Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 169 of 207
Found at i:52223970 original size:128 final size:128
Alignment explanation
Indices: 52223811--52224189 Score: 477
Period size: 128 Copynumber: 3.0 Consensus size: 128
52223801 GTAGCATTAG
52223811 CTACACTTATCTGATC-AGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG
*
52223875 TGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTT-
66 TGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTG-AAAAGTGATAAGTTA
* * *
52223938 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG
* * * * * ** * * *
52224003 TGAAAAAGTGATAAGTGTTA-TACTTATCT-GA-TCAAGTGACCAAGTGATAAGTG-TTAGCCTT
66 TGAAAAAGTGATAAGTGGTAGCA-TTAGCTACACTTATCTGATCAAGTGAAAAGTGATAAG--TT
52224064 A
128 A
* *
52224065 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAA
1 -CTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
* * * *
52224130 GTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGT
65 GTGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAGTGATAAGT
52224190 GATCATATGT
Statistics
Matches: 211, Mismatches: 31, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
124 3 0.01
125 6 0.03
126 13 0.06
127 23 0.11
128 157 0.74
129 9 0.04
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (128 bp):
CTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAGTGATAAGTTA
Found at i:52224130 original size:92 final size:89
Alignment explanation
Indices: 52223774--52224190 Score: 428
Period size: 82 Copynumber: 4.8 Consensus size: 89
52223764 TTTGAGTACT
* * *
52223774 TCTGATCAAGTGATAAAGTGGTAAGTGGTAGCATTAGCTACACTTATCTGATCAGTGAGA-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAG-G-GACAAGT
* *
52223838 GATAAGTGGTAGCATTAGCTACACTTA
63 GATAAGTGGTAGCCTTAGCTACTCTTA
* * * *
52223865 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AG-GGACAAGT
52223930 GATAAGT--T---C-TA-C-A--CTTA
63 GATAAGTGGTAGCCTTAGCTACTCTTA
* * * *
52223947 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AG-GGACAAGT
52224012 GATAA---GT-G--TTA--TA--CTTA
63 GATAAGTGGTAGCCTTAGCTACTCTTA
* *
52224029 TCTGATCAAGTGACCAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGA-AAG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATC-AG-G-GACAAG
52224093 TGATAAGTGGTAGCCTTAGCTACTCTTA
62 TGATAAGTGGTAGCCTTAGCTACTCTTA
52224121 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGAT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGAT
52224186 AAGTG
66 AAGTG
52224191 ATCATATGTA
Statistics
Matches: 293, Mismatches: 14, Indels: 40
0.84 0.04 0.12
Matches are distributed among these distances:
81 1 0.00
82 140 0.48
83 1 0.00
84 1 0.00
85 3 0.01
86 3 0.01
88 5 0.02
89 13 0.04
90 5 0.02
91 71 0.24
92 50 0.17
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (89 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGAT
AAGTGGTAGCCTTAGCTACTCTTA
Found at i:52225311 original size:17 final size:18
Alignment explanation
Indices: 52225291--52225325 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52225281 GGAAAGAATT
52225291 CAAAAT-CAACTGAAAAG
1 CAAAATGCAACTGAAAAG
*
52225308 CAAAATGCACCTGAAAAG
1 CAAAATGCAACTGAAAAG
52225326 GGTAAACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.20, G:0.14, T:0.11
Consensus pattern (18 bp):
CAAAATGCAACTGAAAAG
Found at i:52232040 original size:10 final size:9
Alignment explanation
Indices: 52232011--52232064 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
52232001 TTTAAAAAAC
52232011 AAAATATAA
1 AAAATATAA
52232020 AAAATATAA
1 AAAATATAA
52232029 AAAATATAA
1 AAAATATAA
*
52232038 AAAATACAA
1 AAAATATAA
*
52232047 ACAAATACAA
1 A-AAATATAA
52232057 ATAAATAT
1 A-AAATAT
52232065 TTTGAGTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
9 27 0.66
10 14 0.34
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAATATAA
Found at i:52237658 original size:19 final size:17
Alignment explanation
Indices: 52237636--52237678 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
52237626 TAATTTAACC
*
52237636 ATTTTTATTTTATTTTTA
1 ATTTTTATTTTA-GTTTA
*
52237654 TATTTTTGTTTTAGTTTA
1 -ATTTTTATTTTAGTTTA
52237672 ATTTTTA
1 ATTTTTA
52237679 CATTCTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTTAGTTTA
Found at i:52240780 original size:61 final size:62
Alignment explanation
Indices: 52240697--52240820 Score: 214
Period size: 61 Copynumber: 2.0 Consensus size: 62
52240687 CATTTACATG
*
52240697 TCCAAATGGTACGTTTTCTTATCGAAGAATCCCTTTTGGATTGTGTAATGATCTTAC-ATTT
1 TCCAAATGGTACATTTTCTTATCGAAGAATCCCTTTTGGATTGTGTAATGATCTTACTATTT
* *
52240758 TCCATATGGTACATTTTGTTATCGAAGAATCCCTTTTGGATTGTGTAATGATCTTACTATTT
1 TCCAAATGGTACATTTTCTTATCGAAGAATCCCTTTTGGATTGTGTAATGATCTTACTATTT
52240820 T
1 T
52240821 TCAATGTTGC
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 54 0.92
62 5 0.08
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (62 bp):
TCCAAATGGTACATTTTCTTATCGAAGAATCCCTTTTGGATTGTGTAATGATCTTACTATTT
Found at i:52246210 original size:10 final size:10
Alignment explanation
Indices: 52246180--52246213 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
52246170 TATCCGCATC
*
52246180 TATCAAAAATA
1 TATC-AAAATT
52246191 TATCAAAATT
1 TATCAAAATT
52246201 TATCAAAATT
1 TATCAAAATT
52246211 TAT
1 TAT
52246214 TATAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (10 bp):
TATCAAAATT
Found at i:52246635 original size:16 final size:16
Alignment explanation
Indices: 52246614--52246649 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
52246604 GAACCATGCA
*
52246614 ATTTAGATTTGCCTAT
1 ATTTAGATTTGCCTAC
52246630 ATTTAGATTTGCCTAC
1 ATTTAGATTTGCCTAC
52246646 ATTT
1 ATTT
52246650 CTTATATTCA
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:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (16 bp):
ATTTAGATTTGCCTAC
Found at i:52253139 original size:5 final size:6
Alignment explanation
Indices: 52253126--52253152 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
52253116 AAGCATTTAG
52253126 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
52253153 GCTATCATAA
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:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:52264873 original size:15 final size:17
Alignment explanation
Indices: 52264853--52264887 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
52264843 CCATGTCAGC
52264853 AAAAA-TAAAATT-ATA
1 AAAAATTAAAATTAATA
52264868 AAAAATTAAAATTAATA
1 AAAAATTAAAATTAATA
52264885 AAA
1 AAA
52264888 TATATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 7 0.39
17 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATTAAAATTAATA
Found at i:52265283 original size:10 final size:10
Alignment explanation
Indices: 52265268--52265294 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
52265258 TAAAAAATAT
52265268 ATAATTTATA
1 ATAATTTATA
52265278 ATAATTTATA
1 ATAATTTATA
52265288 ATAATTT
1 ATAATTT
52265295 TCATGATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTTATA
Found at i:52266176 original size:21 final size:21
Alignment explanation
Indices: 52266131--52266178 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
52266121 TCTTGAATTG
** *
52266131 TTTTATTTATAAGGTTGTTAA
1 TTTTATTTATAAAATTATTAA
*
52266152 TTTTATTTATAAAATTATTAT
1 TTTTATTTATAAAATTATTAA
52266173 TTTTAT
1 TTTTAT
52266179 AAATAAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTATTTATAAAATTATTAA
Found at i:52271749 original size:32 final size:32
Alignment explanation
Indices: 52271707--52271782 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
52271697 ACCTAACATT
52271707 CAAACCCAAAATGACCTGAATTCAAAATGATC
1 CAAACCCAAAATGACCTGAATTCAAAATGATC
* *
52271739 CAAACTCAAAATGATCTGAATTCAAAATGATC
1 CAAACCCAAAATGACCTGAATTCAAAATGATC
52271771 CAAACCCAAAAT
1 CAAACCCAAAAT
52271783 CACCCCACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.20
Consensus pattern (32 bp):
CAAACCCAAAATGACCTGAATTCAAAATGATC
Found at i:52271769 original size:16 final size:16
Alignment explanation
Indices: 52271713--52271770 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
52271703 CATTCAAACC
*
52271713 CAAAATGACCTGAATT
1 CAAAATGATCTGAATT
** *
52271729 CAAAATGATCCAAACT
1 CAAAATGATCTGAATT
52271745 CAAAATGATCTGAATT
1 CAAAATGATCTGAATT
52271761 CAAAATGATC
1 CAAAATGATC
52271771 CAAACCCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (16 bp):
CAAAATGATCTGAATT
Found at i:52271780 original size:16 final size:16
Alignment explanation
Indices: 52271728--52271782 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
52271718 TGACCTGAAT
52271728 TCAAAATGATCCAAAC
1 TCAAAATGATCCAAAC
** *
52271744 TCAAAATGATCTGAAT
1 TCAAAATGATCCAAAC
52271760 TCAAAATGATCCAAAC
1 TCAAAATGATCCAAAC
*
52271776 CCAAAAT
1 TCAAAAT
52271783 CACCCCACCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (16 bp):
TCAAAATGATCCAAAC
Found at i:52274238 original size:14 final size:14
Alignment explanation
Indices: 52274219--52274250 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
52274209 TCCAATCACC
52274219 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
52274233 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
52274247 GGGC
1 GGGC
52274251 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:52279365 original size:14 final size:14
Alignment explanation
Indices: 52279346--52279377 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
52279336 TCCAATCACC
52279346 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
52279360 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
52279374 GGGC
1 GGGC
52279378 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:52282932 original size:5 final size:6
Alignment explanation
Indices: 52282919--52282945 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
52282909 AAGCATTTAG
52282919 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
52282946 GCTATCATAA
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:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:52288387 original size:50 final size:50
Alignment explanation
Indices: 52288263--52288511 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
52288253 GATAATAACA
* * ** * *
52288263 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
52288314 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* ** *
52288364 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
52288414 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
52288469 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
52288512 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:52288437 original size:100 final size:104
Alignment explanation
Indices: 52288262--52288511 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
52288252 TGATAATAAC
**
52288262 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
52288327 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
52288364 -TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
52288427 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
52288469 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
52288512 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:52288627 original size:13 final size:13
Alignment explanation
Indices: 52288606--52288637 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52288596 GCTTGGATCA
*
52288606 TCATCAAATAAAT
1 TCATAAAATAAAT
52288619 TCATAAAATAAAT
1 TCATAAAATAAAT
52288632 TCATAA
1 TCATAA
52288638 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:52288908 original size:29 final size:30
Alignment explanation
Indices: 52288849--52288905 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
52288839 CCTCGACTCT
*
52288849 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
52288879 AACTTTTACATAATTACATTTTTGCCC
1 AACTTTTACAAAATTACAATTTTGCCC
52288906 TAAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:52294119 original size:24 final size:24
Alignment explanation
Indices: 52294086--52294162 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
52294076 ATGAGGTGGG
* * *
52294086 AATCGGTAAGCTCTCAGGAGCTGA
1 AATCGATAAGCTCTCACGAGCTAA
* *
52294110 AATCGATAAGCT-TATACGAGGTAAA
1 AATCGATAAGCTCT-CACGAGCT-AA
52294135 AATCGATAAGCTCTCACGAGCTAA
1 AATCGATAAGCTCTCACGAGCTAA
52294159 AATC
1 AATC
52294163 AATTATCCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 1 0.02
24 22 0.51
25 19 0.44
26 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (24 bp):
AATCGATAAGCTCTCACGAGCTAA
Found at i:52294120 original size:49 final size:49
Alignment explanation
Indices: 52294060--52294162 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 49
52294050 CACGAGTTGT
* * *** * * *
52294060 AAATCGTTAAGCTTATATGAGGTGGGAATCGGTAAGCTCTCAGGAGCTG
1 AAATCGATAAGCTTATACGAGGTAAAAATCGATAAGCTCTCACGAGCTA
52294109 AAATCGATAAGCTTATACGAGGTAAAAATCGATAAGCTCTCACGAGCTA
1 AAATCGATAAGCTTATACGAGGTAAAAATCGATAAGCTCTCACGAGCTA
52294158 AAATC
1 AAATC
52294163 AATTATCCCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (49 bp):
AAATCGATAAGCTTATACGAGGTAAAAATCGATAAGCTCTCACGAGCTA
Found at i:52294153 original size:25 final size:25
Alignment explanation
Indices: 52294086--52294160 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
52294076 ATGAGGTGGG
* * *
52294086 AATCGGTAAGCTCTCAGGAGCT-GA
1 AATCGATAAGCTCTCACGAGCTAAA
* *
52294110 AATCGATAAGCT-TATACGAGGTAAA
1 AATCGATAAGCTCT-CACGAGCTAAA
52294135 AATCGATAAGCTCTCACGAGCTAAA
1 AATCGATAAGCTCTCACGAGCTAAA
52294160 A
1 A
52294161 TCAATTATCC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
23 1 0.02
24 16 0.39
25 23 0.56
26 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (25 bp):
AATCGATAAGCTCTCACGAGCTAAA
Found at i:52297514 original size:16 final size:18
Alignment explanation
Indices: 52297493--52297528 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
52297483 CCATGTCAGC
52297493 AAAAA-TAAAATT-ATAA
1 AAAAATTAAAATTAATAA
52297509 AAAAATTAAAATTAATAA
1 AAAAATTAAAATTAATAA
52297527 AA
1 AA
52297529 TATATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATTAAAATTAATAA
Found at i:52298794 original size:21 final size:21
Alignment explanation
Indices: 52298749--52298796 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
52298739 TCTTGAATTG
** *
52298749 TTTTATTTATAAGGTTGTTAA
1 TTTTATTTATAAAATTATTAA
*
52298770 TTTTATTTATAAAATTATTAT
1 TTTTATTTATAAAATTATTAA
52298791 TTTTAT
1 TTTTAT
52298797 AAATAAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTATTTATAAAATTATTAA
Found at i:52302217 original size:21 final size:22
Alignment explanation
Indices: 52302191--52302237 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
52302181 CTCTGCTCAA
*
52302191 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
52302212 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
52302234 ACTC
1 ACTC
52302238 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:52306460 original size:30 final size:30
Alignment explanation
Indices: 52306424--52306501 Score: 156
Period size: 30 Copynumber: 2.6 Consensus size: 30
52306414 CCGTTTACTA
52306424 AGGCAGGATCCGCGCGTTGACCCGACCCAC
1 AGGCAGGATCCGCGCGTTGACCCGACCCAC
52306454 AGGCAGGATCCGCGCGTTGACCCGACCCAC
1 AGGCAGGATCCGCGCGTTGACCCGACCCAC
52306484 AGGCAGGATCCGCGCGTT
1 AGGCAGGATCCGCGCGTT
52306502 CCTGCCCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.19, C:0.37, G:0.32, T:0.12
Consensus pattern (30 bp):
AGGCAGGATCCGCGCGTTGACCCGACCCAC
Found at i:52307572 original size:16 final size:17
Alignment explanation
Indices: 52307553--52307591 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
52307543 TTCCTTTATA
*
52307553 TTTATTTTTTTC-TTTG
1 TTTATTTTCTTCATTTG
52307569 TTTATTTTCTTCATTTG
1 TTTATTTTCTTCATTTG
52307586 TTTATT
1 TTTATT
52307592 GATTTATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTATTTTCTTCATTTG
Found at i:52312936 original size:28 final size:28
Alignment explanation
Indices: 52312891--52312946 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
52312881 TTACATTGGA
52312891 ATAATGATTAATAAACTAATAAAACTTT
1 ATAATGATTAATAAACTAATAAAACTTT
**
52312919 ATAATGATTAATGGACTAATAAAACTTT
1 ATAATGATTAATAAACTAATAAAACTTT
52312947 CACAATGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (28 bp):
ATAATGATTAATAAACTAATAAAACTTT
Found at i:52314033 original size:50 final size:50
Alignment explanation
Indices: 52313979--52314135 Score: 115
Period size: 50 Copynumber: 3.1 Consensus size: 50
52313969 CCACGATGGT
*
52313979 GAATCTTACTCCTCTGGCAGTGTAATGGAATAGAATGAAGCTACGACGGC
1 GAATCTTACTCCTCTGGCAGTGTAATGGAAAAGAATGAAGCTACGACGGC
** ** * ** * *
52314029 GAATCTTGTTTCCTC-AACATTGTAATTTAAAAGATTGAAG-T-CGTAACGGT
1 GAATCTT-ACTCCTCTGGCAGTGTAATGGAAAAGAATGAAGCTACG--ACGGC
* * * * *
52314079 GAATCTTACTTCC-CTGGCAGTGTAGTGGAACAGACTGAAGCTACGATGAC
1 GAATCTTAC-TCCTCTGGCAGTGTAATGGAAAAGAATGAAGCTACGACGGC
52314129 GAATCTT
1 GAATCTT
52314136 GTTTCCCCAA
Statistics
Matches: 77, Mismatches: 23, Indels: 14
0.68 0.20 0.12
Matches are distributed among these distances:
48 2 0.03
49 2 0.03
50 65 0.84
51 6 0.08
52 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (50 bp):
GAATCTTACTCCTCTGGCAGTGTAATGGAAAAGAATGAAGCTACGACGGC
Found at i:52314134 original size:100 final size:100
Alignment explanation
Indices: 52313976--52314168 Score: 298
Period size: 100 Copynumber: 1.9 Consensus size: 100
52313966 AAACCACGAT
* *
52313976 GGTGAATCTTACTCCTCTGGCAGTGTAATGGAATAGAATGAAGCTACGACGGCGAATCTTGTTTC
1 GGTGAATCTTACTCCTCTGGCAGTGTAATGGAACAGAATGAAGCTACGACGACGAATCTTGTTTC
* * *
52314041 CTCAACATTGTAATTTAAAAGATTGAAGTCGTAAC
66 CCCAACATTGCAATTTAAAAGACTGAAGTCGTAAC
* * *
52314076 GGTGAATCTTACTTCC-CTGGCAGTGTAGTGGAACAGACTGAAGCTACGATGACGAATCTTGTTT
1 GGTGAATCTTAC-TCCTCTGGCAGTGTAATGGAACAGAATGAAGCTACGACGACGAATCTTGTTT
52314140 CCCCAACATTGCAATTTAAAAGACTGAAG
65 CCCCAACATTGCAATTTAAAAGACTGAAG
52314169 ATGGTGAATC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 81 0.96
101 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (100 bp):
GGTGAATCTTACTCCTCTGGCAGTGTAATGGAACAGAATGAAGCTACGACGACGAATCTTGTTTC
CCCAACATTGCAATTTAAAAGACTGAAGTCGTAAC
Found at i:52314245 original size:44 final size:44
Alignment explanation
Indices: 52314175--52314514 Score: 191
Period size: 44 Copynumber: 7.8 Consensus size: 44
52314165 GAAGATGGTG
* *
52314175 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAATCCAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* *
52314219 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAATC-CAGT
* * ** * ***
52314264 -ATCTTATCTCTCTGAAATTGCAG-AAAGTAGATCGCAT-C--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* * * * * *
52314303 AAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAGT-AAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* * *
52314347 AAGTCTCATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA--
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-AT-CCAGT
* * *
52314393 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
* * * * * * **
52314437 AATCCTATCTCTCTAAAGTTACAGTGGAG-TGAATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAATCCAGT
* * *
52314481 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
52314515 CGCATCGGGT
Statistics
Matches: 227, Mismatches: 49, Indels: 40
0.72 0.16 0.13
Matches are distributed among these distances:
40 2 0.01
41 19 0.08
42 11 0.05
43 10 0.04
44 143 0.63
45 32 0.14
46 9 0.04
48 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCAGT
Found at i:52314543 original size:218 final size:219
Alignment explanation
Indices: 52314160--52314638 Score: 633
Period size: 218 Copynumber: 2.2 Consensus size: 219
52314150 GCAATTTAAA
** * * * *
52314160 AGACTGAAGATGGTGAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAATCCAGTAATCCT
1 AGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCT
* * * * *
52314225 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAATTGCAGAAA
66 ATCTCCCTAAAGTTACAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAATTGCAGAAA
* *
52314290 GTAGATCGCATCTAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACT-AAGTAAGCAAGTCTC
131 GTAGATCGCATCTAAGTCTTATCTCCCTAAAGTTGCAATAGAGCAGACTCAAGAAAGCAAGTCTC
* *
52314354 ATCCTCCTGAAGTTGCAGTGAGGC
196 ATCCCCCTGAAATTGCAGTGAGGC
*
52314378 AGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCT
* * * *
52314443 ATCTCTCTAAAGTTACAGTGGAGTGAATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAG
66 ATCTCCCTAAAGTTACAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAATTGCAG-AA
** * * *
52314508 AGTAGATCGCATC-GGGTCTTATCTCTCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCT
130 AGTAGATCGCATCTAAGTCTTATCTCCCTAAAGTTGCAATAGAGCAGACTCAAGAAAGCAAGTCT
* *
52314572 TATCCCCCTGAAATTGCAGTGGGGC
195 CATCCCCCTGAAATTGCAGTGAGGC
** * *
52314597 AGACT-AA-ATAAACAAATCCTATCTCTCTAAAGTTGTAGTGGA
1 AGACTGAAGAT-GGCAAATCTTATCTCCCTAAAGTTGTAGTGGA
52314639 CTGTATTAGA
Statistics
Matches: 226, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
217 2 0.01
218 171 0.76
219 53 0.23
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (219 bp):
AGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTAAAGTTACAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAATTGCAGAAA
GTAGATCGCATCTAAGTCTTATCTCCCTAAAGTTGCAATAGAGCAGACTCAAGAAAGCAAGTCTC
ATCCCCCTGAAATTGCAGTGAGGC
Found at i:52315473 original size:22 final size:21
Alignment explanation
Indices: 52315448--52315489 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
52315438 GTGGGCGTAC
52315448 GTTTTATTTATTTATTCATTTA
1 GTTTTATTTA-TTATTCATTTA
*
52315470 GTTTTATTTATTATTTATTT
1 GTTTTATTTATTATTCATTT
52315490 TTTAACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (21 bp):
GTTTTATTTATTATTCATTTA
Found at i:52315493 original size:18 final size:18
Alignment explanation
Indices: 52315454--52315490 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
52315444 GTACGTTTTA
52315454 TTTATTTATTCATTTAGT
1 TTTATTTATTCATTTAGT
52315472 TTTATTTATT-ATTTA-T
1 TTTATTTATTCATTTAGT
52315488 TTT
1 TTT
52315491 TTAACTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 5 0.26
18 10 0.53
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTATTTATTCATTTAGT
Found at i:52316085 original size:3 final size:3
Alignment explanation
Indices: 52316065--52316125 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
52316055 ATTAGTTTAA
* * * * *
52316065 TAT TAC TAT TAC TAT TAT TAT TAT TGT TAT TAA TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52316113 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
52316126 CTCTATATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:52316842 original size:16 final size:17
Alignment explanation
Indices: 52316823--52316861 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
52316813 TTACTTTATA
*
52316823 TTTATTTTTTTC-TTTG
1 TTTATTTTCTTCATTTG
52316839 TTTATTTTCTTCATTTG
1 TTTATTTTCTTCATTTG
52316856 TTTATT
1 TTTATT
52316862 GATTTATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTATTTTCTTCATTTG
Found at i:52318642 original size:32 final size:32
Alignment explanation
Indices: 52318601--52318676 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
52318591 ACCTAACATT
52318601 CAAACTCAAAATGACCTGAATTCAAAATGATC
1 CAAACTCAAAATGACCTGAATTCAAAATGATC
* *
52318633 CAAACTCAAAATGATCTGAATTCGAAATGATC
1 CAAACTCAAAATGACCTGAATTCAAAATGATC
52318665 CAAACTCAAAAT
1 CAAACTCAAAAT
52318677 CACCCCACCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.22
Consensus pattern (32 bp):
CAAACTCAAAATGACCTGAATTCAAAATGATC
Found at i:52318676 original size:16 final size:16
Alignment explanation
Indices: 52318601--52318676 Score: 82
Period size: 16 Copynumber: 4.8 Consensus size: 16
52318591 ACCTAACATT
52318601 CAAACTCAAAATGA-C
1 CAAACTCAAAATGATC
* *
52318616 CTGAATTCAAAATGATC
1 C-AAACTCAAAATGATC
52318633 CAAACTCAAAATGATC
1 CAAACTCAAAATGATC
** * *
52318649 TGAATTCGAAATGATC
1 CAAACTCAAAATGATC
52318665 CAAACTCAAAAT
1 CAAACTCAAAAT
52318677 CACCCCACCT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
15 1 0.02
16 44 0.94
17 2 0.04
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.22
Consensus pattern (16 bp):
CAAACTCAAAATGATC
Found at i:52320427 original size:20 final size:21
Alignment explanation
Indices: 52320404--52320442 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52320394 TATATTTAAC
52320404 ATTTTTA-TATGTTTTTAAAG
1 ATTTTTAGTATGTTTTTAAAG
*
52320424 ATTTTTAGTATTTTTTTAA
1 ATTTTTAGTATGTTTTTAA
52320443 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (21 bp):
ATTTTTAGTATGTTTTTAAAG
Found at i:52328520 original size:26 final size:26
Alignment explanation
Indices: 52328491--52328540 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
52328481 ATGTTAGGAT
52328491 TATATTTCATTATAGGTT-TCTTTTGA
1 TATATTTCATTATA-GTTATCTTTTGA
52328517 TATATTTCATTATAGTTATCTTTT
1 TATATTTCATTATAGTTATCTTTT
52328541 AGTGTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (26 bp):
TATATTTCATTATAGTTATCTTTTGA
Found at i:52337839 original size:54 final size:54
Alignment explanation
Indices: 52337767--52337875 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
52337757 ATTTTTCTTT
*
52337767 TACCTATTATAACCTAGTTTTTATAATTATTAACCTTTTTATTTTACCTTTTTA
1 TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
*
52337821 TACCTATTATAACTTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
1 TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
52337875 T
1 T
52337876 GCCCAAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.56
Consensus pattern (54 bp):
TACCTATTATAACCTAGTTTTTATAATCATTAACCTTTTTATTTTACCTTTTTA
Found at i:52339011 original size:20 final size:19
Alignment explanation
Indices: 52338983--52339026 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
52338973 TAATTATTTT
* *
52338983 TTTTAATATTTAAAATATA
1 TTTTAATATTCAAAATAAA
*
52339002 TTTTATATATTCAAATTAAA
1 TTTTA-ATATTCAAAATAAA
52339022 TTTTA
1 TTTTA
52339027 CGAACGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATATTCAAAATAAA
Found at i:52340991 original size:19 final size:19
Alignment explanation
Indices: 52340931--52340993 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
52340921 TTTAAATCAC
*
52340931 AAGTACTGATACCTATTAT
1 AAGTACTGATACTTATTAT
**
52340950 AAGGTACTGATACATCCTTAT
1 AA-GTACTGATAC-TTATTAT
*
52340971 AAGTAATGATACTTATTAT
1 AAGTACTGATACTTATTAT
52340990 AAGT
1 AAGT
52340994 GCCGATACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 11 0.31
20 19 0.53
21 6 0.17
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AAGTACTGATACTTATTAT
Found at i:52345479 original size:21 final size:21
Alignment explanation
Indices: 52345453--52345500 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
52345443 AAAAAGGGCA
*
52345453 AAGTCTCAATACTTATGAGCT
1 AAGTCTCAATACTTATGAGCC
*
52345474 AAGTCTCAATACTTTTGAGCC
1 AAGTCTCAATACTTATGAGCC
52345495 AAGTCT
1 AAGTCT
52345501 TGAGATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (21 bp):
AAGTCTCAATACTTATGAGCC
Found at i:52349585 original size:18 final size:19
Alignment explanation
Indices: 52349562--52349597 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52349552 TCCAGTTACT
52349562 TAAAGAGCTCAA-AACAAA
1 TAAAGAGCTCAAGAACAAA
*
52349580 TAAAGAGTTCAAGAACAA
1 TAAAGAGCTCAAGAACAA
52349598 TACCAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (19 bp):
TAAAGAGCTCAAGAACAAA
Found at i:52352562 original size:21 final size:22
Alignment explanation
Indices: 52352536--52352582 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
52352526 CTCTGCTCAA
*
52352536 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
52352557 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
52352579 ACTC
1 ACTC
52352583 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:52356752 original size:17 final size:17
Alignment explanation
Indices: 52356716--52356762 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
52356706 CAAAAGGTTG
* *
52356716 TTATTTTGTAGTTTTTAT
1 TTATTTTCTA-TTGTTAT
52356734 TTATTTTCTATTGTTAT
1 TTATTTTCTATTGTTAT
52356751 TT-TTTTACTATT
1 TTATTTT-CTATT
52356763 ATATACATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 4 0.15
17 13 0.50
18 9 0.35
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (17 bp):
TTATTTTCTATTGTTAT
Found at i:52357666 original size:23 final size:25
Alignment explanation
Indices: 52357612--52357660 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
52357602 TATGTACACA
*
52357612 TATATATTTTTAACGAATATTTTCC
1 TATATTTTTTTAACGAATATTTTCC
*
52357637 TATATTTTTTTAATGAATATTTTC
1 TATATTTTTTTAACGAATATTTTC
52357661 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAACGAATATTTTCC
Found at i:52363277 original size:20 final size:21
Alignment explanation
Indices: 52363240--52363279 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52363230 TGGTTGTTGT
*
52363240 TGGTTTTCCACTTCTCATTTA
1 TGGTTTCCCACTTCTCATTTA
*
52363261 TGGTTTCCCA-TTGTCATTT
1 TGGTTTCCCACTTCTCATTT
52363280 TTGCCACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.53
Consensus pattern (21 bp):
TGGTTTCCCACTTCTCATTTA
Found at i:52373350 original size:39 final size:39
Alignment explanation
Indices: 52373306--52373466 Score: 135
Period size: 39 Copynumber: 3.8 Consensus size: 39
52373296 GCAGTAATCA
*
52373306 GTAACGGTAATAGTATTCGACACACAAAGTGCCGAATTGGTAACG
1 GTAACAGTAATAGTATTCGACACACAAAGTGCCGAA-T--T---G
52373351 GTAACAGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATTG
1 GTAACAGT-A-A-T---AGTATTCGACACACAAAGTGCCGAATTG
* * * *
52373396 GTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
1 GTAACAGTAATAGTATTCGACACACAAAGTGCCGAATTG
* * *
52373435 GTAACAGTAATAGTAGTCGGCACA-TAAGTGCC
1 GTAACAGTAATAGTATTCGACACACAAAGTGCC
52373467 TGATCAGTAA
Statistics
Matches: 99, Mismatches: 11, Indels: 19
0.77 0.09 0.15
Matches are distributed among these distances:
38 7 0.07
39 44 0.44
43 1 0.01
44 1 0.01
45 16 0.16
46 1 0.01
47 1 0.01
48 2 0.02
50 1 0.01
51 25 0.25
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (39 bp):
GTAACAGTAATAGTATTCGACACACAAAGTGCCGAATTG
Found at i:52377264 original size:101 final size:101
Alignment explanation
Indices: 52377144--52377341 Score: 360
Period size: 101 Copynumber: 2.0 Consensus size: 101
52377134 TCAATGCAAG
* * *
52377144 GACCATCAAATACAATTTTTTTATTATCGTGGTAGACAATCATTGGATGAACTTTATGAAGCTTA
1 GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTTA
52377209 ATTTTTCATTAAATTAGACCTTTGTTCTAGATGTTT
66 ATTTTTCATTAAATTAGACCTTTGTTCTAGATGTTT
52377245 GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTTA
1 GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTTA
*
52377310 ATTTTTCATTAAATTGGACCTTTGTTCTAGAT
66 ATTTTTCATTAAATTAGACCTTTGTTCTAGAT
52377342 TTTTCCTAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 93 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (101 bp):
GACCAGCAAATACAATTTTTTTATGATCATGGTAGACAATCATTGGATGAACTTTATGAAGCTTA
ATTTTTCATTAAATTAGACCTTTGTTCTAGATGTTT
Found at i:52387741 original size:13 final size:13
Alignment explanation
Indices: 52387723--52387749 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52387713 TTAATTTATA
52387723 TGTGTGAAAATTT
1 TGTGTGAAAATTT
52387736 TGTGTGAAAATTT
1 TGTGTGAAAATTT
52387749 T
1 T
52387750 ATCGTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:52390086 original size:43 final size:42
Alignment explanation
Indices: 52390033--52390282 Score: 187
Period size: 43 Copynumber: 5.8 Consensus size: 42
52390023 TTTTAGAAAT
*
52390033 AAACGTCGCTAAAGGTCATGACCTTTAGCGGCGCTTCTCCCAC
1 AAACG-CGCTAAAGATCATGACCTTTAGCGGCGCTTCTCCCAC
* * * * * *
52390076 AAACGACGCTATAGGTCCTAACATTTAGCGGCGCTTTTCCCAC
1 AAACG-CGCTAAAGATCATGACCTTTAGCGGCGCTTCTCCCAC
* * *
52390119 AAACGCCGCTATAGAACATGATCTTTAGCGGCGCTTCTCCCAC
1 AAACG-CGCTAAAGATCATGACCTTTAGCGGCGCTTCTCCCAC
** * * **
52390162 AAACGCGCTAAAGATCATGGTCTTTAGTGGCGCTTTTATCAC
1 AAACGCGCTAAAGATCATGACCTTTAGCGGCGCTTCTCCCAC
* * * ** * * **
52390204 AAACGTCTCTATAGAACATGATTTTTAGCGACGCTTTTATCAC
1 AAACG-CGCTAAAGATCATGACCTTTAGCGGCGCTTCTCCCAC
* * *
52390247 AAACGCCGCTATAA-AACATGATCTTTGGCGGCGCTT
1 AAACG-CGCTA-AAGATCATGACCTTTAGCGGCGCTT
52390283 TTATAATAAA
Statistics
Matches: 171, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 35 0.20
43 135 0.79
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
AAACGCGCTAAAGATCATGACCTTTAGCGGCGCTTCTCCCAC
Found at i:52390195 original size:128 final size:129
Alignment explanation
Indices: 52390033--52390282 Score: 313
Period size: 128 Copynumber: 1.9 Consensus size: 129
52390023 TTTTAGAAAT
* * ** *
52390033 AAACGTCGCTAAAGGTCATGACCTTTAGCGGCGCTTCTCCCACAAACGACGCTATAGGTCCTAAC
1 AAACGTCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGACGCTATAGAACATAAC
* * *
52390098 ATTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGATCTTTAGCGGCGCTTCTCCCAC
66 ATTTAGCGACGCTTTTACCACAAACGCCGCTATAAAACATGATCTTTAGCGGCGCTTCTCCCAC
** * * * * * * *
52390162 AAACG-CGCTAAAGATCATGGTCTTTAGTGGCGCTTTTATCACAAACGTCTCTATAGAACATGAT
1 AAACGTCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGACGCTATAGAACATAAC
* * *
52390226 TTTTAGCGACGCTTTTATCACAAACGCCGCTATAAAACATGATCTTTGGCGGCGCTT
66 ATTTAGCGACGCTTTTACCACAAACGCCGCTATAAAACATGATCTTTAGCGGCGCTT
52390283 TTATAATAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
128 96 0.95
129 5 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (129 bp):
AAACGTCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGACGCTATAGAACATAAC
ATTTAGCGACGCTTTTACCACAAACGCCGCTATAAAACATGATCTTTAGCGGCGCTTCTCCCAC
Found at i:52390216 original size:85 final size:86
Alignment explanation
Indices: 52390049--52390300 Score: 276
Period size: 86 Copynumber: 2.9 Consensus size: 86
52390039 CGCTAAAGGT
* * * * *
52390049 CATGACCTTTAGCGGCGCTTCTCCCACAAACGACGCTATAGGTCCT-AACATTTAGCGGCGCTTT
1 CATGATCTTTAGCGGCGCTTCTCCCACAAACGACGCTAAAGATCATGATC-TTTAGCGGCGCTTT
**
52390113 TCCCACAAACGCCGCTATAGAA
65 TATCACAAACGCCGCTATAGAA
* *
52390135 CATGATCTTTAGCGGCGCTTCTCCCACAAACG-CGCTAAAGATCATGGTCTTTAGTGGCGCTTTT
1 CATGATCTTTAGCGGCGCTTCTCCCACAAACGACGCTAAAGATCATGATCTTTAGCGGCGCTTTT
* *
52390199 ATCACAAACGTCTCTATAGAA
66 ATCACAAACGCCGCTATAGAA
* * * ** * * *
52390220 CATGATTTTTAGCGACGCTTTTATCACAAACGCCGCTATAA-AACATGATCTTTGGCGGCGCTTT
1 CATGATCTTTAGCGGCGCTTCTCCCACAAACGACGCTA-AAGATCATGATCTTTAGCGGCGCTTT
* *
52390284 TATAATAAACGCCGCTA
65 TATCACAAACGCCGCTA
52390301 AAAGTACCGT
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
85 68 0.49
86 69 0.50
87 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (86 bp):
CATGATCTTTAGCGGCGCTTCTCCCACAAACGACGCTAAAGATCATGATCTTTAGCGGCGCTTTT
ATCACAAACGCCGCTATAGAA
Found at i:52390283 original size:43 final size:43
Alignment explanation
Indices: 52390099--52390300 Score: 228
Period size: 43 Copynumber: 4.7 Consensus size: 43
52390089 GGTCCTAACA
** *
52390099 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGATC
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTATAAAACATGATC
* ** * *
52390142 TTTAGCGGCGCTTCTCCCACAAACG-CGCTA-AAGATCATGGTC
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTATAA-AACATGATC
* * * * *
52390184 TTTAGTGGCGCTTTTATCACAAACGTCTCTATAGAACATGATT
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTATAAAACATGATC
*
52390227 TTTAGCGACGCTTTTATCACAAACGCCGCTATAAAACATGATC
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTATAAAACATGATC
* * *
52390270 TTTGGCGGCGCTTTTATAATAAACGCCGCTA
1 TTTAGCGGCGCTTTTATCACAAACGCCGCTA
52390301 AAAGTACCGT
Statistics
Matches: 133, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 33 0.25
43 98 0.74
44 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATCACAAACGCCGCTATAAAACATGATC
Found at i:52392613 original size:21 final size:21
Alignment explanation
Indices: 52392589--52392631 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
52392579 TAAATTATTT
52392589 AAAACCTCAAAATATTTCAAG
1 AAAACCTCAAAATATTTCAAG
* *
52392610 AAAACCTTAAAATGTTTCAAG
1 AAAACCTCAAAATATTTCAAG
52392631 A
1 A
52392632 CAGACAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAACCTCAAAATATTTCAAG
Found at i:52392626 original size:68 final size:68
Alignment explanation
Indices: 52392542--52392676 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 68
52392532 CGAAGACCAT
**
52392542 AAAACCTCAAAATGTTTCAAGACAGGTAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
52392607 AAG
66 AAG
* * * *
52392610 AAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGTAAATTATTTAAACCCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
52392675 AA
66 AA
52392677 AACAAACAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (68 bp):
AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
AAG
Found at i:52392703 original size:30 final size:30
Alignment explanation
Indices: 52392669--52392761 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
52392659 ACCCTCAAAA
*
52392669 TATTTCAAAACAAACAAAGAGATAGTAAAT
1 TATTTCAAAACAAACAAAGACATAGTAAAT
* * *
52392699 TATTTCAAGACAACCAAAGATATAGTAAAT
1 TATTTCAAAACAAACAAAGACATAGTAAAT
*
52392729 TA-TT-AAAACAGAGACAAAGACTTAGTAAAT
1 TATTTCAAAACA-A-ACAAAGACATAGTAAAT
52392759 TAT
1 TAT
52392762 AAAAAAACCT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.09
29 3 0.06
30 45 0.85
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (30 bp):
TATTTCAAAACAAACAAAGACATAGTAAAT
Found at i:52400874 original size:41 final size:41
Alignment explanation
Indices: 52400817--52400991 Score: 253
Period size: 41 Copynumber: 4.3 Consensus size: 41
52400807 AATATTTTTT
*
52400817 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCTCGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
52400858 GCGGCACTTTTCCAAAAATGACGCTAAAGCCCCGATCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
52400899 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAACATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
52400940 ACAGCGCTTTTCCAGAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
52400981 GCGGCG-TTTTC
1 GCGGCGCTTTTC
52400992 TCAATAAATG
Statistics
Matches: 117, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
40 5 0.04
41 112 0.96
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:52407217 original size:136 final size:137
Alignment explanation
Indices: 52407038--52407318 Score: 433
Period size: 136 Copynumber: 2.1 Consensus size: 137
52407028 TTTTTAAAAC
* * *
52407038 AAAATTTCGATTTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT
1 AAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAGTG-TT
*
52407103 TTTTTTAAAAAGGAGAAAATTTAGATTTTGAAAAATAAAAATATG-TTTTTT-AGTTATTTTAAA
65 TTTTTTAAAAA-GAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAA
52407166 GGAAAGTTT
129 GGAAAGTTT
* *
52407175 AAAATTTTGA-TTTTTTTCAACTACTTCAAAATAAAAGTTTTAATCTTTAAGAAAAATATTGTTT
1 AAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT
* *
52407239 TTTTTAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAGAGG
66 TTTTTAAAAAGAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGG
*
52407304 AACGTTT
131 AAAGTTT
*
52407311 AAATTTTT
1 AAAATTTT
52407319 AAAATAAAGT
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
134 32 0.24
135 19 0.14
136 72 0.55
137 9 0.07
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.44
Consensus pattern (137 bp):
AAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT
TTTTTAAAAAGAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAAAGG
AAAGTTT
Found at i:52407342 original size:30 final size:31
Alignment explanation
Indices: 52407308--52407370 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
52407298 TAGAGGAACG
52407308 TTTAAAT-TTTTAAAATAAAGTTTTGATTTT
1 TTTAAATATTTTAAAATAAAGTTTTGATTTT
* * *
52407338 TTTAACTATTTTGAAATAAGGTTTTGATTTT
1 TTTAAATATTTTAAAATAAAGTTTTGATTTT
52407369 TT
1 TT
52407371 AGAAAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (31 bp):
TTTAAATATTTTAAAATAAAGTTTTGATTTT
Found at i:52407920 original size:25 final size:24
Alignment explanation
Indices: 52407892--52407938 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
52407882 TCACTTGCAT
52407892 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
52407917 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
52407939 TTCTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:52408101 original size:3 final size:3
Alignment explanation
Indices: 52408095--52408130 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
52408085 GAATGAGGTG
*
52408095 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52408131 CATCATCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52408763 original size:3 final size:3
Alignment explanation
Indices: 52408755--52408789 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
52408745 AAATCTTTTA
52408755 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
52408790 AAGATCGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:52410976 original size:18 final size:18
Alignment explanation
Indices: 52410939--52410982 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
52410929 TATTTTAGGT
*
52410939 TTTTTTTTTCTATTTCTA
1 TTTTTTTTTATATTTCTA
* *
52410957 TTTTTTTTTATTTTTTTA
1 TTTTTTTTTATATTTCTA
52410975 TTTATTTT
1 TTT-TTTT
52410983 GGTTCTGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTATATTTCTA
Found at i:52411386 original size:30 final size:30
Alignment explanation
Indices: 52411352--52411424 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
52411342 GACACTTTTT
* *
52411352 TTTAATTTAGTACCTAAG-TTTTGTTTTAGG
1 TTTAATTTGGTACCTAAGCCTTT-TTTTAGG
*
52411382 TTTAATTTGGTACCTAAGCCTTTTTTTGGG
1 TTTAATTTGGTACCTAAGCCTTTTTTTAGG
52411412 TTTAATTTGGTAC
1 TTTAATTTGGTAC
52411425 TTAAATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 36 0.92
31 3 0.08
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.52
Consensus pattern (30 bp):
TTTAATTTGGTACCTAAGCCTTTTTTTAGG
Found at i:52414910 original size:42 final size:42
Alignment explanation
Indices: 52414844--52414954 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
52414834 CAAATGCCCC
* *
52414844 AACAAAAGCTC--AAAAGCTAAACAGAAACTCATAAAAGTTT
1 AACAAAAGCTCGTAAAAGCTGAACAGAAACTCATAAAAGTTA
* * * * *
52414884 AATAGAAGCTCGTAAGAGCTGAACAGAAACTCGTAAGAGTTA
1 AACAAAAGCTCGTAAAAGCTGAACAGAAACTCATAAAAGTTA
52414926 AACAAAAGCTCGTAAAAGCTGAACAGAAA
1 AACAAAAGCTCGTAAAAGCTGAACAGAAA
52414955 GTAAAACATG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 9 0.15
42 50 0.85
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.16
Consensus pattern (42 bp):
AACAAAAGCTCGTAAAAGCTGAACAGAAACTCATAAAAGTTA
Found at i:52414916 original size:21 final size:21
Alignment explanation
Indices: 52414855--52414954 Score: 94
Period size: 21 Copynumber: 4.8 Consensus size: 21
52414845 ACAAAAGCTC
*
52414855 AAAAGCTAAACAGAAACTCAT
1 AAAAGCTAAACAGAAACTCGT
* * * *
52414876 AAAAGTTTAATAGAAGCTCGT
1 AAAAGCTAAACAGAAACTCGT
* *
52414897 AAGAGCTGAACAGAAACTCGT
1 AAAAGCTAAACAGAAACTCGT
* *
52414918 AAGAGTTAAACA-AAAGCTCGT
1 AAAAGCTAAACAGAAA-CTCGT
*
52414939 AAAAGCTGAACAGAAA
1 AAAAGCTAAACAGAAA
52414955 GTAAAACATG
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (21 bp):
AAAAGCTAAACAGAAACTCGT
Found at i:52419635 original size:18 final size:18
Alignment explanation
Indices: 52419612--52419648 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
52419602 AAATATGTAG
52419612 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
52419630 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
52419648 A
1 A
52419649 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:52421375 original size:50 final size:50
Alignment explanation
Indices: 52421306--52421902 Score: 319
Period size: 50 Copynumber: 11.9 Consensus size: 50
52421296 AATCATTTTA
* *
52421306 ACTGCAATGTCGG-GAAAGTAAGATTCACCATTGTGGCTTTAATCTGCTTC
1 ACTGCAATGCCGGAG-AAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* ** * * *
52421356 ACTGCATTGCCGGAGAAGTAAGATTCGTCATTGTGACTTTAATC--CTTTT
1 ACTGCAATGCCGGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGC-TTC
* * * * *
52421405 AGCTGCAATGTCGGAAAAGCAAGATTCAACGTTGTGGCTTTAATCTAC-TC
1 A-CTGCAATGCCGGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * * * * * * *
52421455 TACTGCACTGGCTGAGAGAGTGAGATTCATCGTTGTGACTTTAATCCT-TTTA
1 -ACTGCAATGCCGGAGA-AGTAAGATTCACCGTTGTGGCTTTAAT-CTGCTTC
* *
52421507 ACTGCAATGTCGG-GAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTC
1 ACTGCAATGCCGGAG-AAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * * * ** ** *
52421557 ACTGCATTGCCGGGGAAGTAAGATTCGCTGTTGCAGCTTTAATCTTTTTA
1 ACTGCAATGCCGGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * *
52421607 ACTGCAATGTCAGG-GAGGCAAGATTCACCGTTGTGGCTTTAATCTG-TTCC
1 ACTGCAATG-CCGGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
** * * * * * * *
52421657 ACTGCACCGCCTTGA-AGGTAAGATTCACTGCTGTAGCTTTAATCT-TTTAA
1 ACTGCAATGCC-GGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
* *
52421707 ACTGCAATGTCAGG-G-AGACAAGATTCACCGTTGTGGCTTTAATCTG-TTCC
1 ACTGCAATG-CCGGAGAAG-TAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
** * ** * * * *
52421757 ACTGCACCGCCTGGA-AGGTAAGATTTGCTGTTGTAGCTTTAATCT-TTTAA
1 ACTGCAATGCC-GGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
* * * * * * * *
52421807 ACTGTAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTACTCC
1 ACTGCAATGCCGGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
* * *
52421857 ACTGC-ATCGCCAGG-GAAGTAGGATTCACTGCTGTGGCTTTAATCTG
1 ACTGCAAT-GCC-GGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTG
52421903 TTTCCTTACA
Statistics
Matches: 412, Mismatches: 106, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
48 1 0.00
49 14 0.03
50 348 0.84
51 45 0.11
52 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
ACTGCAATGCCGGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTC
Found at i:52421629 original size:100 final size:98
Alignment explanation
Indices: 52421293--52421901 Score: 622
Period size: 100 Copynumber: 6.1 Consensus size: 98
52421283 AGAGAGTGAT
* * *
52421293 TTTAATCATTTTAACTGCAATGTCGGGAAAGTAAGATTCACCATTGTGGCTTTAATCTGCTTCAC
1 TTTAATCTTTTTAACTGCAATGTCGGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
** *
52421358 TGCATTGCCGGAGAAGTAAGATTCG-TCATTGT-GAC
65 TGCACCGCCGG-GAAGTAAGATTCGCT-GTTGTAG-C
* * * * *
52421393 TTTAATCCTTTTAGCTGCAATGTCGGAAAAGCAAGATTCAACGTTGTGGCTTTAATCTAC-TCTA
1 TTTAATCTTTTTAACTGCAATGTCGG-GAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTC-A
* * * * *
52421457 CTGCACTGGCTGAGAGAGTGAGATTC-ATCGTTGT-GAC
64 CTGCAC-CGCCGGGA-AGTAAGATTCGCT-GTTGTAG-C
*
52421494 TTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
1 TTTAATCTTTTTAACTGCAATGTCGGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
** *
52421559 TGCATTGCCGGGGAAGTAAGATTCGCTGTTGCAGC
65 TGCACCGCC-GGGAAGTAAGATTCGCTGTTGTAGC
*
52421594 TTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTG-TTCCA
1 TTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CA
** * *
52421658 CTGCACCGCCTTGAAGGTAAGATTCACTGCTGTAGC
64 CTGCACCGCCGGGAA-GTAAGATTCGCTGTTGTAGC
*
52421694 TTTAATCTTTTAAACTGCAATGTCAGGG-AGACAAGATTCACCGTTGTGGCTTTAATCTG-TTCC
1 TTTAATCTTTTTAACTGCAATGTC-GGGAAG-CAAGATTCACCGTTGTGGCTTTAATCTGCTT-C
* *
52421757 ACTGCACCGCCTGGAAGGTAAGATTTGCTGTTGTAGC
63 ACTGCACCGCCGGGAA-GTAAGATTCGCTGTTGTAGC
* * * * * *
52421794 TTTAATCTTTTAAACTGTAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTACTCCAC
1 TTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCAC
* * * * *
52421859 TGCATCGCCAGGGAAGTAGGATTCACTGCTGTGGC
65 TGCACCGCC-GGGAAGTAAGATTCGCTGTTGTAGC
52421894 TTTAATCT
1 TTTAATCT
52421902 GTTTCCTTAC
Statistics
Matches: 440, Mismatches: 52, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
99 8 0.02
100 333 0.76
101 97 0.22
102 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (98 bp):
TTTAATCTTTTTAACTGCAATGTCGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACT
GCACCGCCGGGAAGTAAGATTCGCTGTTGTAGC
Found at i:52421641 original size:201 final size:198
Alignment explanation
Indices: 52421288--52421900 Score: 724
Period size: 200 Copynumber: 3.1 Consensus size: 198
52421278 GGCTGAGAGA
* * * *
52421288 GTGATTTTAATCATTTTAACTGCAATGTCGGGAAAGTAAGATTCACCATTGTGGCTTTAATCTGC
1 GTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGC
* * *
52421353 TTCACTGCATTGCCGGAGAAGTAAGATTCGTCAT-TGTGA-CTTTAATCCTTTTAGCTGCAATGT
66 TTCACTGCATTGCCGGGGAAGTAAGATTCG-C-TGT-TGAGCTTTAATCTTTTTAACTGCAATGT
* * * * * *
52421416 CGGAAAAGCAAGATTCAACGTTGTGGCTTTAATCTACTCTACTGCACTGGC-TGAGAGAGTGAGA
128 CGG-GAAGCAAGATTCACCGTTGTGGCTTTAATCTACTCCACTGCACCGCCTTGA-AG-GTAAGA
*
52421480 TTCA-TCGTT
190 TTCACT-GCT
52421489 GTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGC
1 GTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGC
52421554 TTCACTGCATTGCCGGGGAAGTAAGATTCGCTGTTGCAGCTTTAATCTTTTTAACTGCAATGTCA
66 TTCACTGCATTGCCGGGGAAGTAAGATTCGCTGTTG-AGCTTTAATCTTTTTAACTGCAATGTC-
* **
52421619 GGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTTGAAGGTAAGATTCA
129 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTACTCCACTGCACCGCCTTGAAGGTAAGATTCA
52421684 CTGCT
194 CTGCT
*
52421689 GT-AGCTTTAAT-CTTTTAAACTGCAATGTCAGGGAGA-CAAGATTCACCGTTGTGGCTTTAATC
1 GTGA-CTTTAATCCTTTT-AACTGCAATGTC-GGGAAAGCAAGATTCACCGTTGTGGCTTTAATC
** * * * *
52421751 TG-TTCCACTGCACCGCC-TGGAAGGTAAGATTTGCTGTTGTAGCTTTAATCTTTTAAACTGTAA
63 TGCTT-CACTGCATTGCCGGGGAA-GTAAGATTCGCTGTTG-AGCTTTAATCTTTTTAACTGCAA
* * * ** *
52421814 TGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTACTCCACTGCATCGCCAGGGAA-GTAG
125 TGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTACTCCACTGCACCGCC-TTGAAGGTAA
52421878 GATTCACTGCT
188 GATTCACTGCT
*
52421889 GTGGCTTTAATC
1 GTGACTTTAATC
52421901 TGTTTCCTTA
Statistics
Matches: 362, Mismatches: 36, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
199 15 0.04
200 179 0.49
201 163 0.45
202 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (198 bp):
GTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGC
TTCACTGCATTGCCGGGGAAGTAAGATTCGCTGTTGAGCTTTAATCTTTTTAACTGCAATGTCGG
GAAGCAAGATTCACCGTTGTGGCTTTAATCTACTCCACTGCACCGCCTTGAAGGTAAGATTCACT
GCT
Found at i:52423242 original size:8 final size:7
Alignment explanation
Indices: 52423205--52423256 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
52423195 AGCCTCTCCA
*
52423205 TTTCCTT
1 TTTCATT
52423212 TTTCATT
1 TTTCATT
*
52423219 TTTGATT
1 TTTCATT
*
52423226 TTTGA-T
1 TTTCATT
52423232 TTTCATGT
1 TTTCAT-T
52423240 TTTCATT
1 TTTCATT
52423247 TTTCATT
1 TTTCATT
52423254 TTT
1 TTT
52423257 TTGACTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
6 5 0.12
7 28 0.70
8 7 0.17
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (7 bp):
TTTCATT
Found at i:52429006 original size:18 final size:18
Alignment explanation
Indices: 52428983--52429019 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
52428973 AAATATGTAG
52428983 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
52429001 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
52429019 A
1 A
52429020 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:52430249 original size:5 final size:5
Alignment explanation
Indices: 52430229--52430288 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
52430219 TTGGTTTTCA
* *
52430229 TTATT TATATTT TTATT TTATT TTATT TTATT TT-TT ATATT TT-GT TTA-T
1 TTATT T-TA-TT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
52430278 TTATT TGATT T
1 TTATT TTATT T
52430289 GGGCCGGGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
4 10 0.22
5 29 0.63
6 4 0.09
7 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:52430254 original size:22 final size:24
Alignment explanation
Indices: 52430229--52430281 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
52430219 TTGGTTTTCA
52430229 TTATTTATA-TTTTTAT-TTTAT-T
1 TTATTTATATTTTTTATATTT-TGT
52430251 TTATTT-TATTTTTTATATTTTGT
1 TTATTTATATTTTTTATATTTTGT
52430274 TTATTTAT
1 TTATTTAT
52430282 TTGATTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.07
22 14 0.52
23 10 0.37
24 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (24 bp):
TTATTTATATTTTTTATATTTTGT
Found at i:52430282 original size:22 final size:22
Alignment explanation
Indices: 52430229--52430283 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
52430219 TTGGTTTTCA
* *
52430229 TTATTTATATTTTTATTTTATT
1 TTATTTATTTTTTTATTTTAGT
52430251 TTATTTTATTTTTTATATTTT-GT
1 TTA-TTTATTTTTT-TATTTTAGT
52430274 TTATTTATTT
1 TTATTTATTT
52430284 GATTTGGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.34
23 13 0.45
24 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (22 bp):
TTATTTATTTTTTTATTTTAGT
Found at i:52431639 original size:21 final size:17
Alignment explanation
Indices: 52431590--52431635 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 17
52431580 GATAATGTAC
52431590 AAAAAAT-GTATAAATA
1 AAAAAATAGTATAAATA
52431606 AAAAAATAGTATAAATTA
1 AAAAAATAGTATAAA-TA
52431624 AAAAAATAGTAT
1 AAAAAATAGTAT
52431636 TATATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.25
17 7 0.25
18 14 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (17 bp):
AAAAAATAGTATAAATA
Found at i:52431808 original size:24 final size:24
Alignment explanation
Indices: 52431781--52431937 Score: 153
Period size: 24 Copynumber: 6.6 Consensus size: 24
52431771 TAGATGGAAA
*
52431781 TTAAAATAATAATATATGATAAAT
1 TTAAAATAATAATACATGATAAAT
* * *
52431805 TTAAAAAGTAATTACACATGA-AAAC
1 TT-AAAA-TAATAATACATGATAAAT
*
52431830 TTAGAATAATAATACAT-ATAAAAT
1 TTAAAATAATAATACATGAT-AAAT
* *
52431854 TTAAAATAATAATAAATGATGAAT
1 TTAAAATAATAATACATGATAAAT
*
52431878 TT-AAATAACAAATACATGATAAAT
1 TTAAAATAA-TAATACATGATAAAT
**
52431902 TT-AAATAATGTTA-ATGATAAAT
1 TTAAAATAATAATACATGATAAAT
52431924 TTAAAATAATAATA
1 TTAAAATAATAATA
52431938 TGTTACAAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
22 12 0.11
23 26 0.24
24 48 0.45
25 11 0.10
26 10 0.09
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (24 bp):
TTAAAATAATAATACATGATAAAT
Found at i:52431816 original size:23 final size:22
Alignment explanation
Indices: 52431764--52431982 Score: 101
Period size: 24 Copynumber: 9.5 Consensus size: 22
52431754 AAAACTATAT
* * *
52431764 AAAATAATAGATG-GAAATTAA
1 AAAATAATATATGATAAATTTA
52431785 AATAATAATATATGATAAATTTA
1 AA-AATAATATATGATAAATTTA
* *
52431808 AAAAGTAATTACACATGA-AAACTTA
1 AAAA-TAA-T--ATATGATAAATTTA
*
52431833 GAATAATAATACAT-ATAAAATTTAA
1 -AA-AATAATATATGAT-AAATTT-A
* *
52431858 AATAATAATAAATGATGAATTTA
1 AA-AATAATATATGATAAATTTA
* *
52431881 AATAACAAATACATGATAAATTTA
1 AA-AA-TAATATATGATAAATTTA
**
52431905 AATAATGTTA-ATGATAAATTT-
1 AA-AATAATATATGATAAATTTA
* *
52431926 AAAATAATAATATGTTACAAATT-
1 AAAATAAT-ATATGATA-AATTTA
52431949 AAAATAATAT-TGATAATAAGTTTA
1 AAAATAATATATGAT-A-AA-TTTA
52431973 AAAATAATAT
1 AAAATAATAT
52431983 TAAGCTTAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 35
0.74 0.10 0.16
Matches are distributed among these distances:
20 4 0.03
21 8 0.05
22 34 0.22
23 37 0.23
24 53 0.34
25 10 0.06
26 10 0.06
27 2 0.01
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (22 bp):
AAAATAATATATGATAAATTTA
Found at i:52433114 original size:17 final size:17
Alignment explanation
Indices: 52433094--52433126 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
52433084 CTAGGGTCTA
52433094 ATTGGGTCTAGGATTGT
1 ATTGGGTCTAGGATTGT
52433111 ATTGGGTCTAGGATTG
1 ATTGGGTCTAGGATTG
52433127 GGTTAGATTT
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:0.18, C:0.06, G:0.36, T:0.39
Consensus pattern (17 bp):
ATTGGGTCTAGGATTGT
Found at i:52435743 original size:142 final size:142
Alignment explanation
Indices: 52435555--52435983 Score: 768
Period size: 142 Copynumber: 3.0 Consensus size: 142
52435545 ATTCAATTTG
* * *
52435555 ACTCTTAGTATAAAGGCCTTCATGATATTTTTGAGTAGCATTTGGTATGATGGAAAGTAATCACC
1 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
52435620 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
66 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
52435685 CCTTGGAATCTA
131 CCTTGGAATCTA
52435697 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
1 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
* * *
52435762 TTCCTAGAAATTTAATCAATTGGAAAATGATTCTAACGTTTAGTATGTAAAATTTTATTTACTTT
66 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
52435827 CCTTGGAATCTA
131 CCTTGGAATCTA
* *
52435839 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCGTTTGGTATGATGGAAAATAATCACT
1 ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
*
52435904 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGATATGTCAAATTTTATTTACTTT
66 TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
*
52435969 CCTTGGAATCGA
131 CCTTGGAATCTA
52435981 ACT
1 ACT
52435984 TTTCATTGAT
Statistics
Matches: 274, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 274 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (142 bp):
ACTCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACT
TTCCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTTGGTATGTCAAATTTTATTTACTTT
CCTTGGAATCTA
Found at i:52441886 original size:47 final size:47
Alignment explanation
Indices: 52441817--52441910 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
52441807 TCCTGTTTTA
52441817 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
1 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
52441864 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
1 AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
52441911 TTTGTTTCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (47 bp):
AACACGTCATGAGATTCATTCTACCATATCCATCAACTATCTTCCCT
Found at i:52443031 original size:18 final size:18
Alignment explanation
Indices: 52443005--52443131 Score: 164
Period size: 18 Copynumber: 6.9 Consensus size: 18
52442995 ACTTCACAAC
*
52443005 GGGTTCGCATACATATAA
1 GGGTTCACATACATATAA
* *
52443023 GGGTCCGCATACATATATAA
1 GGGTTCACATAC--ATATAA
*
52443043 GGGTTCATATACATATAA
1 GGGTTCACATACATATAA
* *
52443061 GGGTTCACATGCATATGA
1 GGGTTCACATACATATAA
*
52443079 GGGTTCACATGCATATAA
1 GGGTTCACATACATATAA
*
52443097 TGGTTCACATACATATAA
1 GGGTTCACATACATATAA
52443115 GGGTTCACATACATATA
1 GGGTTCACATACATATA
52443132 TACAATTTGT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
18 81 0.84
20 15 0.16
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (18 bp):
GGGTTCACATACATATAA
Found at i:52444336 original size:31 final size:31
Alignment explanation
Indices: 52444300--52444361 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
52444290 AGATAATTTT
52444300 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
52444331 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
52444362 TAATTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:52444918 original size:31 final size:32
Alignment explanation
Indices: 52444881--52444942 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
52444871 AAGAAGAAGT
* * *
52444881 AAAAAGCGTAAAAAAAA-GGTAAAAAAAAAGC
1 AAAAAGCGCAAAAAAAACCGCAAAAAAAAAGC
52444912 AAAAAGCGCAAAAAAAACCGCAAAAAAAAAG
1 AAAAAGCGCAAAAAAAACCGCAAAAAAAAAG
52444943 TTGCCTACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.71, C:0.11, G:0.15, T:0.03
Consensus pattern (32 bp):
AAAAAGCGCAAAAAAAACCGCAAAAAAAAAGC
Found at i:52450496 original size:31 final size:31
Alignment explanation
Indices: 52450460--52450520 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
52450450 AGATAATTTT
52450460 AAAGAGTTTTATTAGGATTCAATTACTCTTA
1 AAAGAGTTTTATTAGGATTCAATTACTCTTA
52450491 AAAGAGTTTTATTAGGATTCAATTACTCTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTT
52450521 GTAATTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTA
Found at i:52452845 original size:21 final size:20
Alignment explanation
Indices: 52452821--52452866 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
52452811 TCATACATGA
*
52452821 AATTAAAAAAAAATAACTCTT
1 AATTAAAAAAAAATAA-ACTT
* *
52452842 AATTTAAAGAAAATAAACTT
1 AATTAAAAAAAAATAAACTT
52452862 AATTA
1 AATTA
52452867 TCTAAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (20 bp):
AATTAAAAAAAAATAAACTT
Found at i:52453682 original size:17 final size:18
Alignment explanation
Indices: 52453660--52453693 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
52453650 ACCAATAATT
52453660 TATTTTAA-TTTATTATA
1 TATTTTAATTTTATTATA
52453677 TATTTTAATTTTATTAT
1 TATTTTAATTTTATTAT
52453694 GCACATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTAATTTTATTATA
Found at i:52458805 original size:43 final size:42
Alignment explanation
Indices: 52458739--52458908 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 42
52458729 ATAGGATTTC
* *
52458739 CGATATGTG-TTATCGTGTAAGACCACGTTTGGGACGTTGGCAT
1 CGAT-TGTGATTA-CGTGTAAGACCACGTCTAGGACGTTGGCAT
* * *
52458782 CGACTTGTGTTTACGTGTAAGACCATGTCTAGGACATTGGCAT
1 CGA-TTGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
* *
52458825 CGTATT-TGATT-CGTGTAAGACC-CTGTCTGGGTCAG-TGGCAT
1 CG-ATTGTGATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCAT
*
52458866 CGATATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGAT-TGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
52458909 TGTACGAGTC
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
40 2 0.02
41 27 0.26
42 10 0.10
43 60 0.57
44 6 0.06
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
CGATTGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:52458896 original size:84 final size:84
Alignment explanation
Indices: 52458751--52458908 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
52458741 ATATGTGTTA
* * * *
52458751 TCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTAGGA
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTAGGA
52458816 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
*
52458835 TCGTGTAAGACC-CTGTCTGGGTCAG-TGGCATCGA-TATGTGATTACATGTAAGACCACGTCTA
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTA
*
52458897 GGACGTTGGCAT
63 GGACATTGGCAT
52458909 TGTACGAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTAGGA
CATTGGCATCGTATTTGAT
Found at i:52459098 original size:16 final size:17
Alignment explanation
Indices: 52459069--52459100 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
52459059 TGAATTGATG
52459069 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
52459086 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
52459101 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:52462932 original size:15 final size:15
Alignment explanation
Indices: 52462912--52462942 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52462902 ATGCTGATAT
*
52462912 ACGAAAAAGGAAAAA
1 ACGAAAAACGAAAAA
52462927 ACGAAAAACGAAAAA
1 ACGAAAAACGAAAAA
52462942 A
1 A
52462943 AAAAATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.10, G:0.16, T:0.00
Consensus pattern (15 bp):
ACGAAAAACGAAAAA
Found at i:52463139 original size:99 final size:102
Alignment explanation
Indices: 52463008--52463206 Score: 298
Period size: 103 Copynumber: 2.0 Consensus size: 102
52462998 TTTCTTTTTC
**
52463008 TTTCATGTCAGAATTAGATATCAGTATACG-AAAAAA-T-AAAAAAAAAATTT-GGTGCTGACCT
1 TTTCATGTCAGAAACAGATATCAGTATACGAAAAAAATTAAAAAAAAAAATTTGGGTGCTGACCT
* * *
52463069 GTCAATGGCCGGCACCTAGTACAATTTTAAAAAAAAAA
66 ATCAATGGCCAGCACCCAGTACAA-TTTAAAAAAAAAA
* *
52463107 TTTCGTGTCAGAAACAGATATCAGTATACGAAAAAAATTAAAAAAAAAAATTTGGGTGCTGGCCT
1 TTTCATGTCAGAAACAGATATCAGTATACGAAAAAAATTAAAAAAAAAAATTTGGGTGCTGACCT
52463172 ATCAATGGCCAGCACCCAGTACAATTTAAAAAAAA
66 ATCAATGGCCAGCACCCAGTACAATTTAAAAAAAA
52463207 TTCTTTCTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
99 27 0.30
100 6 0.07
101 1 0.01
102 24 0.27
103 31 0.35
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.25
Consensus pattern (102 bp):
TTTCATGTCAGAAACAGATATCAGTATACGAAAAAAATTAAAAAAAAAAATTTGGGTGCTGACCT
ATCAATGGCCAGCACCCAGTACAATTTAAAAAAAAAA
Found at i:52463387 original size:101 final size:101
Alignment explanation
Indices: 52463269--52463765 Score: 451
Period size: 99 Copynumber: 4.9 Consensus size: 101
52463259 AAAAAATTTG
* * *
52463269 GATATTTGATTCTGACACGAAA-TTTTTTTTTTAAAATTGTACTGGGTGCCGGTCATTGACAGGC
1 GATATCTGATTCTGACACGAAAGATTTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGC
* *
52463333 CAGCACTCAAAATTTTTTTTTATTTTTTTCGTATACT
65 CAACACCCAAAATTTTTTTTTATTTTTTTCGTATACT
* *
52463370 GATATCTGATTTTGACACG-AA-ATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTCACAGGCC
1 GATATCTGATTCTGACACGAAAGATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCC
*
52463433 AACACCCAAAATTTTATTTTTTATTTTTTTCGTATATT
66 AACACCCAAAA-TTT-TTTTTTATTTTTTTCGTATACT
* * * *
52463471 GATATCTAATTCTGGCACGAAAAAAAAGAATTTTTTTTAAATTGTACTAGGTGCCGGCCATTGAC
1 GATATCTGATTCTGACACG-----AAAGATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGAC
**
52463536 ---CC-A-A---AATTTTTATTTTTTATTTTTTTCGTATACT
61 AGGCCAACACCCAAAATTT-TTTTTTATTTTTTTCGTATACT
* *
52463570 GATATCTGATTCTGACATGGAAAAAAAAAAGAATTTTTTTTAAATTGTACTGGGTGCCGGCCATT
1 GATATCTGATTCTGACA-CG-------AAAGATTTTTTTTTAAATTGTACTGGGTGCCGGCCATT
* *
52463635 GACAGGCCAACACCCAAAA------TTT-TTTTTTTCATATATT
58 GACAGGCCAACACCCAAAATTTTTTTTTATTTTTTTCGTATACT
* * * ** *
52463672 GATATCTAACTCTAACAC-AAATTTTTTTTTTTTAAATTGTACTGGGTGCTGGCCATTGACAGG-
1 GATATCTGATTCTGACACGAAA-GATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
52463735 CAAGCACCCAAAATTTTTTTTT-TTGTTTTTC
65 CAA-CACCCAAAATTTTTTTTTATT-TTTTTC
52463766 TTTTTTTCCC
Statistics
Matches: 334, Mismatches: 33, Indels: 58
0.79 0.08 0.14
Matches are distributed among these distances:
93 6 0.02
94 46 0.14
99 79 0.24
100 22 0.07
101 60 0.18
102 72 0.22
103 4 0.01
104 1 0.00
105 4 0.01
106 1 0.00
107 3 0.01
108 34 0.10
110 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (101 bp):
GATATCTGATTCTGACACGAAAGATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCC
AACACCCAAAATTTTTTTTTATTTTTTTCGTATACT
Found at i:52463675 original size:102 final size:98
Alignment explanation
Indices: 52463456--52463757 Score: 280
Period size: 102 Copynumber: 3.1 Consensus size: 98
52463446 TTATTTTTTA
* *
52463456 TTTTTTTCGTATATTGATATCTAATTCTGGCACG-AAAAAAAAGAATTTTTTTTAAATTGTACTA
1 TTTTTTTCGTATATTGATATCT-ATTCT-GCATGAAAAAAAAAGAATTTTTTTTAAATTGTACTG
* *** ***
52463520 GGTGCCGGCCATTGAC---CCAAAATTTTTATTTTTT
64 GGTGCCGGCCATTGACAGGCCAACA--CCCAAAATTT
*
52463554 ATTTTTTTCGTATACTGATATCTGATTCTGACATGGAAAAAAAAAAGAATTTTTTTTAAATTGTA
1 -TTTTTTTCGTATATTGATATCT-ATTCTG-CAT-G-AAAAAAAAAGAATTTTTTTTAAATTGTA
52463619 CTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATTT
61 CTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATTT
* * * * ****
52463657 TTTTTTTCATATATTGATATCTA-ACT-C-T-AACACAAATTTTTTTTTTTTAAATTGTACTGGG
1 TTTTTTTCGTATATTGATATCTATTCTGCATGAAAAAAAAAGAATTTTTTTTAAATTGTACTGGG
*
52463718 TGCTGGCCATTGACAGG-CAAGCACCCAAAATTT
66 TGCCGGCCATTGACAGGCCAA-CACCCAAAATTT
52463751 TTTTTTT
1 TTTTTTT
52463758 TGTTTTTCTT
Statistics
Matches: 174, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
93 3 0.02
94 62 0.36
97 1 0.01
98 2 0.01
99 28 0.16
100 3 0.02
101 1 0.01
102 65 0.37
103 4 0.02
105 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (98 bp):
TTTTTTTCGTATATTGATATCTATTCTGCATGAAAAAAAAAGAATTTTTTTTAAATTGTACTGGG
TGCCGGCCATTGACAGGCCAACACCCAAAATTT
Found at i:52494957 original size:41 final size:41
Alignment explanation
Indices: 52494900--52495010 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 41
52494890 GTATTAGACT
*
52494900 TTGAGTCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
1 TTGAGCCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
* * * * * *
52494941 TTGAGCCTAGTAGGCTTTGTGCCGGTGTATTGTATCAGG-T
1 TTGAGCCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
* * **
52494981 TTTATACCTAGCAGGCTTTATGCCAGTGTA
1 TTGA-GCCTAGCAGGCTTCGTGCCAGTGTA
52495011 ATTGTAACAG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 3 0.05
41 54 0.95
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
TTGAGCCTAGCAGGCTTCGTGCCAGTGTATGGAATCAGGCC
Found at i:52496127 original size:30 final size:30
Alignment explanation
Indices: 52496092--52496597 Score: 661
Period size: 30 Copynumber: 16.7 Consensus size: 30
52496082 GTATACATTT
*
52496092 TATACATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
52496122 TATACAATGCCGAATTGATTTGTATATAGC
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
52496152 TATATATTGCCGAATTGATTTGTATATAGC
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
52496182 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
52496212 TATACATTGCCAAATTGATTGGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
52496242 TATACATTGCCGAATTCATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
52496272 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
52496302 TATAAATTGTCGAATTGATTGGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * *
52496332 TATACATTACCGAATTGATCTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * *
52496362 TATACATTGCCGAATTAATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
52496392 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
52496422 TATACATTGCCGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
*
52496452 TATACATTGCCGAATTGATTTGTAAATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
52496482 TATACATTGCCTAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
52496512 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
52496542 TATACATTGTCGAATTGATTTGTATATGTACACA
1 TATACATTGCCGAATTGATTTGTATA--T--AGA
*
52496576 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
52496598 AGCATTGGAT
Statistics
Matches: 417, Mismatches: 55, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
30 394 0.94
32 1 0.00
34 22 0.05
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATAGA
Found at i:52502805 original size:20 final size:19
Alignment explanation
Indices: 52502780--52502819 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52502770 AAACAAACTT
52502780 TAATTTAATTATAAAATATA
1 TAATTTAATTA-AAAATATA
**
52502800 TAATTTTTTTAAAAATATA
1 TAATTTAATTAAAAATATA
52502819 T
1 T
52502820 TTATTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATTTAATTAAAAATATA
Found at i:52504521 original size:228 final size:227
Alignment explanation
Indices: 52503843--52504525 Score: 731
Period size: 228 Copynumber: 3.0 Consensus size: 227
52503833 TCCAATTAAG
* * * * ** *
52503843 ATGCAGATCTTCGTTAAGACCCTGACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGACAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * *
52503908 GATCGACAACGTTAAGGCGAAAATCCAAGACAAGGAAGGGATCCCACCAGACCAAC-AACGTCTC
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGT-TC
* * *
52503972 ATCTTCGCCGGAAAACAGCTCGAAGATGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
130 ATTTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * * *
52504037 CACCCTCCATCTCGTCCTCCGTCTACGTGGTGGC
195 CACCCTCCA-CTTGTCTTGCGTCTTCGTGGTGGC
* * * *
52504071 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAAAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * * * *
52504136 CATTGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTCA
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGTTCA
* * * * *
52504201 TCTTT-GCCGGGAAACAACTCGAGGACGGTCGCACCTTGGCCGATTACAACATCCAGAAGGAGTC
131 T-TTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * * * * *
52504265 GACCCTCCATTTGGTATTGAGGCTTCGTGGTGGG
195 CACCCTCCACTT-GTCTTGCGTCTTCGTGGTGGC
* * ** * * * * *
52504299 ATGCAGATTTTCGTCAAGACGTTGACTGGGAAAACCATAACTTTGGAGGTGGAGAGTTCCGATAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * * * * *
52504364 GATCGACAATGTTAAGGCGAAGATTCAGGACAAAGAAGGGATTCCACCAGATCAGCAAAGGTTGA
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGTTCA
* * * * * * * * *
52504429 TTTTCGCTGGGAAACAGTTGGAAGATGGAAGGACTTTGGCTGATTACAATATTCAGAAGGAATCC
131 TTTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTCC
*
52504494 ACTCTCCACCTTGTCTTGCGTCTTCGTGGTGG
196 ACCCTCCA-CTTGTCTTGCGTCTTCGTGGTGG
52504526 TTTCTAAGCT
Statistics
Matches: 369, Mismatches: 81, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
227 4 0.01
228 358 0.97
229 7 0.02
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (227 bp):
ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGTTCA
TTTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTCC
ACCCTCCACTTGTCTTGCGTCTTCGTGGTGGC
Found at i:52507739 original size:50 final size:50
Alignment explanation
Indices: 52507623--52507815 Score: 314
Period size: 50 Copynumber: 3.8 Consensus size: 50
52507613 GATAATAACA
* ** *
52507623 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
52507674 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
52507724 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
52507774 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
52507816 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 98 0.74
51 34 0.26
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:52507931 original size:13 final size:13
Alignment explanation
Indices: 52507910--52507939 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
52507900 GCTTGGATAA
52507910 TCATCAAATAAAT
1 TCATCAAATAAAT
*
52507923 TCATGAAATAAAT
1 TCATCAAATAAAT
52507936 TCAT
1 TCAT
52507940 AGTTACTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:52528005 original size:28 final size:28
Alignment explanation
Indices: 52527973--52528026 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
52527963 GTTAAGTTAG
*
52527973 TTAACACTGTAGCTAAGGTTTATTTGTA
1 TTAACACTGTAACTAAGGTTTATTTGTA
52528001 TTAACACTGTAACTAAGGTTTATTTG
1 TTAACACTGTAACTAAGGTTTATTTG
52528027 CATTTCAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.43
Consensus pattern (28 bp):
TTAACACTGTAACTAAGGTTTATTTGTA
Found at i:52531330 original size:10 final size:10
Alignment explanation
Indices: 52531315--52531343 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
52531305 GAAATGTTTG
52531315 ATGATATAAT
1 ATGATATAAT
52531325 ATGATATAAT
1 ATGATATAAT
52531335 A-GATATAAT
1 ATGATATAAT
52531344 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:52532530 original size:30 final size:30
Alignment explanation
Indices: 52532496--52532559 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
52532486 CGATTTGAGG
* * *
52532496 CACAACCGTATGTTATAACTCAGTGTGTTA
1 CACAACCGTATGTCATAACTCAATGAGTTA
* * *
52532526 CACAATCGTGTGTCATAAGTCAATGAGTTA
1 CACAACCGTATGTCATAACTCAATGAGTTA
52532556 CACA
1 CACA
52532560 GGCTGAGACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (30 bp):
CACAACCGTATGTCATAACTCAATGAGTTA
Found at i:52536179 original size:42 final size:42
Alignment explanation
Indices: 52536105--52536201 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
52536095 GTGTTTCAAG
* * * * *
52536105 TCAGTGAGTTACACGGCCTGACACGCGGGCGTGTGTGGCAAC
1 TCAGAGAGTTACACAGCCTGACACACGAGCGTGTGAGGCAAC
*
52536147 TCAGAGAGTTACACAGCCTGGCACACGAGCGTGTGAGGCAAC
1 TCAGAGAGTTACACAGCCTGACACACGAGCGTGTGAGGCAAC
52536189 TCA-ATGAGTTACA
1 TCAGA-GAGTTACA
52536202 TGGGTGAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.26, C:0.25, G:0.31, T:0.19
Consensus pattern (42 bp):
TCAGAGAGTTACACAGCCTGACACACGAGCGTGTGAGGCAAC
Found at i:52540474 original size:43 final size:43
Alignment explanation
Indices: 52540438--52540666 Score: 307
Period size: 43 Copynumber: 5.3 Consensus size: 43
52540428 ACGCTACTAT
* * * *
52540438 AGAACAATACCTTTAACGGCGCTTTTCACACAAACGCCGCTAT
1 AGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
52540481 AGAACAAGACTTTTATCGGCGCTTTTCCCACAAACGCCGCTAA
1 AGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
52540524 AGATCATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAA
1 AGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
52540567 AGAACAAGACCTTTAGCGACGCTTTTCACACAAACGCCGCTAA
1 AGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
52540610 AGAACAAGACCTTTAGCGACGC-TTTCCCACAAACACTGCTAA
1 AGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
52540652 AGATCATGACCTTTA
1 AGAACAAGACCTTTA
52540667 AAAAATATTT
Statistics
Matches: 166, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
42 30 0.18
43 136 0.82
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
AGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
Found at i:52545218 original size:20 final size:20
Alignment explanation
Indices: 52545193--52545255 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
52545183 AATATAAAAG
52545193 TTTAAAATATTTTTAAAATT
1 TTTAAAATATTTTTAAAATT
**
52545213 TTTAAAA-AAATTTAAAATCT
1 TTTAAAATATTTTTAAAAT-T
52545233 TTTAAAAT-TCATTTTAAAATT
1 TTTAAAATAT--TTTTAAAATT
52545254 TT
1 TT
52545256 AAATCACGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 9 0.26
20 15 0.43
21 3 0.09
22 8 0.23
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATATTTTTAAAATT
Found at i:52545240 original size:10 final size:10
Alignment explanation
Indices: 52545193--52545252 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
52545183 AATATAAAAG
*
52545193 TTTAAAATATT
1 TTTAAAAT-CT
52545204 TTTAAAAT-T
1 TTTAAAATCT
***
52545213 TTTAAAAAAA
1 TTTAAAATCT
52545223 TTTAAAATCT
1 TTTAAAATCT
52545233 TTTAAAATTCAT
1 TTTAAAA-TC-T
52545245 TTTAAAAT
1 TTTAAAAT
52545253 TTTAAATCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 8 0.20
10 14 0.34
11 11 0.27
12 8 0.20
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTAAAATCT
Found at i:52545257 original size:30 final size:30
Alignment explanation
Indices: 52545185--52545258 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
52545175 AAGCAATTAA
* *
52545185 TATAAAAGTTTAAAATATTTTTAAAATTTT
1 TATAAAAATTTAAAATACTTTTAAAATTTT
*
52545215 TAAAAAAATTTAAAAT-CTTTTAAAATTCATT
1 TATAAAAATTTAAAATACTTTTAAAATT--TT
*
52545246 T-TAAAATTTTAAA
1 TATAAAAATTTAAA
52545259 TCACGAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.27
30 24 0.65
31 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (30 bp):
TATAAAAATTTAAAATACTTTTAAAATTTT
Found at i:52545810 original size:14 final size:14
Alignment explanation
Indices: 52545787--52545859 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 14
52545777 AACACTAGTT
52545787 AATC-TAAACCCTA
1 AATCATAAACCCTA
52545800 AATCATAAA-CCTA
1 AATCATAAACCCTA
* *
52545813 AATCCTAAAACCTTAA
1 AATCAT-AAACCCT-A
* *
52545829 AACCATAAACCCTT
1 AATCATAAACCCTA
52545843 AA-CATATAACCTCTA
1 AATCATA-AACC-CTA
52545858 AA
1 AA
52545860 CCTTAAACTC
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 17 0.36
14 13 0.28
15 12 0.26
16 5 0.11
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
AATCATAAACCCTA
Found at i:52545972 original size:14 final size:14
Alignment explanation
Indices: 52545950--52545988 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
52545940 CCTAAATCTT
* *
52545950 AAACTCTAAACCAT
1 AAACCCTAAACCAA
*
52545964 ATACCCTAAACCAA
1 AAACCCTAAACCAA
52545978 AAACCCTAAAC
1 AAACCCTAAAC
52545989 TATAGTGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAACCAA
Found at i:52546268 original size:41 final size:41
Alignment explanation
Indices: 52546184--52546332 Score: 196
Period size: 41 Copynumber: 3.7 Consensus size: 41
52546174 CATTAGCGGT
** * *
52546184 GCTTTCT-AGAAAACGCCGCTAAA-AATAGAGCATTCACAGC
1 GCTTTCTCA-AAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
*
52546224 GCTTTCTCAAAAACGTCGCTAAAGCCTTGAGCATTCGCAGC
1 GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
*
52546265 GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGC-GAC
1 GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAG-C
*
52546306 GCTTTCTTAAAAACGCCGCTAAAGCCT
1 GCTTTCTCAAAAACGCCGCTAAAGCCT
52546333 CGAAAGCTCA
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
40 21 0.21
41 77 0.79
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
Found at i:52546471 original size:32 final size:32
Alignment explanation
Indices: 52546425--52546485 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
52546415 GCGTTTTCAA
* *
52546425 TAAAGCGCCGCTAATGCTCGATCTTTAGCCAC
1 TAAAACGCCGCTAATGCTCGACCTTTAGCCAC
52546457 TAAAACGCCGCTAATGCTCGACCTTTAGC
1 TAAAACGCCGCTAATGCTCGACCTTTAGC
52546486 GGCATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (32 bp):
TAAAACGCCGCTAATGCTCGACCTTTAGCCAC
Found at i:52547548 original size:84 final size:84
Alignment explanation
Indices: 52547359--52547856 Score: 330
Period size: 84 Copynumber: 5.8 Consensus size: 84
52547349 TAATTTAATT
* * * * **
52547359 AAATCAAAATAAAAT-TTGTTAAACGACAGGAATAAATCTCGAAATAGA-ATTATTTGA-TTACG
1 AAATC-AAATAAAATATTGTTAAACGGCAGGAATAAATCTCGAAACAGATTTTATTTAATTTAAT
* * *
52547421 TCTTTATTTGGAAACAATACA
65 TC-TAATTTGGAAACAAAATA
* *
52547442 ATATCGAATAAAATATTGTTAAACGGCAGGAATAAAT-TCCGAAACAGATTTTATTTAATTTAAT
1 AAATCAAATAAAATATTGTTAAACGGCAGGAATAAATCT-CGAAACAGATTTTATTTAATTTAAT
*
52547506 TCTAATTTAGAAACAAAATA
65 TCTAATTTGGAAACAAAATA
* * *
52547526 AAATCAAATCAAATATTGTTAAAC-GAAGAGAATAAATCTCGAAACAGATTTTATTTAATTTAAC
1 AAATCAAATAAAATATTGTTAAACGGCAG-GAATAAATCTCGAAACAGATTTTATTTAATTTAAT
* *
52547590 TCCAATTTGGAAATAAAATA
65 TCTAATTTGGAAACAAAATA
* * ** **
52547610 AAATAAAATAAAATAAAATCTTGTTAAACAGTTGGAATAAATCTTAAAACAGATTTTATTTAATT
1 AAATCAAATAAAAT---A--TTGTTAAACGGCAGGAATAAATCTCGAAACAGATTTTATTTAATT
** *
52547675 TAATTTCTCGTTTTTGGCAACAAAATCA
61 TAA-TTCT--AATTTGGAAACAAAAT-A
** ** * * *
52547703 AAATGTAAT-AAAT-CCGTTGAACGG-TGGAAATAAATCCCGAAACAGATTTTATTTTAATTTTA
1 AAATCAAATAAAATATTGTTAAACGGCAGG-AATAAATCTCGAAACAGATTTTA-TTTAA-TTTA
** *
52547765 ATACTCGTTTTTTGGAAATAAAATCA
63 AT--TC-TAATTTGGAAACAAAAT-A
* * * * * * * * *
52547791 ATATTAGAATAAAAT-TTGTTGAACGGCGGGAGTAAATCCCAAAATAGATTTTAGTTAAATTTAA
1 AAATCA-AATAAAATATTGTTAAACGGCAGGAATAAATCTCGAAACAGATTTTA-TTTAATTTAA
52547855 TT
64 TT
52547857 TCCCGTTCGG
Statistics
Matches: 336, Mismatches: 54, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
82 9 0.03
83 36 0.11
84 103 0.31
85 9 0.03
86 27 0.08
87 8 0.02
88 24 0.07
89 52 0.15
90 42 0.12
91 2 0.01
92 16 0.05
93 8 0.02
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (84 bp):
AAATCAAATAAAATATTGTTAAACGGCAGGAATAAATCTCGAAACAGATTTTATTTAATTTAATT
CTAATTTGGAAACAAAATA
Found at i:52547610 original size:5 final size:5
Alignment explanation
Indices: 52547600--52547628 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
52547590 TCCAATTTGG
52547600 AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAAT
52547629 CTTGTTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Done.