Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 171 of 189
Found at i:50845345 original size:20 final size:21
Alignment explanation
Indices: 50845320--50845366 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
50845310 GAAAATATAA
50845320 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTGAAATTTTTGA-AAATT
50845340 ATTTTG-AATTTTTGAAAATT
1 ATTTTGAAATTTTTGAAAATT
50845360 ATTTTGA
1 ATTTTGA
50845367 TTTTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTTTGAAATTTTTGAAAATT
Found at i:50845351 original size:19 final size:20
Alignment explanation
Indices: 50845320--50845371 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
50845310 GAAAATATAA
50845320 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTG-AATTTTTGA-AAATT
50845340 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
50845360 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
50845372 TTTGTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:50848206 original size:25 final size:25
Alignment explanation
Indices: 50848152--50848218 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
50848142 CTCTCATAAC
* **
50848152 AAAAATTTTAAAAATAAAATATTTAT
1 AAAAATTCTAAAAAT-TTATATTTAT
* *
50848178 AAAAATT-TCAAAATTTATATTTTT
1 AAAAATTCTAAAAATTTATATTTAT
50848202 CAAAAATTCTAAAAATT
1 -AAAAATTCTAAAAATT
50848219 CTAAAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.21
25 13 0.38
26 14 0.41
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAAATTCTAAAAATTTATATTTAT
Found at i:50848216 original size:26 final size:25
Alignment explanation
Indices: 50848151--50848218 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
50848141 TCTCTCATAA
*
50848151 CAAAAATTTTAAAAATAAAATATTTAT
1 CAAAAA-TTTAAAAAT-TAATATTTAT
* * *
50848178 -AAAAATTTCAAAATTTATATTTTT
1 CAAAAATTTAAAAATTAATATTTAT
50848202 CAAAAATTCTAAAAATT
1 CAAAAATT-TAAAAATT
50848219 CTAAAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 7 0.21
25 15 0.44
26 12 0.35
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
CAAAAATTTAAAAATTAATATTTAT
Found at i:50848469 original size:19 final size:20
Alignment explanation
Indices: 50848444--50848488 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
50848434 TTTTTAATTT
50848444 AACTCGAA-TAATTTCACTC
1 AACTCGAATTAATTTCACTC
*
50848463 GACTCGAATTTAATTTCACTC
1 AACTCGAA-TTAATTTCACTC
50848484 AACTC
1 AACTC
50848489 AGTTTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
21 15 0.68
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (20 bp):
AACTCGAATTAATTTCACTC
Found at i:50851207 original size:21 final size:21
Alignment explanation
Indices: 50851183--50851222 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50851173 AAGGTTGAAA
50851183 CTAGCCATGATGGGTTAGATG
1 CTAGCCATGATGGGTTAGATG
***
50851204 CTAGGGTTGATGGGTTAGA
1 CTAGCCATGATGGGTTAGA
50851223 GGCTGGGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.38, T:0.30
Consensus pattern (21 bp):
CTAGCCATGATGGGTTAGATG
Found at i:50851231 original size:21 final size:21
Alignment explanation
Indices: 50851190--50851233 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
50851180 AAACTAGCCA
*
50851190 TGATGGGTTAGATGCTAGGGT
1 TGATGGGTTAGAGGCTAGGGT
*
50851211 TGATGGGTTAGAGGCTGGGGT
1 TGATGGGTTAGAGGCTAGGGT
50851232 TG
1 TG
50851234 CTAGGATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.48, T:0.32
Consensus pattern (21 bp):
TGATGGGTTAGAGGCTAGGGT
Found at i:50851926 original size:4 final size:4
Alignment explanation
Indices: 50851917--50851946 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
50851907 TAAGGACAAG
*
50851917 TAAA TAAA TAAA TACA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
50851947 TAGAGGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:50852068 original size:19 final size:19
Alignment explanation
Indices: 50852027--50852068 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
50852017 AATTTGTAAT
*
50852027 AAAATAGATAATAATAGAT
1 AAAATAGATAATAATAGAA
*
50852046 AAAATA-ATAATAGTGAGAA
1 AAAATAGATAATAAT-AGAA
50852065 AAAA
1 AAAA
50852069 ACAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (19 bp):
AAAATAGATAATAATAGAA
Found at i:50852119 original size:4 final size:4
Alignment explanation
Indices: 50852084--50852126 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
50852074 AATAAAAAGG
* ** *
50852084 AAAT AAAT AGAT AAAT GTAT AAAT ATAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
50852127 AAGGGAAAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:50857452 original size:40 final size:40
Alignment explanation
Indices: 50857397--50857487 Score: 173
Period size: 40 Copynumber: 2.2 Consensus size: 40
50857387 AAGTGTACAA
50857397 ATCTGTAATCCGTCAATTCATATACAGGTATACCCATGCG
1 ATCTGTAATCCGTCAATTCATATACAGGTATACCCATGCG
50857437 ATCTGTAATCCGTCAATTCATATACAGGTATACCCATGCG
1 ATCTGTAATCCGTCAATTCATATACAGGTATACCCATGCG
50857477 ATCATGTAATC
1 ATC-TGTAATC
50857488 GGAAAGCTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 43 0.86
41 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (40 bp):
ATCTGTAATCCGTCAATTCATATACAGGTATACCCATGCG
Found at i:50859663 original size:23 final size:22
Alignment explanation
Indices: 50859620--50859663 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
50859610 TTCTAAGTCG
50859620 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
50859643 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
50859664 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:50859772 original size:45 final size:45
Alignment explanation
Indices: 50859708--50859801 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
50859698 AACAGGTACT
* *
50859708 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
50859753 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
50859798 CGGT
1 CGGT
50859802 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:50859863 original size:51 final size:51
Alignment explanation
Indices: 50859803--50859979 Score: 193
Period size: 51 Copynumber: 3.5 Consensus size: 51
50859793 ATGTTCGGTT
* *
50859803 CACATAGTACTACACATGTGACCATTACCATCCGATATACGTAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTACCATCCGATATACGTAGTAGCCTG
* * * *
50859854 CACATAGTACTACACACGTGATCGA-AACTATCCG--GTACGTATAGTAGCCTG
1 CACATAGTACTACACACGTGA-CCATTACCATCCGATATACG--TAGTAGCCTG
* * * *
50859905 CACATAGTACTACACATGCGA-C-TTATCATTCCGATAAACGTAGTAGCCTG
1 CACATAGTACTACACACGTGACCATTACCA-TCCGATATACGTAGTAGCCTG
50859955 CACATAGTACTACACACGTGACCAT
1 CACATAGTACTACACACGTGACCAT
50859980 CACTTTCACT
Statistics
Matches: 101, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
49 6 0.06
50 33 0.33
51 56 0.55
52 6 0.06
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (51 bp):
CACATAGTACTACACACGTGACCATTACCATCCGATATACGTAGTAGCCTG
Found at i:50863617 original size:21 final size:21
Alignment explanation
Indices: 50863593--50863643 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
50863583 CACACGGGAC
* *
50863593 GCCTGATACGACATACAAGGT
1 GCCTGATACGACACACAAAGT
*
50863614 GCCTGAAATACGACACATAAAGT
1 GCCTG--ATACGACACACAAAGT
50863637 GCCTGAT
1 GCCTGAT
50863644 CAGAAAAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.28
23 18 0.72
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (21 bp):
GCCTGATACGACACACAAAGT
Found at i:50863626 original size:23 final size:23
Alignment explanation
Indices: 50863598--50863642 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
50863588 GGGACGCCTG
* *
50863598 ATACGACATACAAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
50863621 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
50863643 TCAGAAAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:50864653 original size:6 final size:6
Alignment explanation
Indices: 50864637--50864676 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
50864627 AAAACCCTAG
*
50864637 TTTTTC CTTTTC TTTTTC TTTTTC -TTTTC TTCTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTT
50864677 CCCCTATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:50864660 original size:18 final size:18
Alignment explanation
Indices: 50864637--50864676 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
50864627 AAAACCCTAG
50864637 TTTTTCCTTTTCTT-TTTC
1 TTTTT-CTTTTCTTCTTTC
50864655 TTTTTCTTTTCTTCTTTC
1 TTTTTCTTTTCTTCTTTC
50864673 TTTT
1 TTTT
50864677 CCCCTATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTTCTTCTTTC
Found at i:50864722 original size:21 final size:21
Alignment explanation
Indices: 50864698--50864752 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
50864688 AATTGCTCTC
*
50864698 TGTTTCTTTTCTTCTTTGTTT
1 TGTTTCTTTTCTTCTTTCTTT
*
50864719 TGTTTC-TTTCTTTTTTCTTT
1 TGTTTCTTTTCTTCTTTCTTT
50864739 T-TTTCTTTTACTTC
1 TGTTTCTTTT-CTTC
50864753 ATTATATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.14
20 16 0.55
21 9 0.31
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.76
Consensus pattern (21 bp):
TGTTTCTTTTCTTCTTTCTTT
Found at i:50871119 original size:25 final size:25
Alignment explanation
Indices: 50871091--50871256 Score: 106
Period size: 25 Copynumber: 6.6 Consensus size: 25
50871081 AATCTCTTTC
*
50871091 GAGCCATATAACGGGAAGCTCAAGT
1 GAGCCATATAACGGGAAGCTCAAGA
* *
50871116 GAGCCATGTAATGGGAAGCTCATA-A
1 GAGCCATATAACGGGAAGCTCA-AGA
* * *
50871141 GAGCCATA-ATCGGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCAAGA
* **
50871165 GAGCCA-ATATCGAAAAGCTCATGAGA
1 GAGCCATATAACGGGAAGCTCA--AGA
* * ** *
50871191 GAGCCTTTTATTGGGAAGCTTAAGA
1 GAGCCATATAACGGGAAGCTCAAGA
* * *
50871216 GAGCTAT-TAATCGCGAAGCTCATGA
1 GAGCCATATAA-CGGGAAGCTCAAGA
*
50871241 GAGCCATATAAAGGGA
1 GAGCCATATAACGGGA
50871257 TGTTCATAAG
Statistics
Matches: 105, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
23 1 0.01
24 30 0.29
25 54 0.51
26 10 0.10
27 10 0.10
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCAAGA
Found at i:50871263 original size:25 final size:25
Alignment explanation
Indices: 50871235--50871283 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
50871225 ATCGCGAAGC
* *
50871235 TCATGAGAGCCATATAAAGGGATGT
1 TCATAAGAGCCAAATAAAGGGATGT
* *
50871260 TCATAAGAGCTAAATAACGGGATG
1 TCATAAGAGCCAAATAAAGGGATG
50871284 CTCTTGCGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (25 bp):
TCATAAGAGCCAAATAAAGGGATGT
Found at i:50882149 original size:21 final size:21
Alignment explanation
Indices: 50882125--50882166 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50882115 TCTATCAAAC
*
50882125 TTCAGGTTTTTCCTGTAAAAA
1 TTCAAGTTTTTCCTGTAAAAA
*
50882146 TTCAAGTTTTTCCTTTAAAAA
1 TTCAAGTTTTTCCTGTAAAAA
50882167 CCTAAGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (21 bp):
TTCAAGTTTTTCCTGTAAAAA
Found at i:50882173 original size:21 final size:21
Alignment explanation
Indices: 50882121--50882167 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
50882111 TTTTTCTATC
*
50882121 AAACTTCAGGTTTTTCCTGTAA
1 AAAC-TCAAGTTTTTCCTGTAA
* *
50882143 AAATTCAAGTTTTTCCTTTAA
1 AAACTCAAGTTTTTCCTGTAA
50882164 AAAC
1 AAAC
50882168 CTAAGTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (21 bp):
AAACTCAAGTTTTTCCTGTAA
Found at i:50896100 original size:20 final size:20
Alignment explanation
Indices: 50896063--50896164 Score: 75
Period size: 20 Copynumber: 5.1 Consensus size: 20
50896053 GTAATGTTAT
**
50896063 ACAGAGGCATCGTAGTGCAA
1 ACAGAGGCATAATAGTGCAA
* *
50896083 ACAGAGGCATAATTGTGCAG
1 ACAGAGGCATAATAGTGCAA
*
50896103 TCAGAGGCATTAA-AGTGCAA
1 ACAGAGGCA-TAATAGTGCAA
* **
50896123 ACAGAGACACTAA-AGTGTGA
1 ACAGAGGCA-TAATAGTGCAA
*
50896143 ACAGAGGCACCAA-AGTGCAA
1 ACAGAGGCA-TAATAGTGCAA
50896163 AC
1 AC
50896165 CCGTACAAGT
Statistics
Matches: 65, Mismatches: 16, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
20 62 0.95
21 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (20 bp):
ACAGAGGCATAATAGTGCAA
Found at i:50903022 original size:6 final size:6
Alignment explanation
Indices: 50902975--50903003 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50902965 TTTTAAAATT
50902975 TATAAA TATAAA TATAAA TATAAA TATAA
1 TATAAA TATAAA TATAAA TATAAA TATAA
50903004 TCCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TATAAA
Found at i:50904539 original size:28 final size:28
Alignment explanation
Indices: 50904439--50904537 Score: 148
Period size: 28 Copynumber: 3.5 Consensus size: 28
50904429 AAAAATAAAA
50904439 ATTTATCAAAATATTACAACTTTTTTTT
1 ATTTATCAAAATATTACAACTTTTTTTT
50904467 ATTTA-CGAAAATATTACAACTTTTTTTTT
1 ATTTATC-AAAATATTACAAC-TTTTTTTT
*
50904496 ATTTACCAAAATATATA-AACTTTTTTTT
1 ATTTATCAAAATAT-TACAACTTTTTTTT
50904524 ATTTATCAAAATAT
1 ATTTATCAAAATAT
50904538 ATCAAAAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
27 1 0.02
28 39 0.59
29 23 0.35
30 3 0.05
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTTATCAAAATATTACAACTTTTTTTT
Found at i:50904631 original size:27 final size:27
Alignment explanation
Indices: 50904601--50904678 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
50904591 CCCCAATGGT
*
50904601 ATTGGCGGCACCAAAGGTGCCAAA-TAA
1 ATTGGCGGCACCAATGGTGCCAAAGT-A
* * * *
50904628 ATTGGTGGCACCATTGTTGCCAAAGTC
1 ATTGGCGGCACCAATGGTGCCAAAGTA
50904655 ATTGGCGGCACC-ATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
50904679 GGAAAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.24
27 31 0.74
28 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGTA
Found at i:50904789 original size:18 final size:18
Alignment explanation
Indices: 50904752--50904827 Score: 98
Period size: 19 Copynumber: 4.1 Consensus size: 18
50904742 TCAACTCATT
* *
50904752 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAA-ACTA
50904771 TTTTAATTTAATAAACTA
1 TTTTAATTTAATAAACTA
* *
50904789 TTCTCATTTAATAAATCTA
1 TTTTAATTTAATAAA-CTA
50904808 TTTTAATTTAATAAACTA
1 TTTTAATTTAATAAACTA
50904826 TT
1 TT
50904828 AAGTAATACT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
18 21 0.42
19 29 0.58
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATTTAATAAACTA
Found at i:50904802 original size:37 final size:37
Alignment explanation
Indices: 50904757--50904827 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
50904747 TCATTTTTTT
*
50904757 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAAATCTATTTTAATTTAATAAACTATTCTC
50904794 ATTTAATAAATCTATTTTAATTTAATAAACTATT
1 ATTTAATAAATCTATTTTAATTTAATAAACTATT
50904828 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAAATCTATTTTAATTTAATAAACTATTCTC
Found at i:50905065 original size:19 final size:19
Alignment explanation
Indices: 50905037--50905074 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50905027 ATTCTCCTTC
*
50905037 AACTCAATTTTTATTTAAT
1 AACTCAATTTTAATTTAAT
*
50905056 AACTCTATTTTAATTTAAT
1 AACTCAATTTTAATTTAAT
50905075 TTAAGTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
AACTCAATTTTAATTTAAT
Found at i:50905200 original size:18 final size:20
Alignment explanation
Indices: 50905177--50905220 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
50905167 AGTAATACTT
*
50905177 AATTAAAATAG-TTTATT-A
1 AATTAAAATAGAGTTATTAA
50905195 AATTAAAATAGAGTTATTAA
1 AATTAAAATAGAGTTATTAA
50905215 AATTAA
1 AATTAA
50905221 GTAATACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
AATTAAAATAGAGTTATTAA
Found at i:50907579 original size:13 final size:13
Alignment explanation
Indices: 50907529--50907589 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
50907519 ACACTCAAAA
*
50907529 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
*
50907542 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
50907555 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
50907568 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
50907581 -TTTCAAAAG
1 TTTTCAAAAG
50907590 TATTGCCAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
12 8 0.21
13 31 0.79
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:50913433 original size:31 final size:29
Alignment explanation
Indices: 50913347--50913433 Score: 70
Period size: 31 Copynumber: 2.9 Consensus size: 29
50913337 GTGCAATTTG
*
50913347 ATACATG-AACTTTAATTTGATGC-AATT
1 ATACATGAAACTTTAATTTGATTCAAATT
* * * *
50913374 ATACATATGAAATTTTGACTGTGGTTCAAACTT
1 ATAC--ATGAAACTTT-AATTTGATTCAAA-TT
50913407 ATACATGAAACTTTAATTTTGATTCAA
1 ATACATGAAACTTTAA-TTTGATTCAA
50913434 TCATACACAT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
27 4 0.09
29 3 0.07
30 6 0.14
31 23 0.52
32 2 0.05
33 6 0.14
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (29 bp):
ATACATGAAACTTTAATTTGATTCAAATT
Found at i:50918339 original size:13 final size:14
Alignment explanation
Indices: 50918315--50918347 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
50918305 TCATTTGGGA
50918315 TTAAAAATATATCT
1 TTAAAAATATATCT
*
50918329 TTAAAAA-ATATTT
1 TTAAAAATATATCT
50918342 TTAAAA
1 TTAAAA
50918348 TAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAAAAATATATCT
Found at i:50921420 original size:34 final size:35
Alignment explanation
Indices: 50921365--50921431 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
50921355 CAAACACCAG
*
50921365 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
50921400 AAAACATTTTCCTG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
50921432 TATTTTACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:50921842 original size:27 final size:26
Alignment explanation
Indices: 50921803--50921853 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
50921793 TACAAGGACT
50921803 TATGACATATTTTAACTTAGTATAAAAA
1 TATGACATATTTTAA-TTA-TATAAAAA
50921831 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
50921854 TATGAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 9 0.39
28 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TATGACATATTTTAATTATATAAAAA
Found at i:50925805 original size:25 final size:24
Alignment explanation
Indices: 50925783--50925827 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
50925773 ATCTTTGAAG
*
50925783 TTTATATTTTTTTA-TTAAATTGA
1 TTTATAATTTTTTAGTTAAATTGA
*
50925806 TTTTTAATTTTTTAGTTAAATT
1 TTTATAATTTTTTAGTTAAATT
50925828 TAATCATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTATAATTTTTTAGTTAAATTGA
Found at i:50932182 original size:8 final size:8
Alignment explanation
Indices: 50932171--50932222 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
50932161 TAAAATGAAT
50932171 AAAATATA
1 AAAATATA
*
50932179 AAAATGTA
1 AAAATATA
*
50932187 AAAAGATA
1 AAAATATA
* *
50932195 TATATATA
1 AAAATATA
*
50932203 AAATTAT-
1 AAAATATA
50932210 AAAATATA
1 AAAATATA
50932218 AAAAT
1 AAAAT
50932223 TATATTTATG
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (8 bp):
AAAATATA
Found at i:50932214 original size:31 final size:31
Alignment explanation
Indices: 50932169--50932265 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 31
50932159 AATAAAATGA
50932169 ATAAAA-TATAAAAATGTAAAAAGATATATAT
1 ATAAAATTAT-AAAATGTAAAAAGATATATAT
* * *
50932200 ATAAAATTATAAAATATAAAAA-TTATATTT
1 ATAAAATTATAAAATGTAAAAAGATATATAT
* ** *
50932230 ATGAAAATTAAAAAAATGTGTATAGATATATAT
1 AT-AAAATT-ATAAAATGTAAAAAGATATATAT
50932263 ATA
1 ATA
50932266 TATATAGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
30 8 0.15
31 23 0.44
32 13 0.25
33 8 0.15
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (31 bp):
ATAAAATTATAAAATGTAAAAAGATATATAT
Found at i:50946941 original size:12 final size:13
Alignment explanation
Indices: 50946918--50946942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50946908 TTGTCTTAAG
50946918 TTTTATGTTTTTT
1 TTTTATGTTTTTT
50946931 TTTTATGTTTTT
1 TTTTATGTTTTT
50946943 CCATTGTTTC
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:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTATGTTTTTT
Found at i:50947005 original size:23 final size:23
Alignment explanation
Indices: 50946956--50947006 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
50946946 TTGTTTCATA
*
50946956 AGTCTTTTCTTTTAGAAATTTTT
1 AGTCTTGTCTTTTAGAAATTTTT
* *
50946979 -GTCTTGTCTTTTATAGATTTTT
1 AGTCTTGTCTTTTAGAAATTTTT
50947001 AGTCTT
1 AGTCTT
50947007 ACTTTTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.18, C:0.10, G:0.12, T:0.61
Consensus pattern (23 bp):
AGTCTTGTCTTTTAGAAATTTTT
Found at i:50947011 original size:22 final size:22
Alignment explanation
Indices: 50946964--50947012 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
50946954 TAAGTCTTTT
*
50946964 CTTTTAGAAATTTTTGTCTTGT
1 CTTTTAGAAATTTTTGTCTTGA
* *
50946986 CTTTTATAGATTTTTAGTCTT-A
1 CTTTTAGAAATTTTT-GTCTTGA
50947008 CTTTT
1 CTTTT
50947013 GCAAGTGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.61
Consensus pattern (22 bp):
CTTTTAGAAATTTTTGTCTTGA
Found at i:50949233 original size:21 final size:21
Alignment explanation
Indices: 50949207--50949250 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
50949197 GTATTTTTCT
*
50949207 ACTCTGAACCTTGAATGTCAA
1 ACTCTGAACCTTGAATCTCAA
*
50949228 ACTCTGAACCTTGGATCTCAA
1 ACTCTGAACCTTGAATCTCAA
50949249 AC
1 AC
50949251 CTCAAACCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (21 bp):
ACTCTGAACCTTGAATCTCAA
Found at i:50949256 original size:7 final size:7
Alignment explanation
Indices: 50949244--50949301 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
50949234 AACCTTGGAT
50949244 CTCAAAC
1 CTCAAAC
50949251 CTCAAAC
1 CTCAAAC
50949258 CTCAAAC
1 CTCAAAC
50949265 CTCAAAC
1 CTCAAAC
*
50949272 CTTAAAC
1 CTCAAAC
*
50949279 ATCAAAC
1 CTCAAAC
*
50949286 C-CGAAC
1 CTCAAAC
*
50949292 CCCAAAC
1 CTCAAAC
50949299 CTC
1 CTC
50949302 GAATCCCAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 5 0.12
7 38 0.88
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.14
Consensus pattern (7 bp):
CTCAAAC
Found at i:50966203 original size:18 final size:17
Alignment explanation
Indices: 50966171--50966205 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
50966161 ACATTATATA
*
50966171 TTTTTTTCTTTTTTTAT
1 TTTTTTTCTTCTTTTAT
50966188 TTTTTTTCATTCTTTTAT
1 TTTTTTTC-TTCTTTTAT
50966206 AATGTACGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTCTTCTTTTAT
Found at i:50966920 original size:29 final size:26
Alignment explanation
Indices: 50966888--50966963 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
50966878 AACTTAGGGG
* *
50966888 AAAAAATAGTTTAGGTACCATGTGTGACA
1 AAAAAAAAGTTTAGGTACCATATG-G--A
* *
50966917 AAAAAAAAGTTTAAGTATCAATATGGA
1 AAAAAAAAGTTTAGGTA-CCATATGGA
*
50966944 AAAAAAAAGTTTAGTTACCA
1 AAAAAAAAGTTTAGGTACCA
50966964 ATTTGAGAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 2 0.05
27 16 0.41
29 16 0.41
30 5 0.13
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (26 bp):
AAAAAAAAGTTTAGGTACCATATGGA
Found at i:50968400 original size:113 final size:113
Alignment explanation
Indices: 50968274--50968488 Score: 267
Period size: 113 Copynumber: 1.9 Consensus size: 113
50968264 CGATATCAAG
* * * *
50968274 AAGGGTATCGATAAATTTTGAAAGGTA-CTGATACT-TTGTTAAGGGTATCGGTACTTTTGATTT
1 AAGGGTATCGATAAATTTTGAAAGGTATC-AATA-TGTTGTTAAAGGAATCGATACTTTTGATTT
*
50968337 TTGTTC-AATTTTCT-AACAAATTGAAGCTCAAATTAGTATTGATACCAGGC
64 TTGCTCGAATTTTCTGAAC--ATTGAAGCTCAAATTAGTATTGATACCAGGC
* * *
50968387 AAGGGTATTGATAATTTTTGCAAGGTATCAATATGTTGTTAAAGGAATCGATACTTTTGATTTTT
1 AAGGGTATCGATAAATTTTGAAAGGTATCAATATGTTGTTAAAGGAATCGATACTTTTGATTTTT
* * *
50968452 GCTCGATTTTTCTGAACTTTGAAGCTCAAATTGGTAT
66 GCTCGAATTTTCTGAACATTGAAGCTCAAATTAGTAT
50968489 CAATACTTGG
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
112 1 0.01
113 75 0.86
114 8 0.09
115 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (113 bp):
AAGGGTATCGATAAATTTTGAAAGGTATCAATATGTTGTTAAAGGAATCGATACTTTTGATTTTT
GCTCGAATTTTCTGAACATTGAAGCTCAAATTAGTATTGATACCAGGC
Found at i:50971608 original size:22 final size:21
Alignment explanation
Indices: 50971575--50971616 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
50971565 TAAAAATTCA
50971575 AAAAATTCAAAAAAATTATTTC
1 AAAAATTC-AAAAAATTATTTC
50971597 AAAAATAT-AAAAAATTATTT
1 AAAAAT-TCAAAAAATTATTT
50971617 TTAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.63
22 6 0.32
23 1 0.05
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATTCAAAAAATTATTTC
Found at i:50971925 original size:19 final size:19
Alignment explanation
Indices: 50971903--50971944 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
50971893 TAAAAAGGAG
50971903 AAAATGAAGAAAAAAAAG-T
1 AAAA-GAAGAAAAAAAAGTT
* *
50971922 AAAAGAGGAAAGAAAAGTT
1 AAAAGAAGAAAAAAAAGTT
50971941 AAAA
1 AAAA
50971945 AGTACTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (19 bp):
AAAAGAAGAAAAAAAAGTT
Found at i:50973499 original size:24 final size:24
Alignment explanation
Indices: 50973465--50973544 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 24
50973455 AAGAACTTTG
50973465 AAAATATTTTAACTATTT-TAAATAA
1 AAAATA-TTTAA-TATTTATAAATAA
50973490 AAAATATTTAAT-TTTATATAATAA
1 AAAATATTTAATATTTATA-AATAA
*
50973514 AAATAAATATTAATTATTTATGAAATAA
1 AAA-ATAT-TTAA-TATTTAT-AAATAA
50973542 AAA
1 AAA
50973545 TAGAATTCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
22 3 0.06
23 3 0.06
24 13 0.28
25 9 0.19
26 4 0.09
27 1 0.02
28 13 0.28
29 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (24 bp):
AAAATATTTAATATTTATAAATAA
Found at i:50975744 original size:50 final size:51
Alignment explanation
Indices: 50975689--50975813 Score: 150
Period size: 50 Copynumber: 2.5 Consensus size: 51
50975679 TATCCCAAAT
** * * *
50975689 ATGGTCTTACATGA-GAGTTCTCATATTGGTGCCCATGCAATGTCCCAGAC
1 ATGGTCTTACATGAGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGAC
* *
50975739 ATGGTCTT--ATGGAGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACAT-GAGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGAC
50975789 ATGGTCTTACATG-GGACCTCTCATA
1 ATGGTCTTACATGAGGACCTCTCATA
50975814 ACCTTAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
48 2 0.03
49 2 0.03
50 56 0.89
51 1 0.02
52 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (51 bp):
ATGGTCTTACATGAGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGAC
Found at i:50984315 original size:41 final size:40
Alignment explanation
Indices: 50984270--50984372 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
50984260 GCGCTGCAAA
* **
50984270 AGGTCAAGCATTAGCGGCGCTTATAAAACAAACGTTGCTAT
1 AGGTCGAGCATTAGCGGCGCTTATAAAA-AAACGCCGCTAT
* * **
50984311 AGGTCGAGCATTAGCGACGCTTTTTGAAAAACGCCGCTAT
1 AGGTCGAGCATTAGCGGCGCTTATAAAAAAACGCCGCTAT
* *
50984351 AGATCGAGCATTAGCTGCGCTT
1 AGGTCGAGCATTAGCGGCGCTT
50984373 TTTTGAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
40 29 0.56
41 23 0.44
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (40 bp):
AGGTCGAGCATTAGCGGCGCTTATAAAAAAACGCCGCTAT
Found at i:50984528 original size:41 final size:39
Alignment explanation
Indices: 50984425--50984562 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 39
50984415 AGCTTTAGTG
* * * *
50984425 GCATTAGCGGCGCTTTTTAAAAAACGCCACAATTGATCGA
1 GCATTAGCGGCGC-TTTTGAAAAACGCCGCTATAGATCGA
* *
50984465 GCATTAACGGCGATATTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCT-TTTGAAAAACGCCGCTATAGATCGA
* * *
50984505 GCATTAGCGGTGCTTTATCGAAAAACGTCGCTATAGATTGA
1 GCATTAGCGGCGCTTT-T-GAAAAACGCCGCTATAGATCGA
* *
50984546 GCATTAGCAGTGCTTTT
1 GCATTAGCGGCGCTTTT
50984563 CGGGAAAATA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.04
40 45 0.54
41 35 0.42
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (39 bp):
GCATTAGCGGCGCTTTTGAAAAACGCCGCTATAGATCGA
Found at i:50984732 original size:40 final size:40
Alignment explanation
Indices: 50984654--50984732 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
50984644 AAACGTCACA
* * *
50984654 ATAGATCGAGAATTAGCTGCGCTTGTTGAAAAACGCCGCT
1 ATAGATCGAGAATTAGCGGCACTTGTTCAAAAACGCCGCT
* *
50984694 ATAGATCGAGCATTAGCGGCACTT-TTCACAAAATGCCGC
1 ATAGATCGAGAATTAGCGGCACTTGTTCA-AAAACGCCGC
50984733 AAAAAAGTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 3 0.09
40 30 0.91
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (40 bp):
ATAGATCGAGAATTAGCGGCACTTGTTCAAAAACGCCGCT
Found at i:50984793 original size:155 final size:158
Alignment explanation
Indices: 50984496--50984803 Score: 374
Period size: 155 Copynumber: 2.0 Consensus size: 158
50984486 AAACGCCGCT
* * * * **
50984496 ATAGATCGAGCATTAGCGGTGCTTTATCGAAAAACGTCGCTATAGATTGAGCATTAGCAGTGCTT
1 ATAGATCGAGAATTAGCGGCGCTTTATCGAAAAACGCCGCTATAGATCGAGCATTAGCAGCACTT
** * * * ** *
50984561 TTCGGGAAAATATCGTAAAAAAGTTAAGCAAATTGACGTCGTTTGTTGTTGAGCTTTAGTGGCAT
66 TTCGACAAAATACCGCAAAAAAGTGAAGCAAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCAT
* **
50984626 TAGCGGCGTTTTTTTTAAAAACGTCACA
131 TAGCGGCATTTTTGATAAAAACGTCACA
* *
50984654 ATAGATCGAGAATTAGCTGCGCTTGT-T-GAAAAACGCCGCTATAGATCGAGCATTAGCGGCACT
1 ATAGATCGAGAATTAGCGGCGCTT-TATCGAAAAACGCCGCTATAGATCGAGCATTAGCAGCACT
* *
50984717 TTTC-ACAAAATGCCGCAAAAAAGTGGAG-AAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCA
65 TTTCGACAAAATACCGCAAAAAAGTGAAGCAAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCA
50984780 TTATG-GGCATTTTTGATAAAAACG
130 TTA-GCGGCATTTTTGATAAAAACG
50984804 CCGCAAAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
155 51 0.40
156 18 0.14
157 35 0.28
158 22 0.17
159 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (158 bp):
ATAGATCGAGAATTAGCGGCGCTTTATCGAAAAACGCCGCTATAGATCGAGCATTAGCAGCACTT
TTCGACAAAATACCGCAAAAAAGTGAAGCAAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCAT
TAGCGGCATTTTTGATAAAAACGTCACA
Found at i:50984922 original size:14 final size:14
Alignment explanation
Indices: 50984917--50984957 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
50984907 AGAGTTTTGA
50984917 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
*
50984931 GTTTAGGGTTTATA
1 GTTTAGGGTTTATG
*
50984945 GTTTGGGGTTTAT
1 GTTTAGGGTTTAT
50984958 TTTTTTATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:50985232 original size:48 final size:49
Alignment explanation
Indices: 50985145--50985239 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 49
50985135 CAGTTTTATG
* * * *
50985145 GTTTGGGGTTTAAGGTTTATGATTTAGTGTTAAGAGTTTAGTGTTTACA
1 GTTTAGGGTGTAAGGTTTATGACTTAGTGTTAAGAGTTTAGGGTTTACA
* *
50985194 GTTTAGGGTGTAA-GTTTATGGCTTAGTGTTTATG-GTTTAGGGTTTA
1 GTTTAGGGTGTAAGGTTTATGACTTAGTG-TTAAGAGTTTAGGGTTTA
50985240 GGGTTTAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
48 24 0.62
49 15 0.38
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (49 bp):
GTTTAGGGTGTAAGGTTTATGACTTAGTGTTAAGAGTTTAGGGTTTACA
Found at i:50985237 original size:7 final size:7
Alignment explanation
Indices: 50985139--50985307 Score: 72
Period size: 7 Copynumber: 24.1 Consensus size: 7
50985129 AAGGTACAGT
*
50985139 TTTATGG
1 TTTAGGG
*
50985146 TTTGGGG
1 TTTAGGG
*
50985153 TTTAAGG
1 TTTAGGG
* *
50985160 TTTATGA
1 TTTAGGG
*
50985167 TTTAGTG
1 TTTAGGG
* *
50985174 TTAAGAG
1 TTTAGGG
*
50985181 TTTAGTG
1 TTTAGGG
**
50985188 TTTACAG
1 TTTAGGG
50985195 TTTAGGG
1 TTTAGGG
* *
50985202 TGTA-AG
1 TTTAGGG
*
50985208 TTTATGG
1 TTTAGGG
* *
50985215 CTTAGTG
1 TTTAGGG
*
50985222 TTTATGG
1 TTTAGGG
50985229 TTTAGGG
1 TTTAGGG
50985236 TTTAGGG
1 TTTAGGG
**
50985243 TTTAAAG
1 TTTAGGG
**
50985250 TTTAGTA
1 TTTAGGG
*
50985257 TTTATGG
1 TTTAGGG
50985264 TTTAAGGG
1 TTT-AGGG
50985272 TTATA-GG
1 TT-TAGGG
* *
50985279 CTTAGAG
1 TTTAGGG
*
50985286 TTTAAGG
1 TTTAGGG
*
50985293 TTTAAGG
1 TTTAGGG
50985300 TTTAGGG
1 TTTAGGG
50985307 T
1 T
50985308 CCAAGTGGCC
Statistics
Matches: 115, Mismatches: 43, Indels: 8
0.69 0.26 0.05
Matches are distributed among these distances:
6 6 0.05
7 102 0.89
8 6 0.05
9 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:50985252 original size:21 final size:21
Alignment explanation
Indices: 50985139--50985307 Score: 92
Period size: 21 Copynumber: 8.0 Consensus size: 21
50985129 AAGGTACAGT
* * *
50985139 TTTATGGTTTGGGGTTTAAGG
1 TTTAAGGTTTAGGGTTTAGGG
* * * * *
50985160 TTTATGATTTAGTGTTAAGAG
1 TTTAAGGTTTAGGGTTTAGGG
**
50985181 TTT-AGTGTTTACAGTTTAGGG
1 TTTAAG-GTTTAGGGTTTAGGG
* * * *
50985202 TGTAA-GTTTATGGCTTAGTG
1 TTTAAGGTTTAGGGTTTAGGG
*
50985222 TTTATGGTTTAGGGTTTAGGG
1 TTTAAGGTTTAGGGTTTAGGG
* ** *
50985243 TTTAAAGTTTAGTATTTATGG
1 TTTAAGGTTTAGGGTTTAGGG
* *
50985264 TTTAAGGGTTATA-GGCTTAGAG
1 TTTAA-GGTT-TAGGGTTTAGGG
*
50985286 TTTAAGGTTTAAGGTTTAGGG
1 TTTAAGGTTTAGGGTTTAGGG
50985307 T
1 T
50985308 CCAAGTGGCC
Statistics
Matches: 107, Mismatches: 35, Indels: 12
0.69 0.23 0.08
Matches are distributed among these distances:
20 17 0.16
21 75 0.70
22 13 0.12
23 2 0.02
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTAGGG
Found at i:50990218 original size:43 final size:43
Alignment explanation
Indices: 50990095--50990365 Score: 255
Period size: 43 Copynumber: 6.3 Consensus size: 43
50990085 GAATGGTATT
* * * * *
50990095 TTTAGCAGCGTTTGTGATAAAAGTGCTGCTAAAGATCATGTTT
1 TTTAGCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATGTTC
* * *
50990138 TTTAGCGACGTTTGTGAAAAAAAGC-C-GCTAAAAGTCAT-TCTC
1 TTTAGCGGCGTTTGTG-ATAAAAGCGCAGCTAAAGGTCATGT-TC
* *
50990180 TATATCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATGTTC
* * * *
50990223 TTCAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATGTTC
* * * *
50990266 TTTAGTGGTGTTTGTGGGT-AAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCAGCTAAAGGTCATGTTC
* * * *
50990309 TTTAGCAGCGTTTTTTTATAAAAGTGCCA-CTAAAGGTCATGTTC
1 TTTAGCGGCG-TTTGTGATAAAAGCG-CAGCTAAAGGTCATGTTC
*
50990353 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
50990366 TTTCACATAA
Statistics
Matches: 185, Mismatches: 34, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
41 8 0.04
42 25 0.14
43 110 0.59
44 41 0.22
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATGTTC
Found at i:50991804 original size:19 final size:20
Alignment explanation
Indices: 50991767--50991804 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50991757 TATAGGAATA
50991767 ATATTTAAATATGATTTTTG
1 ATATTTAAATATGATTTTTG
*
50991787 ATATTTAAA-ATTATTTTT
1 ATATTTAAATATGATTTTT
50991805 AATTGTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
ATATTTAAATATGATTTTTG
Found at i:50996032 original size:43 final size:43
Alignment explanation
Indices: 50995920--50996043 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 43
50995910 GTTTTCAAAT
* * * *
50995920 AAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCG-CTTAGGA
1 AAAAACGCCGCTAAAGACAATGTTCTTTAGCGGCGTTTTAGAA
*
50995962 AAAAACGTCGCTAAAGA-ACATGTTCTTTAGCGGCGTTTTA-AA
1 AAAAACGCCGCTAAAGACA-ATGTTCTTTAGCGGCGTTTTAGAA
* *
50996004 AAGAAATGCCGCTAAAGACAATGCTCTTTTAGCGGCGTTT
1 AA-AAACGCCGCTAAAGACAATGTTC-TTTAGCGGCGTTT
50996044 ATTCTTAAGC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 34 0.49
43 21 0.30
44 14 0.20
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACAATGTTCTTTAGCGGCGTTTTAGAA
Found at i:50996459 original size:21 final size:21
Alignment explanation
Indices: 50996401--50996459 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
50996391 TTTGGCCTGC
* *
50996401 TCTGCTTCTCTTGCTGCAGCT
1 TCTGCTTCTCTCGCTGTAGCT
* *
50996422 TTTACTTCTCTCGCTGTAGCT
1 TCTGCTTCTCTCGCTGTAGCT
*
50996443 TCTGCTTCTCACGCTGT
1 TCTGCTTCTCTCGCTGT
50996460 CGCCTCTACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.07, C:0.32, G:0.17, T:0.44
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGTAGCT
Found at i:50999765 original size:12 final size:11
Alignment explanation
Indices: 50999723--50999800 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 11
50999713 TCAATTTTAA
50999723 AATAATATATT
1 AATAATATATT
*
50999734 AATAAGTCAT-GT
1 AATAA-T-ATATT
50999746 AA-AATATACTT
1 AATAATATA-TT
50999757 AATAATATATT
1 AATAATATATT
*
50999768 AATAAGTCAT-GT
1 AATAA-T-ATATT
50999780 AA-AATATACTT
1 AATAATATA-TT
50999791 AATAATATAT
1 AATAATATAT
50999801 ATTTAAGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
9 4 0.08
10 2 0.04
11 23 0.43
12 20 0.38
13 4 0.08
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (11 bp):
AATAATATATT
Found at i:50999765 original size:34 final size:34
Alignment explanation
Indices: 50999723--51000080 Score: 217
Period size: 34 Copynumber: 10.3 Consensus size: 34
50999713 TCAATTTTAA
50999723 AATAATATATTAATAAGTCATGTAAAATATACTT
1 AATAATATATTAATAAGTCATGTAAAATATACTT
50999757 AATAATATATTAATAAGTCATGTAAAATATACTT
1 AATAATATATTAATAAGTCATGTAAAATATACTT
* * *
50999791 AATAATATA-TATTTAAGTAATGTAAGATAT-C--
1 AATAATATATTA-ATAAGTCATGTAAAATATACTT
*
50999822 --------ATTAATAAGTCGTGTAAAATATACTT
1 AATAATATATTAATAAGTCATGTAAAATATACTT
* * * *
50999848 AATAATATA-TATTTAAGTAATGTAAGATATCAATTTT
1 AATAATATATTA-ATAAGTCATGTAAAATAT--A-CTT
**
50999885 AAAATATATATTCATTAATAAGTTGTGTAAAATATACTT
1 --AATA-ATA-T-ATTAATAAGTCATGTAAAATATACTT
* * * *
50999924 AATAATATA-TATTTAAGTAATGTAAGATCA-ATTTT
1 AATAATATATTA-ATAAGTCATGTAAAAT-ATA-CTT
50999959 AAAATAATATATTAATAAGTCATGTAAAATATACTT
1 --AATAATATATTAATAAGTCATGTAAAATATACTT
* * * *
50999995 AATAATATA-TATTTAAGTAATGTAAGATATCAATTTT
1 AATAATATATTA-ATAAGTCATGTAAAATAT--A-CTT
*
51000032 AAAATATATATTCATTAATAAGTCGTGTAAAATATACTT
1 --AATA-ATA-T-ATTAATAAGTCATGTAAAATATACTT
51000071 AATAATATAT
1 AATAATATAT
51000081 ATTTAAGTAA
Statistics
Matches: 249, Mismatches: 35, Indels: 80
0.68 0.10 0.22
Matches are distributed among these distances:
23 15 0.06
24 3 0.01
33 9 0.04
34 113 0.45
35 5 0.02
36 11 0.04
37 35 0.14
38 2 0.01
39 12 0.05
40 8 0.03
41 2 0.01
42 30 0.12
43 4 0.02
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (34 bp):
AATAATATATTAATAAGTCATGTAAAATATACTT
Found at i:50999826 original size:57 final size:57
Alignment explanation
Indices: 50999761--50999879 Score: 222
Period size: 57 Copynumber: 2.1 Consensus size: 57
50999751 ATACTTAATA
50999761 ATAT-ATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAG
1 ATATCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAG
*
50999817 ATATCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAG
1 ATATCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAG
50999874 ATATCA
1 ATATCA
50999880 ATTTTAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 4 0.07
57 57 0.93
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (57 bp):
ATATCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAG
Found at i:50999892 original size:91 final size:90
Alignment explanation
Indices: 50999727--50999893 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 90
50999717 TTTTAAAATA
* *
50999727 ATATATTAATAAGTCATGTAAAATATACTTAATAATATATTAATAAGTCATGTAAAATATACTTA
1 ATATATTAATAAGTCATGTAAAATATACTTAATAATATATTAATAAGTAATGTAAAATATAATTA
*
50999792 ATAATATATATTTAAGTAATGTAAG
66 ATAAAATATATTTAAGTAATGTAAG
* * *
50999817 ATATCATTAATAAGTCGTGTAAAATATACTTAATAATATA-TATTTAAGTAATGTAAGATATCAA
1 ATAT-ATTAATAAGTCATGTAAAATATACTTAATAATATATTA-ATAAGTAATGTAAAATAT-AA
*
50999881 TT-TTAAAATATAT
63 TTAATAAAATATAT
50999894 ATTCATTAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 6 0.09
91 58 0.87
92 3 0.04
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (90 bp):
ATATATTAATAAGTCATGTAAAATATACTTAATAATATATTAATAAGTAATGTAAAATATAATTA
ATAAAATATATTTAAGTAATGTAAG
Found at i:50999907 original size:76 final size:76
Alignment explanation
Indices: 50999820--51000131 Score: 562
Period size: 76 Copynumber: 4.2 Consensus size: 76
50999810 ATGTAAGATA
50999820 TCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
1 TCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
50999885 AAAATATATAT
66 AAAATATATAT
*
50999896 TCATTAATAAGTTGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAG--ATCAATTTT
1 TCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
50999959 AAAATA-ATA-
66 AAAATATATAT
*
50999968 T-ATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
1 TCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
51000032 AAAATATATAT
66 AAAATATATAT
51000043 TCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
1 TCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
51000108 AAAATAATATAT
66 AAAAT-ATATAT
51000120 TCATTAATAAGT
1 TCATTAATAAGT
51000132 TAAATGAAAT
Statistics
Matches: 226, Mismatches: 4, Indels: 11
0.94 0.02 0.05
Matches are distributed among these distances:
71 50 0.22
72 1 0.00
73 18 0.08
74 18 0.08
75 1 0.00
76 120 0.53
77 18 0.08
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (76 bp):
TCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTT
AAAATATATAT
Found at i:50999985 original size:147 final size:148
Alignment explanation
Indices: 50999817--51000120 Score: 565
Period size: 147 Copynumber: 2.0 Consensus size: 148
50999807 GTAATGTAAG
*
50999817 ATATCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAAT
1 ATAT-ATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAAT
*
50999882 TTTAAAATATATATTCATTAATAAGTTGTGTAAAATATACTTAATAATATATATTTAAGTAATGT
65 TTTAAAATATATATTCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGT
50999947 AAG-ATCAATTTTAAAATA
130 AAGAATCAATTTTAAAATA
50999965 ATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATT
1 ATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATT
51000030 TTAAAATATATATTCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTA
66 TTAAAATATATATTCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTA
51000095 AGATATCAATTTTAAAATA
131 AGA-ATCAATTTTAAAATA
51000114 ATATATT
1 ATATATT
51000121 CATTAATAAG
Statistics
Matches: 152, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
147 126 0.83
148 4 0.03
149 22 0.14
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (148 bp):
ATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATT
TTAAAATATATATTCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTA
AGAATCAATTTTAAAATA
Found at i:51000328 original size:67 final size:67
Alignment explanation
Indices: 51000256--51000394 Score: 244
Period size: 67 Copynumber: 2.1 Consensus size: 67
51000246 TTTGTTGAGA
*
51000256 ATTCATTATATAACGAATTTATTAAACATTCAATCAATTA-ACTAACCAAAATTGATAATTCATT
1 ATTCATTATATAACGAATTTATAAAACATTCAATCAATTACA-TAACCAAAATTGATAATTCATT
51000320 GAC
65 GAC
*
51000323 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
1 ATTCATTATATAACGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
51000388 AC
66 AC
51000390 ATTCA
1 ATTCA
51000395 ATCAATTAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
67 68 0.99
68 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.36
Consensus pattern (67 bp):
ATTCATTATATAACGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
AC
Found at i:51000475 original size:16 final size:16
Alignment explanation
Indices: 51000454--51000489 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
51000444 ATTAATTGAA
*
51000454 ATAAAATTGTAAATCG
1 ATAAAATTGCAAATCG
51000470 ATAAAATTGCAAATCG
1 ATAAAATTGCAAATCG
51000486 ATAA
1 ATAA
51000490 TTATAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (16 bp):
ATAAAATTGCAAATCG
Found at i:51002556 original size:44 final size:44
Alignment explanation
Indices: 51002472--51002557 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
51002462 ACATATCCAA
* **
51002472 TTGCGGCGTTTTAAGCAAAGCGCCACAAAATGTAGGTCAAAAAT
1 TTGCGGCGTTTTAAGCAAAGCGCCACAAAATATAACTCAAAAAT
* * *
51002516 TTGCGGCGTTTTATA-CTAAGCGCCACTAACTATAACTCAAAA
1 TTGCGGCGTTTTA-AGCAAAGCGCCACAAAATATAACTCAAAA
51002558 CGCGGTCGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
TTGCGGCGTTTTAAGCAAAGCGCCACAAAATATAACTCAAAAAT
Found at i:51003112 original size:7 final size:7
Alignment explanation
Indices: 51003102--51003174 Score: 74
Period size: 7 Copynumber: 10.3 Consensus size: 7
51003092 ACCTTAAAAA
51003102 CCAAACC
1 CCAAACC
51003109 CCAAACC
1 CCAAACC
* *
51003116 ACAATCC
1 CCAAACC
* *
51003123 CTAAACA
1 CCAAACC
51003130 CCAAACC
1 CCAAACC
*
51003137 CCAAATC
1 CCAAACC
51003144 CCAAACC
1 CCAAACC
*
51003151 CTAAACC
1 CCAAACC
*
51003158 CTAAACC
1 CCAAACC
51003165 CCAAAACC
1 CC-AAACC
51003173 CC
1 CC
51003175 GAGCAGTAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
7 46 0.87
8 7 0.13
ACGTcount: A:0.44, C:0.49, G:0.00, T:0.07
Consensus pattern (7 bp):
CCAAACC
Found at i:51003136 original size:28 final size:28
Alignment explanation
Indices: 51003090--51003169 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
51003080 TCTAATCCTT
* *
51003090 AAACCTTAAAAACCAAACCCCAAA-CCAC
1 AAACCCTAAACACCAAACCCCAAATCC-C
*
51003118 AATCCCTAAACACCAAACCCCAAATCCC
1 AAACCCTAAACACCAAACCCCAAATCCC
51003146 AAACCCTAAAC-CCTAAACCCCAAA
1 AAACCCTAAACACC-AAACCCCAAA
51003170 ACCCCGAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.04
28 42 0.91
29 2 0.04
ACGTcount: A:0.49, C:0.42, G:0.00, T:0.09
Consensus pattern (28 bp):
AAACCCTAAACACCAAACCCCAAATCCC
Found at i:51004027 original size:10 final size:11
Alignment explanation
Indices: 51003997--51004026 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
51003987 ATCAGTCATG
51003997 TATTTTAAAAT
1 TATTTTAAAAT
51004008 T-TTTTAAAAT
1 TATTTTAAAAT
51004018 TATTTTAAA
1 TATTTTAAA
51004027 TAATACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATTTTAAAAT
Found at i:51004560 original size:114 final size:114
Alignment explanation
Indices: 51004241--51004548 Score: 562
Period size: 114 Copynumber: 2.7 Consensus size: 114
51004231 CCGCTAATAC
* * * *
51004241 TATACTTCAGCAGCATTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
*
51004306 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAATGCCGCTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
51004355 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
51004420 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
*
51004469 TATACTTTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
51004534 CGTTTTGGTTAAGAT
66 CGTTTTGGTTAAGAT
51004549 ATCTGGAGGC
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 188 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (114 bp):
TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
Found at i:51004643 original size:114 final size:111
Alignment explanation
Indices: 51004268--51004620 Score: 496
Period size: 114 Copynumber: 3.1 Consensus size: 111
51004258 TTTAACCAAG
51004268 CGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGC
1 CGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGC
* *
51004333 ATCCGACAAATGCCGCTGATGATATACTTTAGCGGCGTTTTTAATCAAG
66 ATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGTTTTT--T-AAA
51004382 CGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGC
1 CGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGC
51004447 ATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGTTTTTTATCAA
66 ATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGTTTTTTA--AA
* *
51004495 GCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGAT-ATCTGGAGGC
1 -CGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGAT-TTGCGGC
* * * * *
51004559 GCTTCCCACCAAACGCTGCT-ATAACTATCCTTTA-CTGGCGTTTTCCTTAAA
64 GCATCCGA-CAAACGCCGCTGATGA-TATACTTTAGC-GGCGTTTT--TTAAA
51004610 CGCCACTAATT
1 CGCCACTAATT
51004621 ATAGTATACA
Statistics
Matches: 221, Mismatches: 9, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
111 1 0.00
112 1 0.00
113 3 0.01
114 185 0.84
115 28 0.13
117 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (111 bp):
CGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGC
ATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGTTTTTTAAA
Found at i:51004672 original size:228 final size:228
Alignment explanation
Indices: 51004241--51004673 Score: 527
Period size: 228 Copynumber: 1.9 Consensus size: 228
51004231 CCGCTAATAC
51004241 TATACTTCAGCAGCATTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTCAGCAGCATTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
* * * * *
51004306 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAATGCCGCTGATGATATACTTTAGCGGCGT
66 CGTTTTGGTTAAGATGATTGGAGGCGCATCCCACAAACGCCGCTGATAATATACTTTAGCGGCGT
* * * * * * *
51004371 TTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATG
131 TTTTAATCAAACGCCACTAATTATAATACTCATAAAGACCAAAACGCAGAGTTTTGATTAAGATG
51004436 ATTTGCGGCGCATCCGACAAACGCCGCTGATGA
196 ATTTGCGGCGCATCCGACAAACGCCGCTGATGA
* * * * *
51004469 TATACTTTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTCAGCAGCATTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
* * *
51004534 CGTTTTGGTTAAGAT-ATCTGGAGGCGCTTCCCACCAAACGCTGCT-ATAACTATCCTTTA-CTG
66 CGTTTTGGTTAAGATGAT-TGGAGGCGCATCCCA-CAAACGCCGCTGATAA-TATACTTTAGC-G
** * * * *
51004596 GCG-TTTTCCTTAAACGCCACTAATTATAGTA-TACATCAAGACCAAAACGGAGAGTTTTGATTA
127 GCGTTTTTAATCAAACGCCACTAATTATAATACT-CATAAAGACCAAAACGCAGAGTTTTGATTA
*
51004659 GGAT-ATCTTGCGGCG
191 AGATGAT-TTGCGGCG
51004674 TTTAATGCTA
Statistics
Matches: 172, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
227 5 0.03
228 146 0.85
229 21 0.12
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (228 bp):
TATACTTCAGCAGCATTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
CGTTTTGGTTAAGATGATTGGAGGCGCATCCCACAAACGCCGCTGATAATATACTTTAGCGGCGT
TTTTAATCAAACGCCACTAATTATAATACTCATAAAGACCAAAACGCAGAGTTTTGATTAAGATG
ATTTGCGGCGCATCCGACAAACGCCGCTGATGA
Found at i:51011027 original size:22 final size:22
Alignment explanation
Indices: 51010985--51011027 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
51010975 TGAAAATTTT
*
51010985 TATTTTAATATTAAAGTATAAA
1 TATTTTAATATTAAAGAATAAA
*
51011007 TATTTTAAATTTTAAA-AATAA
1 TATTTT-AATATTAAAGAATAA
51011028 TATACAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TATTTTAATATTAAAGAATAAA
Found at i:51017927 original size:30 final size:30
Alignment explanation
Indices: 51017891--51017953 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
51017881 ACTTAACAAG
*
51017891 CAAATGTCTCTAAAATAATAGCAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
51017921 CAAATGTCTTTAAAATAATAACAATATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
51017951 CAA
1 CAA
51017954 TAAATAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:51029590 original size:12 final size:12
Alignment explanation
Indices: 51029573--51029598 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51029563 GAGTTATTCG
51029573 TATTATTCGAGT
1 TATTATTCGAGT
51029585 TATTATTCGAGT
1 TATTATTCGAGT
51029597 TA
1 TA
51029599 ACTCGAATAA
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:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (12 bp):
TATTATTCGAGT
Found at i:51029766 original size:19 final size:19
Alignment explanation
Indices: 51029739--51029853 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
51029729 AAAAATTACA
51029739 AAAACAATTAAAATAATTTT
1 AAAA-AATTAAAATAATTTT
*
51029759 CAAAAATTCAAAATAAATTTT
1 AAAAAATT-AAAAT-AATTTT
51029780 --AAAATTCAAAAT-ATTTAT
1 AAAAAATT-AAAATAATTT-T
*
51029798 AAAAAAATCAAAATTTATATTTTT
1 -AAAAAATTAAAA--TA-A-TTTT
*
51029822 AAAAATTCTAAAA-AATTTT
1 AAAAAAT-TAAAATAATTTT
51029841 AAAAAATTAAAAT
1 AAAAAATTAAAAT
51029854 TTTAAATTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 27
0.71 0.05 0.25
Matches are distributed among these distances:
17 4 0.05
18 6 0.08
19 26 0.34
20 13 0.17
21 12 0.16
22 1 0.01
23 6 0.08
24 6 0.08
25 3 0.04
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAATTAAAATAATTTT
Found at i:51029773 original size:20 final size:20
Alignment explanation
Indices: 51029739--51029853 Score: 98
Period size: 20 Copynumber: 5.7 Consensus size: 20
51029729 AAAAATTACA
51029739 AAAACAATT-AAAATAATTTT
1 AAAA-AATTCAAAATAATTTT
*
51029759 CAAAAATTCAAAATAAATTTT
1 AAAAAATTCAAAAT-AATTTT
51029780 --AAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
*
51029798 AAAAAAATCAAAATTTATATTTT
1 AAAAAATTCAAAA--TA-ATTTT
*
51029821 TAAAAATTCTAAAA-AATTTT
1 AAAAAATTC-AAAATAATTTT
51029841 AAAAAATT-AAAAT
1 AAAAAATTCAAAAT
51029854 TTTAAATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
17 4 0.05
18 5 0.06
19 16 0.20
20 30 0.38
21 7 0.09
22 1 0.01
23 8 0.10
24 8 0.10
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:51029844 original size:43 final size:40
Alignment explanation
Indices: 51029747--51029864 Score: 107
Period size: 43 Copynumber: 2.8 Consensus size: 40
51029737 CAAAAACAAT
* *
51029747 TAAAATAATTTTCAAAAATTCAAAA--TAAATTTTAAAATTC
1 TAAAA-AATTTT-AAAAAATCAAAATTTAATTTTTAAAATTC
*
51029787 -AAAATATTTATAAAAAAATCAAAATTTATATTTTTAAAAATTC
1 TAAAAAATTT-T-AAAAAATCAAAATTTA-ATTTTT-AAAATTC
*
51029830 TAAAAAATTTTAAAAAATTAAAATTTTAAATTTTT
1 TAAAAAATTTTAAAAAATCAAAA-TTT-AATTTTT
51029865 TCTAAAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
38 4 0.06
39 16 0.25
41 2 0.03
42 16 0.25
43 17 0.27
44 9 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (40 bp):
TAAAAAATTTTAAAAAATCAAAATTTAATTTTTAAAATTC
Found at i:51029950 original size:15 final size:14
Alignment explanation
Indices: 51029923--51029957 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
51029913 CTCAAGTATC
51029923 TTTTTT-TTTAAAT
1 TTTTTTCTTTAAAT
51029936 TTTTTTCTTTGAAAT
1 TTTTTTCTTT-AAAT
51029951 TTTTTTC
1 TTTTTTC
51029958 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTTCTTTAAAT
Found at i:51034142 original size:28 final size:28
Alignment explanation
Indices: 51034091--51034148 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
51034081 GAGATTCAGT
* *
51034091 GTTTGAGATTTAAGGGTTAAGGTTTGGG
1 GTTTGAGATTTAAAGGTTAAGGTTCGGG
* * *
51034119 GTTTGTGATTTAAAGTTTAGGGTTCGGG
1 GTTTGAGATTTAAAGGTTAAGGTTCGGG
51034147 GT
1 GT
51034149 AACAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.02, G:0.38, T:0.41
Consensus pattern (28 bp):
GTTTGAGATTTAAAGGTTAAGGTTCGGG
Found at i:51038800 original size:51 final size:51
Alignment explanation
Indices: 51038741--51038927 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 51
51038731 TTGGTTCACA
* * * *
51038741 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-AGCTATCTGGTACATG
* * * * *
51038792 TAGTAGCCTGCACATAGTATTACACACGTGATCGA-AGCTATCCGGTACGTA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATAGCTATCTGGTACATG
* * * *
51038843 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCTGGTACATG
*
51038893 TAGTAACCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
51038928 CACTTTCACT
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
50 43 0.39
51 66 0.59
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCTGGTACATG
Found at i:51038921 original size:101 final size:101
Alignment explanation
Indices: 51038740--51038923 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
51038730 ATTGGTTCAC
* *
51038740 ATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCTGATACACGTAGTAACCTGCAC
*
51038805 ATAGTATTACACACGTGATCGAAGCTATCCGGTACGT
65 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
* * * *
51038842 ATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACATGTAGTAACCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCTGATACACGTAGTAACCTGCAC
51038906 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
51038924 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 1 0.01
101 41 0.55
102 32 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCTGATACACGTAGTAACCTGCACA
TAGTACTACACACGTGATCGAAGCTATCCGGTACGT
Found at i:51038947 original size:101 final size:100
Alignment explanation
Indices: 51038734--51038957 Score: 249
Period size: 101 Copynumber: 2.2 Consensus size: 100
51038724 AATGATATTG
* *
51038734 GTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCTGATACACGTAGTAAC
* *
51038799 CTGCACATAGTATTACACACGTGATCGAAGCTATCC
65 CTGCACATAGTACTACACACGTGATCCAAGCTATCC
* * * * *
51038835 GGT-ACGTATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACATGTAGTA
1 GTTCAC--ATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCTGATACACGTAGTA
*
51038898 ACCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCAC
63 ACCTGCACATAGTACTACACACGTGATCCA--AGCTATC-C
* *
51038937 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTACACA
51038958 CAGTCTGTGC
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
100 5 0.05
101 60 0.59
102 35 0.34
103 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (100 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCTGATACACGTAGTAACC
TGCACATAGTACTACACACGTGATCCAAGCTATCC
Found at i:51046101 original size:16 final size:18
Alignment explanation
Indices: 51046080--51046112 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
51046070 ATATTTAATC
51046080 ATATAA-TAA-ATTATTA
1 ATATAATTAATATTATTA
51046096 ATATAATTAATATTATT
1 ATATAATTAATATTATT
51046113 TATTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATAATTAATATTATTA
Found at i:51046116 original size:22 final size:20
Alignment explanation
Indices: 51046090--51046134 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
51046080 ATATAATAAA
51046090 TTATTAATATAATTAATATTAT
1 TTATTAATATAA-TAA-ATTAT
* *
51046112 TTATTATTTTAATAAATTAT
1 TTATTAATATAATAAATTAT
51046132 TTA
1 TTA
51046135 ATATTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATTAATATAATAAATTAT
Found at i:51046123 original size:18 final size:18
Alignment explanation
Indices: 51046089--51046156 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 18
51046079 CATATAATAA
*
51046089 ATTA-TTAATATAATTAAT
1 ATTATTTAATAT-TTTAAT
*
51046107 ATTATTTATTATTTTAAT
1 ATTATTTAATATTTTAAT
*
51046125 AAATTATTTAATATTTCAAT
1 --ATTATTTAATATTTTAAT
*
51046145 TTTATTTTAATA
1 ATTA-TTTAATA
51046157 ATAAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 12 0.29
19 13 0.32
20 16 0.39
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTTAATATTTTAAT
Found at i:51046173 original size:15 final size:15
Alignment explanation
Indices: 51046153--51046182 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51046143 ATTTTATTTT
51046153 AATAATAAATTTAAA
1 AATAATAAATTTAAA
*
51046168 AATAATAATTTTAAA
1 AATAATAAATTTAAA
51046183 TGATATTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATAAATTTAAA
Found at i:51046370 original size:32 final size:32
Alignment explanation
Indices: 51046334--51046396 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
51046324 TTTTGGAATC
* *
51046334 TAGTCCCTATGCTTTTATTTTTAAGAATTTAT
1 TAGTCCCTATACTTTTATTTTCAAGAATTTAT
*
51046366 TAGTCCCTGTACTTTTATTTTCAAGAATTTA
1 TAGTCCCTATACTTTTATTTTCAAGAATTTA
51046397 GACCCTCTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (32 bp):
TAGTCCCTATACTTTTATTTTCAAGAATTTAT
Found at i:51046410 original size:29 final size:31
Alignment explanation
Indices: 51046345--51046410 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 31
51046335 AGTCCCTATG
* * *
51046345 CTTTTATTTTTAAGAATTTATTAGTCCCTGTA
1 CTTTTATTTTCAAGAA-TTATTAGACCCTCTA
51046377 CTTTTATTTTCAAGAA-T-TTAGACCCTCTA
1 CTTTTATTTTCAAGAATTATTAGACCCTCTA
*
51046406 GTTTT
1 CTTTT
51046411 CAAATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 14 0.47
30 1 0.03
32 15 0.50
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (31 bp):
CTTTTATTTTCAAGAATTATTAGACCCTCTA
Found at i:51047217 original size:73 final size:73
Alignment explanation
Indices: 51047140--51047373 Score: 219
Period size: 73 Copynumber: 3.2 Consensus size: 73
51047130 ATATTGAAGC
51047140 CAAACTCAAGTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAA
1 CAAACTCAAGTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAA
51047205 AGTAAATT
66 AGTAAATT
*** * * * *
51047213 CAAACTCAAGTGCTTGATTGGGGAAAAAATGCAAGTA-TCAAAT--TG--AAAAAAAT-AGGTAC
1 CAAACTCAA--G--T-A--AAAGAAAACAT--AAGTACTC-AATCGGGCCAAAAAACTCAAGTAC
* * * * **
51047272 CCATTTGAATATTGAAGC
56 CAATTTGAAAAGTAAATT
51047290 CAAACTCAAGTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAA
1 CAAACTCAAGTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAA
51047355 AGTAAATT
66 AGTAAATT
51047363 CAAACTCAAGT
1 CAAACTCAAGT
51047374 GCTTGATTGG
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
68 8 0.07
69 2 0.02
70 8 0.07
72 8 0.07
73 38 0.32
75 2 0.02
77 27 0.23
78 8 0.07
80 8 0.07
81 2 0.02
82 8 0.07
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (73 bp):
CAAACTCAAGTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAA
AGTAAATT
Found at i:51047301 original size:150 final size:151
Alignment explanation
Indices: 51046998--51047452 Score: 903
Period size: 151 Copynumber: 3.0 Consensus size: 151
51046988 ACATGTTATG
51046998 GTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAAAGTAAATTC
1 GTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAAAGTAAATTC
51047063 AAACTCAAGTGCTTGATTGGGGAAAAAAATGCAAGTATCAAATTGAAAAAAATAGGTACCCATTT
66 AAACTCAAGTGCTTGATTGGGGAAAAAAATGCAAGTATCAAATTGAAAAAAATAGGTACCCATTT
51047128 GAATATTGAAGCCAAACTCAA
131 GAATATTGAAGCCAAACTCAA
51047149 GTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAAAGTAAATTC
1 GTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAAAGTAAATTC
51047214 AAACTCAAGTGCTTGATTGGGG-AAAAAATGCAAGTATCAAATTGAAAAAAATAGGTACCCATTT
66 AAACTCAAGTGCTTGATTGGGGAAAAAAATGCAAGTATCAAATTGAAAAAAATAGGTACCCATTT
51047278 GAATATTGAAGCCAAACTCAA
131 GAATATTGAAGCCAAACTCAA
51047299 GTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAAAGTAAATTC
1 GTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAAAGTAAATTC
51047364 AAACTCAAGTGCTTGATTGGGGAAAAAAATGCAAGTATCAAATTGAAAAAAATAGGTACCCATTT
66 AAACTCAAGTGCTTGATTGGGGAAAAAAATGCAAGTATCAAATTGAAAAAAATAGGTACCCATTT
51047429 GAATATTGAAGCCAAACTCAA
131 GAATATTGAAGCCAAACTCAA
51047450 GTA
1 GTA
51047453 CAAAACTGGA
Statistics
Matches: 303, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
150 150 0.50
151 153 0.50
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (151 bp):
GTAAAAGAAAACATAAGTACTCAATCGGGCCAAAAAACTCAAGTACCAATTTGAAAAGTAAATTC
AAACTCAAGTGCTTGATTGGGGAAAAAAATGCAAGTATCAAATTGAAAAAAATAGGTACCCATTT
GAATATTGAAGCCAAACTCAA
Found at i:51048048 original size:20 final size:20
Alignment explanation
Indices: 51048015--51048059 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
51048005 AATCCATCGG
51048015 TTAATAGAACTGAATTAGTA
1 TTAATAGAACTGAATTAGTA
* *
51048035 TTAATCGAATTGAATTAGTA
1 TTAATAGAACTGAATTAGTA
51048055 TTAAT
1 TTAAT
51048060 TAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (20 bp):
TTAATAGAACTGAATTAGTA
Found at i:51048704 original size:18 final size:18
Alignment explanation
Indices: 51048681--51048718 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
51048671 TACATCACAT
51048681 ATAAAAATTAATATTTTA
1 ATAAAAATTAATATTTTA
51048699 ATAAAAATTAATATTTTA
1 ATAAAAATTAATATTTTA
51048717 AT
1 AT
51048719 TTAAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAAAAATTAATATTTTA
Found at i:51051661 original size:27 final size:27
Alignment explanation
Indices: 51051631--51051707 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
51051621 GGCCAATCAC
* *
51051631 ATTGGTGGCACCAAAGGTGCCAATGTA
1 ATTGGCGGCACCAATGGTGCCAATGTA
*
51051658 ATTGGCGGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAATGTA
*
51051685 ATTGGCGACACCAATGGTGCCAA
1 ATTGGCGGCACCAATGGTGCCAA
51051708 AGGACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATGTA
Found at i:51052040 original size:19 final size:19
Alignment explanation
Indices: 51052016--51052079 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
51052006 ATTAAAATAG
51052016 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
51052035 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
51052053 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
51052072 TTTAATTT
1 TTTAATTT
51052080 TAAAAAATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:51052258 original size:82 final size:82
Alignment explanation
Indices: 51052156--51052320 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
51052146 AAAAGGAAAA
51052156 AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
1 AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
51052221 CATAAACATGTTAGACT
66 CATAAACATGTTAGACT
*
51052238 AAATAATGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
1 AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
51052303 CATAAACATGTTAGACT
66 CATAAACATGTTAGACT
51052320 A
1 A
51052321 TTTTAATTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (82 bp):
AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
CATAAACATGTTAGACT
Found at i:51052428 original size:18 final size:19
Alignment explanation
Indices: 51052389--51052484 Score: 117
Period size: 19 Copynumber: 5.2 Consensus size: 19
51052379 ATTTTATATT
51052389 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
51052408 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
51052426 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
*
51052445 TTAAAT-AAGAATAG-TTTA
1 TTAAATGAA-AATAGAGTTA
*
51052463 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
51052482 TTA
1 TTA
51052485 CTTAATTAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
18 31 0.47
19 35 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:51052430 original size:37 final size:37
Alignment explanation
Indices: 51052389--51052484 Score: 174
Period size: 37 Copynumber: 2.6 Consensus size: 37
51052379 ATTTTATATT
* *
51052389 TTAAATGAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATAAGAATAGTTTA
51052426 TTAAATTAAAATAGAGTTATTAAATAAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATAAGAATAGTTTA
51052463 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
51052485 CTTAATTAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATAAGAATAGTTTA
Found at i:51052489 original size:18 final size:18
Alignment explanation
Indices: 51052396--51052489 Score: 84
Period size: 18 Copynumber: 5.1 Consensus size: 18
51052386 ATTTTAAATG
*
51052396 AAAATAGAGTTATTAAATG
1 AAAATAGAGTTATT-AATT
* *
51052415 AGAATAG-TTTATTAAATT
1 AAAATAGAGTTATT-AATT
*
51052433 AAAATAGAGTTATTAAAT
1 AAAATAGAGTTATTAATT
*
51052451 AAGAATAG-TTTATTAAATT
1 AA-AATAGAGTTATT-AATT
*
51052470 AAAATAGAGTTATTACTT
1 AAAATAGAGTTATTAATT
51052488 AA
1 AA
51052490 TTAGAATTCT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
18 35 0.57
19 26 0.43
ACGTcount: A:0.50, C:0.01, G:0.12, T:0.37
Consensus pattern (18 bp):
AAAATAGAGTTATTAATT
Found at i:51056782 original size:21 final size:22
Alignment explanation
Indices: 51056731--51056791 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
51056721 TAAAAATAAA
* *
51056731 AAATATTTTTAAA-ATAA-TAC
1 AAATATGTTAAAATATAATTAC
* * *
51056751 AAATGTGTTAATATTTAATTAC
1 AAATATGTTAAAATATAATTAC
51056773 AAATAT-TTAAAATATAATT
1 AAATATGTTAAAATATAATT
51056792 TATATATTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 9 0.29
21 14 0.45
22 8 0.26
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (22 bp):
AAATATGTTAAAATATAATTAC
Found at i:51067483 original size:43 final size:43
Alignment explanation
Indices: 51067422--51067507 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
51067412 AGCAAAGAGA
51067422 TATAAAAATTTCCAGTTCTAAAAGGTATACTTTTACATCGTAT
1 TATAAAAATTTCCAGTTCTAAAAGGTATACTTTTACATCGTAT
51067465 TATAAAAATTTCCAGTTCTAAAAGGTATACTTTTACATCGTAT
1 TATAAAAATTTCCAGTTCTAAAAGGTATACTTTTACATCGTAT
51067508 ACATATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (43 bp):
TATAAAAATTTCCAGTTCTAAAAGGTATACTTTTACATCGTAT
Found at i:51068685 original size:30 final size:28
Alignment explanation
Indices: 51068639--51068700 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 28
51068629 GCATAACCTG
*
51068639 TTTATTTTCTTATATCATT-TATTTATTT
1 TTTATTTTCTAATATCATTAT-TTTATTT
51068667 ATTTATTATTCTAATATCATTATTTTATTT
1 -TTTATT-TTCTAATATCATTATTTTATTT
51068697 TTTA
1 TTTA
51068701 CCCTCTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 10 0.33
30 19 0.63
31 1 0.03
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTATTTTCTAATATCATTATTTTATTT
Found at i:51082475 original size:50 final size:51
Alignment explanation
Indices: 51082420--51082544 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 51
51082410 TATACCTCTG
* * *
51082420 AAGTTGCAATGGGTCAGATTGAAGTC-ACCATAGCGAATCTTATTTCCTTA
1 AAGTTGCAGTGGGTCAGATTGAAGTCTACCATAGCGAATCTTATCTCCCTA
* * * *
51082470 AAGTTGCAGTGGATCAGATTGAA-TCTACCATAGTGGATCTTATCTCCCTG
1 AAGTTGCAGTGGGTCAGATTGAAGTCTACCATAGCGAATCTTATCTCCCTA
*
51082520 AAGTTGCAGTGAAG-CAGATTGAAGT
1 AAGTTGCAGTG-GGTCAGATTGAAGT
51082545 AGCAAATCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.03
50 60 0.95
51 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (51 bp):
AAGTTGCAGTGGGTCAGATTGAAGTCTACCATAGCGAATCTTATCTCCCTA
Found at i:51084199 original size:16 final size:16
Alignment explanation
Indices: 51084180--51084210 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51084170 TTTATTTCTT
*
51084180 TTTTCTTTATTTACCC
1 TTTTATTTATTTACCC
51084196 TTTTATTTATTTACC
1 TTTTATTTATTTACC
51084211 TTAAATGTCG
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:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTATTTATTTACCC
Found at i:51086035 original size:25 final size:27
Alignment explanation
Indices: 51085997--51086046 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
51085987 AAAGGAATAA
*
51085997 ATATATCAATTTATTTTTATAGTAGAT
1 ATATATCAATTTATTTATATAGTAGAT
*
51086024 ATATAT-AA-TTATTTATATTGTAG
1 ATATATCAATTTATTTATATAGTAG
51086047 TCAGCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 2 0.10
27 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (27 bp):
ATATATCAATTTATTTATATAGTAGAT
Found at i:51088120 original size:7 final size:7
Alignment explanation
Indices: 51088108--51088136 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
51088098 AAGGATGAAC
51088108 CAAGTTG
1 CAAGTTG
51088115 CAAGTTG
1 CAAGTTG
51088122 CAAGTTG
1 CAAGTTG
51088129 CAAGTTG
1 CAAGTTG
51088136 C
1 C
51088137 CCATTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (7 bp):
CAAGTTG
Found at i:51103609 original size:20 final size:22
Alignment explanation
Indices: 51103584--51103633 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
51103574 AAATCGAGTG
51103584 AAATTATTCAT-T-AAATTAAA
1 AAATTATTCATGTCAAATTAAA
**
51103604 AAATTAAACATGTCAAATTAAA
1 AAATTATTCATGTCAAATTAAA
*
51103626 ATATTATT
1 AAATTATT
51103634 ATAATATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 9 0.39
21 1 0.04
22 13 0.57
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATTATTCATGTCAAATTAAA
Found at i:51104576 original size:28 final size:27
Alignment explanation
Indices: 51104513--51104581 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 27
51104503 TAATAACTTA
*
51104513 TCAATTTAATTAAT-AATCAATTCTTT
1 TCAATTTAATTACTAAATCAATTCTTT
*
51104539 TCAA-TTAATTACTAAAT-AATTTTATT
1 TCAATTTAATTACTAAATCAATTCT-TT
51104565 TCTAATTTAATTACTAA
1 TC-AATTTAATTACTAA
51104582 TATTTCAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 13 0.35
26 11 0.30
27 2 0.05
28 11 0.30
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
TCAATTTAATTACTAAATCAATTCTTT
Found at i:51104594 original size:28 final size:28
Alignment explanation
Indices: 51104515--51104599 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
51104505 ATAACTTATC
*
51104515 AATTTAATTAATAATCAA-TTC-TTTTC-
1 AATTTAATTACTAAT-AATTTCATTTTCT
*
51104541 AA-TTAATTACTAAATAATTTTA-TTTCT
1 AATTTAATTACT-AATAATTTCATTTTCT
51104568 AATTTAATTACTAAT-ATTTCAATTTTCT
1 AATTTAATTACTAATAATTTC-ATTTTCT
51104596 AATT
1 AATT
51104600 CTTTACTCGC
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
25 10 0.20
26 15 0.31
27 6 0.12
28 18 0.37
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (28 bp):
AATTTAATTACTAATAATTTCATTTTCT
Found at i:51105712 original size:29 final size:31
Alignment explanation
Indices: 51105673--51105730 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
51105663 AAAAAAATTA
*
51105673 TTTTAGCTCTT-CATTTA-ATTTTTTATCCT
1 TTTTAGCTCTTAAATTTATATTTTTTATCCT
*
51105702 TTTTAGTTCTTAAATTTATATTTTTTATC
1 TTTTAGCTCTTAAATTTATATTTTTTATC
51105731 GAATTACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 5 0.20
31 10 0.40
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTTAGCTCTTAAATTTATATTTTTTATCCT
Found at i:51107421 original size:21 final size:21
Alignment explanation
Indices: 51107365--51107421 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
51107355 TTTCTCACAT
* *
51107365 CAATTTAATATTAAAGAATAA
1 CAATTTAATATAAAACAATAA
* **
51107386 -TATTTTCTATCAAAACAATAA
1 CAATTTAATAT-AAAACAATAA
51107407 CAATTTAATATAAAA
1 CAATTTAATATAAAA
51107422 TATCTCTAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
20 7 0.27
21 12 0.46
22 7 0.27
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (21 bp):
CAATTTAATATAAAACAATAA
Found at i:51107538 original size:6 final size:6
Alignment explanation
Indices: 51107527--51107553 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51107517 TCTCCCCAAA
51107527 TTCATC TTCATC TTCATC TTCATC TTC
1 TTCATC TTCATC TTCATC TTCATC TTC
51107554 CTCTCAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCATC
Found at i:51112480 original size:15 final size:15
Alignment explanation
Indices: 51112460--51112496 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
51112450 TTCGTGATAA
51112460 AGAAATTGTTTGTTG
1 AGAAATTGTTTGTTG
51112475 AGAAATTGTTTGTTG
1 AGAAATTGTTTGTTG
51112490 AGAAATT
1 AGAAATT
51112497 ATTTACCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (15 bp):
AGAAATTGTTTGTTG
Found at i:51113224 original size:28 final size:28
Alignment explanation
Indices: 51113184--51113240 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
51113174 TTTAGAAAGA
*
51113184 AGTTGTAGTTGATTGTGAAAAGCTTGGC
1 AGTTGTAGTTGATTGTGAAAAGCCTGGC
51113212 AGTTGTAGTTGATTGTGAAAAGCCTGGC
1 AGTTGTAGTTGATTGTGAAAAGCCTGGC
51113240 A
1 A
51113241 TACTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.33
Consensus pattern (28 bp):
AGTTGTAGTTGATTGTGAAAAGCCTGGC
Done.