
* *
59204559 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCC
59204605 AGTGA
1 AGTGA
59204610 TATGTCACTT
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
44 7 0.09
45 6 0.08
46 57 0.77
48 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCC
Found at i:59209097 original size:64 final size:64
Alignment explanation
Indices: 59209017--59209200 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
59209007 AGACATTATG
* * * *
59209017 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
59209081 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59209146 AA
63 AA
* * *
59209148 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
59209201 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59211775 original size:19 final size:19
Alignment explanation
Indices: 59211751--59211788 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59211741 GTGAAAAGTC
59211751 TGATAAATTTCAAGAGTTT
1 TGATAAATTTCAAGAGTTT
59211770 TGATAAATTTCAAGAGTTT
1 TGATAAATTTCAAGAGTTT
59211789 CGTGCAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
TGATAAATTTCAAGAGTTT
Found at i:59214499 original size:13 final size:13
Alignment explanation
Indices: 59214481--59214505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59214471 CGGTAGGGTT
59214481 ACGCCCGTGTGAC
1 ACGCCCGTGTGAC
59214494 ACGCCCGTGTGA
1 ACGCCCGTGTGA
59214506 GTCGTGCTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.32, T:0.16
Consensus pattern (13 bp):
ACGCCCGTGTGAC
Found at i:59229253 original size:30 final size:30
Alignment explanation
Indices: 59229209--59229297 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
59229199 CAAAGATAAC
*
59229209 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
59229238 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
59229268 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
59229298 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:59229257 original size:15 final size:14
Alignment explanation
Indices: 59229209--59229291 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
59229199 CAAAGATAAC
*
59229209 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
59229223 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
59229238 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
59229253 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
59229268 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
59229283 AAGAAACCC
1 AAGAAACCC
59229292 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:59229297 original size:15 final size:15
Alignment explanation
Indices: 59229220--59229297 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
59229210 AGAAAACCGA
59229220 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
59229235 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
59229249 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59229264 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59229280 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59229295 ATA
1 ATA
59229298 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59232305 original size:46 final size:44
Alignment explanation
Indices: 59232186--59232361 Score: 192
Period size: 46 Copynumber: 3.9 Consensus size: 44
59232176 TGTAACGCCC
* * *
59232186 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATC
1 CATAACTGAACTCGGACTCAACTCAACGAGCTCGG-ATGCGCATA
*
59232231 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CAGTTA
1 CATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGCGCA--TA
** * * *
59232276 CATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAACT-GAACTCGGACTCAACTCAACGAGCTCGG--ATGCGCATA
* *
59232323 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGC
59232362 CCAAAATCCT
Statistics
Matches: 113, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.02
44 6 0.05
45 40 0.35
46 55 0.49
47 5 0.04
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (44 bp):
CATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGCGCATA
Found at i:59232349 original size:92 final size:91
Alignment explanation
Indices: 59232193--59232362 Score: 313
Period size: 92 Copynumber: 1.9 Consensus size: 91
59232183 CCCCATAAGT
59232193 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
59232258 GAGCTCGGATGCCAGTTACATCTCTC
66 GAGCTCGGATGCCAGTTACATCTCTC
*
59232284 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59232349 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
59232363 CAAAATCCTA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 27 0.36
92 49 0.64
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCAGTTACATCTCTC
Found at i:59236026 original size:35 final size:35
Alignment explanation
Indices: 59235972--59236095 Score: 158
Period size: 35 Copynumber: 3.5 Consensus size: 35
59235962 CATATGGCCG
*
59235972 AATATACAAATTCAATATAACCTCACATGTAGCCA
1 AATATACAAGTTCAATATAACCTCACATGTAGCCA
* * * **
59236007 AATATACAAGTTCAGTATAAGCTCAAATGTAATCA
1 AATATACAAGTTCAATATAACCTCACATGTAGCCA
* * **
59236042 AATACACAAGTTTAATATAACCTCACATGTAGCTG
1 AATATACAAGTTCAATATAACCTCACATGTAGCCA
59236077 AATATACAAGTTCAATATA
1 AATATACAAGTTCAATATA
59236096 TACTTACCTA
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (35 bp):
AATATACAAGTTCAATATAACCTCACATGTAGCCA
Found at i:59238529 original size:20 final size:20
Alignment explanation
Indices: 59238504--59238567 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
59238494 TAAACGTGAT
59238504 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
59238524 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
59238544 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
59238564 ATGT
1 ATGT
59238568 TCATAAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:59238544 original size:11 final size:11
Alignment explanation
Indices: 59238508--59238562 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59238498 CGTGATATGT
59238508 ATGATATGCAC
1 ATGATATGCAC
* *
59238519 ATGACATG--T
1 ATGATATGCAC
59238528 ATGATATGCAC
1 ATGATATGCAC
*
59238539 ATGATATG--T
1 ATGATATGCAC
59238548 ATGATATGCAC
1 ATGATATGCAC
59238559 ATGA
1 ATGA
59238563 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59238699 original size:47 final size:47
Alignment explanation
Indices: 59238614--59238710 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
59238604 AGGAAGTGCA
* *
59238614 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTACT
59238661 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAAGGGCTTATGCCCCAGTTACT
59238708 AAA
1 AAA
59238711 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 36 0.77
48 11 0.23
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTACT
Found at i:59238717 original size:24 final size:23
Alignment explanation
Indices: 59238613--59238717 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 23
59238603 GAGGAAGTGC
59238613 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
59238636 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
59238660 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
59238684 AAAAAGGGCTT-TGCCCCAGTTACT
1 -AAAAGGGCTTATGCCCCAGTTA-T
59238708 AAAAGAGGCT
1 AAAAG-GGCT
59238718 AGGCCTCCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
23 26 0.35
24 40 0.53
25 9 0.12
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:59246731 original size:49 final size:49
Alignment explanation
Indices: 59246675--59247085 Score: 617
Period size: 47 Copynumber: 8.6 Consensus size: 49
59246665 TATTTGAATA
59246675 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59246724 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59246773 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
59246820 AATGTGAAAGTGTATATATATGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59246869 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59246918 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59246965 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
59247012 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
59247059 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
59247086 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 185 0.55
48 1 0.00
49 153 0.45
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:59246938 original size:145 final size:145
Alignment explanation
Indices: 59246675--59247085 Score: 668
Period size: 145 Copynumber: 2.9 Consensus size: 145
59246665 TATTTGAATA
59246675 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
59246740 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
59246805 ATGGCCAATGTGATG
131 ATAGCCAATGTGATG
*
59246820 AATGTGAAAGTGTATATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
59246885 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
59246950 ATAGCCGATGTGATG
131 ATAGCCAATGTGATG
* *
59246965 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * * * * *
59247026 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59247086 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 54 0.22
143 44 0.18
145 153 0.61
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
ATAGCCAATGTGATG
Found at i:59249371 original size:40 final size:40
Alignment explanation
Indices: 59249310--59249663 Score: 523
Period size: 40 Copynumber: 8.9 Consensus size: 40
59249300 AGGTCTCGAC
59249310 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59249349 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59249389 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59249429 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59249469 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59249509 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
59249549 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
59249589 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* ** * *
59249629 GTTACATCCGGGCTAGGTCCCGAAGAGCAATCATG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATG
59249664 ATGGTGACGT
Statistics
Matches: 286, Mismatches: 26, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.02
40 279 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:59252987 original size:49 final size:49
Alignment explanation
Indices: 59252931--59253341 Score: 608
Period size: 47 Copynumber: 8.6 Consensus size: 49
59252921 TATTTGAATA
59252931 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59252980 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59253029 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
59253076 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAGTGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59253125 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59253174 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59253221 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGGGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
59253268 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
59253315 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
59253342 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 21, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
47 183 0.54
48 1 0.00
49 153 0.45
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:59253194 original size:145 final size:145
Alignment explanation
Indices: 59252931--59253341 Score: 652
Period size: 145 Copynumber: 2.9 Consensus size: 145
59252921 TATTTGAATA
*
59252931 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATA
59252996 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
59253061 ATGGCCAATGTGATG
131 ATAGCCAATGTGATG
59253076 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATA
*
59253141 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
59253206 ATAGCCGATGTGATG
131 ATAGCCAATGTGATG
* *
59253221 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC-GATGGGATGAATGTGAAAGTG--T
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAG-TGTGATGAATGTGAAAGTGTAT
* * * * * * * *
59253281 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
65 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59253342 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
141 54 0.22
142 1 0.00
143 43 0.17
145 153 0.61
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATA
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
ATAGCCAATGTGATG
Found at i:59257118 original size:9 final size:9
Alignment explanation
Indices: 59257106--59257162 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
59257096 TTTGATAAAC
59257106 ATGATATGT
1 ATGATATGT
*
59257115 ATGATATGCAC
1 ATGATATG--T
*
59257126 ATGACATGT
1 ATGATATGT
*
59257135 ATGATATGCAC
1 ATGATATG--T
59257146 ATGATATGT
1 ATGATATGT
59257155 ATGATATG
1 ATGATATG
59257163 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:59257129 original size:20 final size:20
Alignment explanation
Indices: 59257104--59257174 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
59257094 ATTTTGATAA
59257104 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59257124 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
59257144 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59257164 ACATGAGATGT
1 ACATGATATGT
59257175 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59257151 original size:11 final size:11
Alignment explanation
Indices: 59257115--59257169 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59257105 CATGATATGT
59257115 ATGATATGCAC
1 ATGATATGCAC
* *
59257126 ATGACATG--T
1 ATGATATGCAC
59257135 ATGATATGCAC
1 ATGATATGCAC
*
59257146 ATGATATG--T
1 ATGATATGCAC
59257155 ATGATATGCAC
1 ATGATATGCAC
59257166 ATGA
1 ATGA
59257170 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59257306 original size:47 final size:47
Alignment explanation
Indices: 59257221--59257312 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
59257211 AGGAAGTGCA
*
59257221 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
59257268 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA-TAAAAAGGGCTTATGCCCCAGTTA
59257313 CAAAAAGAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
47 32 0.74
48 11 0.26
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
Found at i:59257324 original size:24 final size:25
Alignment explanation
Indices: 59257220--59257338 Score: 151
Period size: 24 Copynumber: 4.9 Consensus size: 25
59257210 GAGGAAGTGC
59257220 AAAAGGGCTTATGCCCCAGTTATC-
1 AAAAGGGCTTATGCCCCAGTTATCA
59257244 AAAAGGGCTTATGCCCCAGTTAT--
1 AAAAGGGCTTATGCCCCAGTTATCA
* *
59257267 TAAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATCA
59257292 AAAAGGGCTT-TGCCCCAGTTA-CA
1 AAAAGGGCTTATGCCCCAGTTATCA
*
59257315 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59257339 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
23 29 0.34
24 40 0.47
25 16 0.19
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTATCA
Found at i:59259807 original size:51 final size:49
Alignment explanation
Indices: 59259624--59259819 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 49
59259614 TAGCCAAAGC
* * * *
59259624 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
59259673 TATCCGGTA-GACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACG-CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * *
59259723 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
59259774 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
59259820 TCACAATAGA
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 39 0.32
50 41 0.34
51 39 0.32
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:59259818 original size:101 final size:99
Alignment explanation
Indices: 59259637--59259820 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 99
59259627 CTGGTACGCA
* *
59259637 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTAGACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTAGACATAGTAGCCTACACTTA
59259702 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * * * * *
59259736 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACG-CATAGTAGCCTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGCGA-C-CAATTATCCGGTA-GACATAGTAGCCTACAC
*
59259800 TTAGTACTACACATGTGACCT
63 TTAGTACTACACACGTGACCT
59259821 CACAATAGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
99 28 0.38
100 1 0.01
101 43 0.59
102 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTAGACATAGTAGCCTACACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:59262003 original size:15 final size:15
Alignment explanation
Indices: 59261979--59262017 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
59261969 TCTAAGATAG
59261979 AAAAACCCAGAATAA
1 AAAAACCCAGAATAA
*
59261994 AAAAATCCAGAATAA
1 AAAAACCCAGAATAA
*
59262009 AGAAACCCA
1 AAAAACCCA
59262018 AGATACGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.64, C:0.21, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAACCCAGAATAA
Found at i:59265138 original size:50 final size:49
Alignment explanation
Indices: 59265028--59265203 Score: 181
Period size: 50 Copynumber: 3.5 Consensus size: 49
59265018 CTGGTACGCA
* * * ** * *
59265028 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
59265077 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
**** * * * *
59265127 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCGATACACG
59265178 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59265204 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 42 0.39
51 35 0.32
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:59265211 original size:101 final size:99
Alignment explanation
Indices: 59265028--59265211 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 99
59265018 CTGGTACGCA
* *
59265028 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTAGACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTAGACATAGTAGCCTGCACTTA
*
59265093 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * *
59265127 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACG-CATAGTAGCCTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGCGA-C-CAATTATCCGGTA-GACATAGTAGCCTGCAC
*
59265191 TTAGTACTACACATGCGACCT
63 TTAGTACTACACACGCGACCT
59265212 CACAATAGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
99 28 0.38
100 1 0.01
101 43 0.59
102 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTAGACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:59273516 original size:21 final size:20
Alignment explanation
Indices: 59273492--59273534 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
59273482 AAACTTGTTT
*
59273492 ATCTAACATCAAATATTCATA
1 ATCTAACATCAAACA-TCATA
*
59273513 ATCTATCATCAAACATCATA
1 ATCTAACATCAAACATCATA
59273533 AT
1 AT
59273535 ACTCATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCTAACATCAAACATCATA
Found at i:59277559 original size:40 final size:40
Alignment explanation
Indices: 59277522--59277614 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
59277512 GCTACTCGTT
* *
59277522 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATT-TAGTAACTCGCA
*
59277562 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
59277602 CAAATGCCTTCGG
1 CAAATGCCTTCGG
59277615 ATCTTAGTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 46 0.94
41 3 0.06
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
Found at i:59285458 original size:40 final size:40
Alignment explanation
Indices: 59285402--59285526 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 40
59285392 CGGAATTTAA
**
59285402 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAGC
* * *
59285442 CCGGTTATAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CATAGC
* * *
59285482 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACATAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAGC
59285522 CCGGA
1 CCGGA
59285527 CATCGTTCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.06
40 55 0.79
41 11 0.16
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAGC
Found at i:59291697 original size:6 final size:6
Alignment explanation
Indices: 59291676--59291791 Score: 85
Period size: 6 Copynumber: 18.8 Consensus size: 6
59291666 TACTAGAACT
* * * * *
59291676 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATT GGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
59291725 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAAT-
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC
59291775 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
59291792 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
5 5 0.06
6 69 0.81
7 7 0.08
8 4 0.05
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:59291717 original size:37 final size:37
Alignment explanation
Indices: 59291676--59291782 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
59291666 TACTAGAACT
* *
59291676 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
** *
59291713 AGAATTGGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
*
59291750 AGAATCAGAATCAGTATCAGGTAAT-AGAATCAG
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAG
59291783 AATCAGAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 48 0.81
38 8 0.14
39 3 0.05
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:59291752 original size:25 final size:25
Alignment explanation
Indices: 59291724--59291791 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
59291714 GAATTGGAAT
* *
59291724 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
59291749 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
59291774 TAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
59291792 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:59291784 original size:31 final size:31
Alignment explanation
Indices: 59291688--59291791 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
59291678 AATCAAAATG
* * *
59291688 AGAATCAGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTAATAGAATC
* *
59291719 GGAATCAGAATCAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-TAGAAT--C
*
59291750 AGAATCAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGGTAATAGAATC
59291781 AGAATCAGAAT
1 AGAATCAGAAT
59291792 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 47 0.80
32 4 0.07
33 3 0.05
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAATAGAATC
Found at i:59291990 original size:28 final size:27
Alignment explanation
Indices: 59291911--59291997 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
59291901 AGCATGGTTG
* *
59291911 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
* *
59291937 CTAGATACAGATATTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
59291964 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
59291992 CCAGAA
1 CCAGAA
59291998 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 3 0.06
27 30 0.58
28 19 0.37
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:59293601 original size:33 final size:33
Alignment explanation
Indices: 59293564--59293656 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 33
59293554 CATACTGCAT
* *
59293564 TGATTTTGTAATGGGCTTAGGCCCTACTGATAC
1 TGATTATGTAATGGGCTAAGGCCCTACTGATAC
* * * * *
59293597 TGATTCTGTAAAGGGCTGAGG-CCTACACTGTTTC
1 TGATTATGTAATGGGCTAAGGCCCT--ACTGATAC
*
59293631 TGATTATGAAATGGGCTAAGGCCCTA
1 TGATTATGTAATGGGCTAAGGCCCTA
59293657 ACTAAAACTG
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
32 3 0.06
33 19 0.40
34 23 0.48
35 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (33 bp):
TGATTATGTAATGGGCTAAGGCCCTACTGATAC
Found at i:59294735 original size:43 final size:42
Alignment explanation
Indices: 59294665--59294766 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 42
59294655 AGTGTCATGT
* * *
59294665 CCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAATAG
1 CCCAGATATGGTCTTACAAGAGATCTCATATCGATGCC-ATAG
* *
59294708 CCCAGCTATGGTCTTACAAGA-AGTCTCATATCGATGCCATAT
1 CCCAGATATGGTCTTACAAGAGA-TCTCATATCGATGCCATAG
59294750 CCCAGATATGGTCTTAC
1 CCCAGATATGGTCTTAC
59294767 TCGTAATCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 20 0.38
43 32 0.62
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
CCCAGATATGGTCTTACAAGAGATCTCATATCGATGCCATAG
Found at i:59294777 original size:42 final size:41
Alignment explanation
Indices: 59294664--59294777 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 41
59294654 CAGTGTCATG
* *
59294664 TCCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAATA
1 TCCCAGATATGGTCTTAC-T-GAATCTCATATCGATGCCAATA
* * *
59294707 GCCCAGCTATGGTCTTACAAGAAGTCTCATATCGATGCC-ATA
1 TCCCAGATATGGTCTTAC-TGAA-TCTCATATCGATGCCAATA
59294749 TCCCAGATATGGTCTTACTCGTAATCTCA
1 TCCCAGATATGGTCTTACT-G-AATCTCA
59294778 AATAACCCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (41 bp):
TCCCAGATATGGTCTTACTGAATCTCATATCGATGCCAATA
Found at i:59304125 original size:13 final size:13
Alignment explanation
Indices: 59304070--59304132 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
59304060 TTTCTATTTC
*
59304070 CATATAATCGATT
1 CATATAATCTATT
* *
59304083 CAAATAATCAATT
1 CATATAATCTATT
* * *
59304096 TATATATTCATTTTT
1 CATATAATC--TATT
59304111 CATATAATCTATT
1 CATATAATCTATT
59304124 CATATAATC
1 CATATAATC
59304133 ATTTTATATA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
13 29 0.76
15 9 0.24
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (13 bp):
CATATAATCTATT
Found at i:59304141 original size:13 final size:13
Alignment explanation
Indices: 59304086--59304150 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
59304076 ATCGATTCAA
*
59304086 ATAATCAATTTAT
1 ATAATCATTTTAT
*
59304099 ATATTCATTTTTCAT
1 ATAATCA-TTTT-AT
*
59304114 ATAATC-TATTCAT
1 ATAATCAT-TTTAT
59304127 ATAATCATTTTAT
1 ATAATCATTTTAT
*
59304140 ATATTCATTTT
1 ATAATCATTTT
59304151 CCATATAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 29 0.69
14 6 0.14
15 7 0.17
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAATCATTTTAT
Found at i:59304143 original size:28 final size:28
Alignment explanation
Indices: 59304081--59304137 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
59304071 ATATAATCGA
* * *
59304081 TTCAAATAATCAATTTATATATTCATTT
1 TTCATATAATCAATTCATATAATCATTT
*
59304109 TTCATATAATCTATTCATATAATCATTT
1 TTCATATAATCAATTCATATAATCATTT
59304137 T
1 T
59304138 ATATATTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (28 bp):
TTCATATAATCAATTCATATAATCATTT
Found at i:59304174 original size:41 final size:41
Alignment explanation
Indices: 59304045--59304194 Score: 155
Period size: 41 Copynumber: 3.7 Consensus size: 41
59304035 ACCCAAATCT
* * * *
59304045 TAAAATCATTATGTAT-TTC-TATTTCCATATAATCGATTCA
1 TAAAATCATTTTATATATTCAT-TTTCCATATAATCTATCCA
* * *
59304085 -AATAATCAATTTATATATTCATTTTTCATATAATCTATTCA
1 TAA-AATCATTTTATATATTCATTTTCCATATAATCTATCCA
*
59304126 TATAATCATTTTATATATTCATTTTCCATATAA-CTAATCCA
1 TAAAATCATTTTATATATTCATTTTCCATATAATCT-ATCCA
* *
59304167 TAAAATCATTTTAAAAATTCATTTTCCA
1 TAAAATCATTTTATATATTCATTTTCCA
59304195 CTTAATGAAC
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
39 2 0.02
40 12 0.13
41 77 0.83
42 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.01, T:0.46
Consensus pattern (41 bp):
TAAAATCATTTTATATATTCATTTTCCATATAATCTATCCA
Found at i:59307213 original size:120 final size:120
Alignment explanation
Indices: 59306997--59307259 Score: 304
Period size: 120 Copynumber: 2.2 Consensus size: 120
59306987 TTGAATGCTG
* *
59306997 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
*
59307061 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTT-TGTACGAGA-TACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTGTGT--GA-ATTACTAAA
* * * * **
59307117 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
59307180 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCGTTGTGTGAATTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTGTGTGAATTACTAAA
* *
59307236 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
59307260 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
118 1 0.01
119 31 0.25
120 78 0.64
121 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTGTGTGAATTACTAAA
Found at i:59307252 original size:39 final size:40
Alignment explanation
Indices: 59306997--59307259 Score: 264
Period size: 40 Copynumber: 6.6 Consensus size: 40
59306987 TTGAATGCTG
* * * * * *
59306997 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * *
59307037 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * * *
59307076 TTCCGGGTTAAGCCCCGAAGGCCTTTGTACGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59307117 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59307157 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59307197 TCCGGGTTAAGTCCCGAAGGCGTT-GTGTGAATTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59307236 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59307260 TGAACGAGGA
Statistics
Matches: 193, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.18
40 148 0.77
41 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:59315216 original size:120 final size:120
Alignment explanation
Indices: 59314996--59315258 Score: 302
Period size: 120 Copynumber: 2.2 Consensus size: 120
59314986 TTGAATGCTG
* *
59314996 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
59315060 TGTGCGAGATACAAATTCCGGGTTAAGCCCCAAAGGCCTTTGTGCGAGA-TACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCAAAGG-CGTTGTGCGA-ATTACTAAA
* * * * **
59315116 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
59315179 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCGTTGTGTGAATTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCAAAGGCGTTGTGCGAATTACTAAA
* *
59315235 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
59315259 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 1 0.01
119 37 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCAAAGGCGTTGTGCGAATTACTAAA
Found at i:59315251 original size:39 final size:40
Alignment explanation
Indices: 59314996--59315258 Score: 264
Period size: 40 Copynumber: 6.6 Consensus size: 40
59314986 TTGAATGCTG
* * * * * *
59314996 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * *
59315036 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * * *
59315075 TTCCGGGTTAAGCCCCAAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59315116 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59315156 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59315196 TCCGGGTTAAGTCCCGAAGGCGTT-GTGTGAATTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59315235 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59315259 TGAACGAGGA
Statistics
Matches: 193, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.18
40 148 0.77
41 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:59315279 original size:79 final size:80
Alignment explanation
Indices: 59315110--59315293 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
59315100 TGTGCGAGAT
* * * *
59315110 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTACTAAAACCGGGCTAAGTCCCGAAG
** *
59315175 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * * *
59315190 ATTAAATCCGGGTTAAGTCCCGAAGGCGTT-GTGTGAATTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTACTAAAACCGGGCTAAGTCCCGAAG
*
59315254 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
59315268 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
59315294 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.18
79 44 0.50
80 28 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:59319635 original size:48 final size:47
Alignment explanation
Indices: 59319524--59319731 Score: 178
Period size: 46 Copynumber: 4.4 Consensus size: 47
59319514 GTGCGCCAGC
* * *
59319524 GTAAGACATGTCTGGGACATGCATCGACCACATTGCG--AA-AGCTAGT
1 GTAAGACATGTCTGGGACATGCATC-AGC-CTTTGAGACAAGAGCTAGT
* * * *
59319570 GGAAGACATGTCTGGGACATGCATCAGCC-TTGAGATATGTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTTTGAGACA--AGAGCTAGT
*
59319618 GTAAGACATGTCTGGGACATGCATC-GCCTTTGAGACAAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTTTGAGACAAGAGCTAGT
* * * ** * *
59319664 GTAAGACACGTATGGGACATGCATTAGCCACATCA-TCAA-AGCTAGT
1 GTAAGACATGTCTGGGACATGCATCAGCC-TTTGAGACAAGAGCTAGT
59319710 GTAAGACCATGTCTGGGACATG
1 GTAAGA-CATGTCTGGGACATG
59319732 GCATTGGCTT
Statistics
Matches: 133, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 3 0.02
46 64 0.48
47 22 0.17
48 39 0.29
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATCAGCCTTTGAGACAAGAGCTAGT
Found at i:59319670 original size:94 final size:93
Alignment explanation
Indices: 59319509--59319692 Score: 228
Period size: 94 Copynumber: 2.0 Consensus size: 93
59319499 CAGTGTAGGT
* *
59319509 GATATGTGCGCCAGCGTAAGACATGTCTGGGACATGCATCGACCACATTGCGAAAGCTAGTGGAA
1 GATATGTGCGCCAGCGTAAGACATGTCTGGGACATGCATCGA-CACATTGAGAAAGCCAGTGGAA
* *
59319574 GACATGTCTGGGACATGCATCAGCCTTGA
65 GACACGTATGGGACATGCATCAGCCTTGA
* * * * *
59319603 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCG-C-CTTTGAGACAAGAGCCAGTGT
1 GATATGTGCGCCAGCGTAAGACATGTCTGGGACATGCATCGACACATTGAG--AA-AGCCAGTGG
*
59319666 AAGACACGTATGGGACATGCATTAGCC
63 AAGACACGTATGGGACATGCATCAGCC
59319693 ACATCATCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
91 5 0.06
92 1 0.01
93 2 0.03
94 69 0.90
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (93 bp):
GATATGTGCGCCAGCGTAAGACATGTCTGGGACATGCATCGACACATTGAGAAAGCCAGTGGAAG
ACACGTATGGGACATGCATCAGCCTTGA
Found at i:59319799 original size:140 final size:139
Alignment explanation
Indices: 59319518--59319767 Score: 307
Period size: 140 Copynumber: 1.8 Consensus size: 139
59319508 TGATATGTGC
* * *
59319518 GCCAGCGTAAGACATGTCTGGGACATGCATCGACCACATTGCGAAAGCTAGTGGAAGACATGTCT
1 GCCAGCGTAAGACACGTATGGGACATGCATAGACCACATTGCGAAAGCTAGTGGAAGACATGTCT
**
59319583 GGGACATGCATCAGCCTTGAGATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGCCTT
66 GGGACATGCATCAGCCTT-AGATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGCCGA
59319648 TGAGACAAGA
130 TGAGACAAGA
* *
59319658 GCCAGTGTAAGACACGTATGGGACATGCATTAG-CCACATCAT-C-AAAGCTAGTGTAAGACCAT
1 GCCAGCGTAAGACACGTATGGGACATGCA-TAGACCACAT--TGCGAAAGCTAGTGGAAGA-CAT
* * *
59319720 GTCTGGGACATGGCAT-TGGCTT-GATATGTGT-C-AGTGTAAGACCTGTCT
62 GTCTGGGACAT-GCATCAGCCTTAGATATGTGTGCTAGTGTAAGACATGTCT
59319768 AGGATACAGC
Statistics
Matches: 97, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
137 15 0.15
138 1 0.01
139 9 0.09
140 46 0.47
141 21 0.22
142 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (139 bp):
GCCAGCGTAAGACACGTATGGGACATGCATAGACCACATTGCGAAAGCTAGTGGAAGACATGTCT
GGGACATGCATCAGCCTTAGATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGCCGAT
GAGACAAGA
Found at i:59323810 original size:22 final size:21
Alignment explanation
Indices: 59323761--59323815 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
59323751 TAGATGAAAA
*
59323761 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
*
59323782 AATATGTGTATAATATAGTATTT
1 AA-ATGTATATAATATAGTA-TT
59323805 AAATGTATATA
1 AAATGTATATA
59323816 CATAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:59324740 original size:11 final size:11
Alignment explanation
Indices: 59324726--59324750 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59324716 TTTTCTCTTC
59324726 TTTTTTATTTA
1 TTTTTTATTTA
59324737 TTTTTTATTTA
1 TTTTTTATTTA
59324748 TTT
1 TTT
59324751 AATATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:59326606 original size:17 final size:17
Alignment explanation
Indices: 59326584--59326616 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
59326574 CAGTTTTGGG
59326584 CTATAATGAAATGTTTC
1 CTATAATGAAATGTTTC
59326601 CTATAATGAAATGTTT
1 CTATAATGAAATGTTT
59326617 GAAGTTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
CTATAATGAAATGTTTC
Found at i:59339594 original size:39 final size:39
Alignment explanation
Indices: 59339540--59339757 Score: 339
Period size: 39 Copynumber: 5.5 Consensus size: 39
59339530 TAATGGAGAA
* * *
59339540 TTATATCCGGGCTAAGTCCCAAAGACATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
59339579 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
59339618 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
59339657 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
59339696 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
59339735 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
59339758 CATGCTTTGT
Statistics
Matches: 169, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 147 0.87
40 22 0.13
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:59341773 original size:27 final size:27
Alignment explanation
Indices: 59341743--59341797 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
59341733 GGTAAACACT
*
59341743 TAAAATAATATTAGAATAAATTTTCAA
1 TAAAATAATATTAAAATAAATTTTCAA
59341770 TAAAATAATATTAAAATAAATTTTCAA
1 TAAAATAATATTAAAATAAATTTTCAA
59341797 T
1 T
59341798 CTCAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAAATAATATTAAAATAAATTTTCAA
Found at i:59350154 original size:15 final size:15
Alignment explanation
Indices: 59350134--59350189 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
59350124 GTATCTTGGG
59350134 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
59350149 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
59350164 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
59350179 TTTCTTTATTC
1 TTTCTTTATTC
59350190 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59352166 original size:46 final size:46
Alignment explanation
Indices: 59352110--59352282 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
59352100 TGGTTGAGCA
59352110 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59352156 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
59352201 CATCCGAACTCGTTGAGTTGAGTCCGAGTGCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59352249 CCCGAGCTCGTTGAGTTGACTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59352283 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59352266 original size:93 final size:93
Alignment explanation
Indices: 59352107--59352277 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
59352097 GGATGGTTGA
* * *
59352107 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
59352172 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGACTCCGAGTTCGTGAAATGTAACTAG
* *
59352200 GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCAGTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59352265 TGACTCCGAGTTC
66 TGACTCCGAGTTC
59352278 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGACTCCGAGTTCGTGAAATGTAACTAG
Found at i:59355759 original size:25 final size:25
Alignment explanation
Indices: 59355731--59355800 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
59355721 CTCTTTTAAT
59355731 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
59355756 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
59355781 AACTCGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59355801 TCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:59355871 original size:20 final size:20
Alignment explanation
Indices: 59355846--59355883 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59355836 ATATATGAAT
*
59355846 ATATCATGCGCATTTCATAC
1 ATATCATGCGCATATCATAC
*
59355866 ATATCATGTGCATATCAT
1 ATATCATGCGCATATCAT
59355884 GTCAAATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
ATATCATGCGCATATCATAC
Found at i:59358212 original size:12 final size:12
Alignment explanation
Indices: 59358197--59358238 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
59358187 ACTTTAAAAA
*
59358197 AATATGATATTT
1 AATATAATATTT
59358209 AATAATAAT-TTT
1 AAT-ATAATATTT
*
59358221 AAAATAATATTT
1 AATATAATATTT
59358233 AATATA
1 AATATA
59358239 TAATATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 5 0.20
12 16 0.64
13 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
AATATAATATTT
Found at i:59358241 original size:14 final size:13
Alignment explanation
Indices: 59358203--59358251 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
59358193 AAAAAATATG
59358203 ATATTTAATAATA
1 ATATTTAATAATA
59358216 AT-TTTAA-AATA
1 ATATTTAATAATA
59358227 ATATTTAATATATA
1 ATATTTAATA-ATA
*
59358241 ATATATAATAA
1 ATATTTAATAA
59358252 CAAAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.19
12 10 0.31
13 4 0.12
14 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:59358604 original size:21 final size:20
Alignment explanation
Indices: 59358563--59358628 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
59358553 TAATATAGAT
* **
59358563 AAAAAATATATAATAGTATA
1 AAAAAATACATAATAAAATA
59358583 AAAAAATGACATAATAAAATAA
1 AAAAAAT-ACATAATAAAAT-A
*
59358605 AATAAAATA-ATATATAATATA
1 AA-AAAATACATA-ATAAAATA
59358626 AAA
1 AAA
59358629 GTATATATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 8 0.21
21 15 0.39
22 10 0.26
23 5 0.13
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAAAATACATAATAAAATA
Found at i:59358649 original size:15 final size:17
Alignment explanation
Indices: 59358601--59358708 Score: 74
Period size: 15 Copynumber: 6.8 Consensus size: 17
59358591 ACATAATAAA
*
59358601 ATAAAATAAAATAATAT
1 ATAATATAAAATAATAT
59358618 ATAATATAAAAGT-ATAT
1 ATAATATAAAA-TAATAT
*
59358635 AT-GTA-AAAATAATAT
1 ATAATATAAAATAATAT
*
59358650 ATAATAT---AT-ATAA
1 ATAATATAAAATAATAT
* *
59358663 ATAATAT-GAATAATAA
1 ATAATATAAAATAATAT
59358679 AT-A-ATAAAATAATTAT
1 ATAATATAAAATAA-TAT
*
59358695 ATAATATAATATAA
1 ATAATATAAAATAA
59358709 AAATAAGATT
Statistics
Matches: 73, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
13 10 0.14
14 5 0.07
15 18 0.25
16 14 0.19
17 17 0.23
18 9 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAATATAAAATAATAT
Found at i:59358666 original size:13 final size:13
Alignment explanation
Indices: 59358551--59358707 Score: 62
Period size: 13 Copynumber: 12.7 Consensus size: 13
59358541 TTTTGATAAT
*
59358551 AATAATATAGATA
1 AATAATATATATA
59358564 AA-AA-ATATAT-
1 AATAATATATATA
* * *
59358574 AATAGTATAAAAA
1 AATAATATATATA
59358587 AATGACATA-ATA-A
1 AAT-A-ATATATATA
59358600 AATAA-A-ATA-A
1 AATAATATATATA
59358610 AATAATATATAATA
1 AATAATATAT-ATA
59358624 TAA-AAGTATATATGTA
1 -AATAA-TATATA--TA
59358640 AA-AATA-ATAT-
1 AATAATATATATA
59358650 -ATAATATATATA
1 AATAATATATATA
59358662 AATAATATGA-AT-
1 AATAATAT-ATATA
59358674 AATAA-ATA-ATAA
1 AATAATATATAT-A
59358686 AATAAT-TATATA
1 AATAATATATATA
59358698 ATATAATATA
1 A-ATAATATA
59358708 AAAATAAGAT
Statistics
Matches: 114, Mismatches: 6, Indels: 47
0.68 0.04 0.28
Matches are distributed among these distances:
9 1 0.01
10 19 0.17
11 15 0.13
12 23 0.20
13 29 0.25
14 12 0.11
15 13 0.11
16 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (13 bp):
AATAATATATATA
Found at i:59358678 original size:16 final size:15
Alignment explanation
Indices: 59358546--59358713 Score: 73
Period size: 16 Copynumber: 10.9 Consensus size: 15
59358536 AAAACTTTTG
59358546 ATAAT-AATAATATA
1 ATAATAAATAATATA
*
59358560 GATAAAAAAT-ATATA
1 -ATAATAAATAATATA
*
59358575 ATAGTATAAA-AAAATGA
1 ATA--ATAAATAATAT-A
*
59358592 CATAATAAAATAAAATAAA
1 -ATAAT-AAAT--AATATA
*
59358611 ATAATATATAATATA
1 ATAATAAATAATATA
* * *
59358626 A-AAGTATATATGTAAAA
1 ATAA-TAAATA-AT-ATA
*
59358643 ATAATATATAATAT-
1 ATAATAAATAATATA
59358657 AT-ATAAATAATATGA
1 ATAATAAATAATAT-A
*
59358672 ATAATAAATAATAAA
1 ATAATAAATAATATA
*
59358687 ATAATTATATAATATA
1 ATAA-TAAATAATATA
59358703 AT-ATAAA-AATA
1 ATAATAAATAATA
59358714 AGATTAAAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
13 14 0.12
14 10 0.08
15 30 0.25
16 35 0.29
17 16 0.13
18 10 0.08
19 1 0.01
20 3 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (15 bp):
ATAATAAATAATATA
Found at i:59358678 original size:32 final size:32
Alignment explanation
Indices: 59358608--59358714 Score: 103
Period size: 32 Copynumber: 3.2 Consensus size: 32
59358598 AAAATAAAAT
*
59358608 AAAATAATATATAATATA-A-AAGTATATATGTA
1 AAAATAATATATAATATATATAAATA-ATATG-A
59358640 AAAATAATATATAATATATATAAATAATATGA
1 AAAATAATATATAATATATATAAATAATATGA
* *
59358672 ATAATAAATAATAAAATAATTATATAATATAATAT-A
1 AAAAT-AAT-ATATAAT-A-TATATAA-ATAATATGA
59358708 AAAATAA
1 AAAATAA
59358715 GATTAAAAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
32 23 0.36
33 9 0.14
34 10 0.16
35 3 0.05
36 12 0.19
37 7 0.11
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (32 bp):
AAAATAATATATAATATATATAAATAATATGA
Found at i:59361142 original size:408 final size:410
Alignment explanation
Indices: 59360365--59361263 Score: 1514
Period size: 408 Copynumber: 2.2 Consensus size: 410
59360355 GCTTCTTTGG
*
59360365 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
* * *
59360430 GCCAAATCAGCTTTGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTAGATCT
66 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAACACAAGGATACTAAATCATCTTAGATCT
* *
59360495 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCTCCCCGTTGAAGTGGAGATGC
131 GCTTCAGTATAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
*
59360560 CAGACTTCGATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAA
196 CAGACTTCGATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAA
* *
59360625 ACACGTGAAAGCCAAATCAGCAATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCA
261 ACACGTGAAAGCCAAATCAACAATGTCTTCGATTCGCTCCTTGTAAGCACAAGAATGCTAAATCA
* * **
59360690 TCTTGGATCTGCTTCAGTATAAACATCTGAAGGTGAGGTCTGCTATTTATCTGCT-CCTGTTGAA
326 TCTTGGATCTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATTGAA
59360754 GTGGAGATGCCAGACTTCGA
391 GTGGAGATGCCAGACTTCGA
* *
59360774 TTTTCTCTCTG-CAATAGAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
*
59360838 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAACACAAGGATACTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAACACAAGGATACTAAATCATCTTAGATCT
*
59360903 GCTTCAGTATAAACATCTGAAGGTGAGATCTACTATTTATCTGCTCCCCGTTGAAGTGGAGATGC
131 GCTTCAGTATAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
*
59360968 CAGACTTCGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAA
196 CAGACTTCGATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAA
* * * * * *
59361033 ACAGGTGAAAGCCAAATCAACTATGTCTTTGGTTTGTTCCTTGTAAGCACAAGAATGCTAAATCA
261 ACACGTGAAAGCCAAATCAACAATGTCTTCGATTCGCTCCTTGTAAGCACAAGAATGCTAAATCA
*
59361098 TCTTGGATCTGCTTCAGTATAAGCATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATTGAA
326 TCTTGGATCTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATTGAA
* *
59361163 GTGGAGATGCTAGACTTTGA
391 GTGGAGATGCCAGACTTCGA
* * *
59361183 TTTGCTCTCTGACAATACAGATATGCCAAATCATCTTAGATTTTCTTCAATGTAAACACGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
59361248 GCCAAATCAGCTATGT
66 GCCAAATCAGCTATGT
59361264 TTTTGGTTTG
Statistics
Matches: 456, Mismatches: 32, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
408 347 0.76
409 44 0.10
410 65 0.14
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (410 bp):
TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAACACAAGGATACTAAATCATCTTAGATCT
GCTTCAGTATAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
CAGACTTCGATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAA
ACACGTGAAAGCCAAATCAACAATGTCTTCGATTCGCTCCTTGTAAGCACAAGAATGCTAAATCA
TCTTGGATCTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATTGAA
GTGGAGATGCCAGACTTCGA
Found at i:59361310 original size:205 final size:205
Alignment explanation
Indices: 59360365--59361263 Score: 1514
Period size: 205 Copynumber: 4.4 Consensus size: 205
59360355 GCTTCTTTGG
*
59360365 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
* *
59360430 GCCAAATCAGCTTTGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTAGATCT
66 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
*
59360495 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTGTGTATCTGCTCCCCGTTGAAGTGGAGATGC
131 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
59360560 CAGACTTCGA
196 CAGACTTCGA
* *
59360570 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAACACGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
*
59360635 GCCAAATCAGCAATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
* * *
59360700 GCTTCAGTATAAACATCTGAAGGTGAGGTCTGCTATTTATCTGCT-CCTGTTGAAGTGGAGATGC
131 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
59360764 CAGACTTCGA
196 CAGACTTCGA
* *
59360774 TTTTCTCTCTG-CAATAGAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
* *
59360838 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAACACAAGGATACTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
* *
59360903 GCTTCAGTATAAACATCTGAAGGTGAGATCTACTATTTATCTGCTCCCCGTTGAAGTGGAGATGC
131 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
59360968 CAGACTTCGA
196 CAGACTTCGA
*
59360978 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAGGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
* * * * * *
59361043 GCCAAATCAACTATGTCTTTGGTTTGTTCCTTGTAAGCACAAGAATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
* *
59361108 GCTTCAGTATAAGCATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATTGAAGTGGAGATGC
131 GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
* *
59361173 TAGACTTTGA
196 CAGACTTCGA
* * *
59361183 TTTGCTCTCTGACAATACAGATATGCCAAATCATCTTAGATTTTCTTCAATGTAAACACGTGAAA
1 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
59361248 GCCAAATCAGCTATGT
66 GCCAAATCAGCTATGT
59361264 TTTTGGTTTG
Statistics
Matches: 650, Mismatches: 42, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
203 156 0.24
204 75 0.12
205 419 0.64
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
GCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
CAGACTTCGA
Found at i:59373136 original size:12 final size:12
Alignment explanation
Indices: 59373100--59373137 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
59373090 ATACTTTAAA
*
59373100 AAAATGATATTT
1 AAAATAATATTT
59373112 AATAATAAT-TTT
1 AA-AATAATATTT
59373124 AAAATAATATTT
1 AAAATAATATTT
59373136 AA
1 AA
59373138 TATATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 6 0.26
12 12 0.52
13 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:59373144 original size:14 final size:13
Alignment explanation
Indices: 59373106--59373146 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
59373096 TAAAAAAATG
59373106 ATATTTAATAATA
1 ATATTTAATAATA
59373119 AT-TTTAA-AATA
1 ATATTTAATAATA
59373130 ATATTTAATATATA
1 ATATTTAATA-ATA
59373144 ATA
1 ATA
59373147 AATAATAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.24
12 10 0.40
13 3 0.12
14 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:59373291 original size:23 final size:23
Alignment explanation
Indices: 59373256--59373301 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
59373246 AATTTATATT
59373256 TATAATAACATAACTATAGAATA
1 TATAATAACATAACTATAGAATA
* * * *
59373279 TATACTAATATAAGTTTAGAATA
1 TATAATAACATAACTATAGAATA
59373302 ATATGAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (23 bp):
TATAATAACATAACTATAGAATA
Found at i:59380040 original size:37 final size:37
Alignment explanation
Indices: 59379990--59380068 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
59379980 TTATTACGAA
* *
59379990 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCAG
* *
59380027 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
59380064 GTCTT
1 GTCTT
59380069 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
Found at i:59380337 original size:47 final size:47
Alignment explanation
Indices: 59380187--59380645 Score: 624
Period size: 47 Copynumber: 10.1 Consensus size: 47
59380177 CCCTTCGGGA
* * * * * * * *
59380187 CTTATCACATTTATGCACTTTCGCATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59380234 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59380280 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59380327 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59380374 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59380421 CTTATCACATATATACATTTTCACATTCATCACATCGGCTATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59380467 CTTAT--C------ACA----CACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59380502 CTTATCACACATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59380549 GTTATCACACATATACAC-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59380595 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59380642 CTTA
1 CTTA
59380646 CTATCATTTC
Statistics
Matches: 373, Mismatches: 24, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
34 25 0.07
35 5 0.01
37 1 0.00
38 3 0.01
43 3 0.01
44 1 0.00
46 86 0.23
47 249 0.67
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59380346 original size:93 final size:94
Alignment explanation
Indices: 59380187--59380645 Score: 624
Period size: 93 Copynumber: 5.0 Consensus size: 94
59380177 CCCTTCGGGA
* * * * * * * * * *
59380187 CTTATCACATTTATGCACTTTCGCATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
59380252 TTTCACATTCA-CACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
59380280 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
59380345 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
59380374 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
59380439 TTTCACATTCATCACATCGGCTATTAGG-
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
59380467 CTTAT--C------ACA----CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
59380520 TTTCACATTCATCACATCAGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
59380549 GTTATCACACATATACAC-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
59380613 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
59380642 CTTA
1 CTTA
59380646 CTATCATTTC
Statistics
Matches: 328, Mismatches: 25, Indels: 26
0.87 0.07 0.07
Matches are distributed among these distances:
81 69 0.21
82 4 0.01
84 1 0.00
85 3 0.01
90 3 0.01
91 1 0.00
93 141 0.43
94 106 0.32
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:59380480 original size:34 final size:35
Alignment explanation
Indices: 59380442--59380512 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 35
59380432 TATACATTTT
59380442 CACATTCATCACATCGGCTATTAGG-CTTATCACA
1 CACATTCATCACATCGGCTATTAGGCCTTATCACA
59380476 CACATTCATCACATCGGCTATTAGGCCTTATCACA
1 CACATTCATCACATCGGCTATTAGGCCTTATCACA
59380511 CA
1 CA
59380513 TATACACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 25 0.69
35 11 0.31
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.28
Consensus pattern (35 bp):
CACATTCATCACATCGGCTATTAGGCCTTATCACA
Found at i:59380488 original size:81 final size:85
Alignment explanation
Indices: 59380394--59380641 Score: 342
Period size: 81 Copynumber: 2.9 Consensus size: 85
59380384 ATATACACTT
*
59380394 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
59380459 CTATTAGGC-TTAT-C-ACA
66 CTATTAGGCGTTATACAACA
* *
59380476 -CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCAG
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
59380540 CTATTAGGCGTTATCACACATATACA
66 CTATTAGGCGTTAT---AC--A-ACA
* *
59380566 CTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
1 --TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
59380631 GGCCATTAGGC
64 GGCTATTAGGC
59380642 CTTACTATCA
Statistics
Matches: 146, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
81 70 0.48
82 4 0.03
86 1 0.01
90 3 0.02
93 68 0.47
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.32
Consensus pattern (85 bp):
TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CTATTAGGCGTTATACAACA
Found at i:59380492 original size:128 final size:128
Alignment explanation
Indices: 59380238--59380603 Score: 484
Period size: 128 Copynumber: 2.8 Consensus size: 128
59380228 CTCGGCCCTG
* * * *
59380238 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCACACATATACAC-TTC
59380302 ACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCC
65 ACATTCATCACATCGGCCATTAGGCCTTA-T-C------ACA----CACATTCATCACATCGGCC
59380367 ATTAGGCCTTA
118 ATTAGGCCTTA
* * * *
59380378 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACATTTTC
1 TCACACATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCACACATATACA-CTTC
* *
59380443 ACATTCATCACATCGGCTATTAGG-CTTATCACACACATTCATCACATCGGCTATTAGGCCTTA
65 ACATTCATCACATCGGCCATTAGGCCTTATCACACACATTCATCACATCGGCCATTAGGCCTTA
*
59380506 TCACACATATACACTTTCACATTCATCACATCAGCTATTAGGCGTTATCACACATATACACTTCA
1 TCACACATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCACACATATACACTTCA
*
59380571 CATTCATCACATTGGCCATTAGGCCTTATCACA
66 CATTCATCACATCGGCCATTAGGCCTTATCACA
59380604 TATATACACT
Statistics
Matches: 212, Mismatches: 11, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
127 25 0.12
128 94 0.44
132 3 0.01
138 1 0.00
139 1 0.00
140 29 0.14
141 59 0.28
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (128 bp):
TCACACATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCACACATATACACTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACACACATTCATCACATCGGCCATTAGGCCTTA
Found at i:59402013 original size:47 final size:47
Alignment explanation
Indices: 59401960--59402062 Score: 179
Period size: 47 Copynumber: 2.2 Consensus size: 47
59401950 ACAAGATATG
*
59401960 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
59402007 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
59402054 TATATGTGA
1 TATATGTGA
59402063 GAGTTAAGTG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:59404319 original size:40 final size:40
Alignment explanation
Indices: 59404220--59404410 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
59404210 TGGATGATAA
* * * * * **
59404220 CCGGGCCAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
59404260 CCGGGC-AAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
59404299 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
59404339 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
59404379 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
59404411 AGCTATATCC
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
39 32 0.24
40 100 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:59412412 original size:40 final size:40
Alignment explanation
Indices: 59412311--59412501 Score: 235
Period size: 40 Copynumber: 4.8 Consensus size: 40
59412301 TGGATGATAA
* * * **
59412311 CCGGGCTAAGTCCCGAAGGCATCTGCGCT-AGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAAT
59412351 CCGGGC-AAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
* *
59412390 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
* * *
59412430 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AAAT
* *
59412470 CCGGGCTATGTCCCGAAGGCATTTGAGTGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGT
59412502 AGCTATATCC
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.23
40 100 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
Found at i:59419543 original size:27 final size:27
Alignment explanation
Indices: 59419504--59419673 Score: 162
Period size: 27 Copynumber: 6.3 Consensus size: 27
59419494 TAAATTAATT
* *
59419504 AAATGACTATTTTGTCCTTTTGAGATA
1 AAATGACTATTTTGCCCTTTTGAGGTA
* * *
59419531 AAATGATTGTTTTGCCCTTTTAAGGTA
1 AAATGACTATTTTGCCCTTTTGAGGTA
* * *
59419558 AAATAACTATTTTTCCCTTTTGACGTA
1 AAATGACTATTTTGCCCTTTTGAGGTA
* *
59419585 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTTTGAGGTA
* * *
59419612 AAATGACTGGTTTT-CCCTTTTGTGTTA
1 AAATGACT-ATTTTGCCCTTTTGAGGTA
* * * *
59419639 AAATGACTGTTTTTCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTTTGAGGTA
*
59419666 AGATGACT
1 AAATGACT
59419674 GCCTTGCCCA
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.04
27 110 0.92
28 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTTTGAGGTA
Found at i:59419598 original size:54 final size:54
Alignment explanation
Indices: 59419504--59419673 Score: 182
Period size: 54 Copynumber: 3.1 Consensus size: 54
59419494 TAAATTAATT
* *
59419504 AAATGACTATTTTGT-CCTTTTGAGATAAAATGATTGTTTTGCCCTTTTAAGGTA
1 AAATGACTATTTT-TCCCTTTTGAGATAAAATGACTGTTTTGCCCTTATAAGGTA
* * **
59419558 AAATAACTATTTTTCCCTTTTGACG-TAAAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTTCCCTTTTGA-GATAAAATGACTGTTTTGCCCTTATAAGGTA
** * * * **
59419612 AAATGACTGGTTTTCCCTTTTGTGTTAAAATGACTGTTTTTCCCTTATGTGGTA
1 AAATGACTATTTTTCCCTTTTGAGATAAAATGACTGTTTTGCCCTTATAAGGTA
*
59419666 AGATGACT
1 AAATGACT
59419674 GCCTTGCCCA
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.02
54 97 0.97
55 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (54 bp):
AAATGACTATTTTTCCCTTTTGAGATAAAATGACTGTTTTGCCCTTATAAGGTA
Done.