Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 151 of 208
Found at i:45925659 original size:54 final size:54
Alignment explanation
Indices: 45925415--45925917 Score: 287
Period size: 54 Copynumber: 9.3 Consensus size: 54
45925405 AGAGCTTCAG
* * * * **
45925415 TTGATTTACAATCACGACCTTTTAGTTATAGGATTTTACGAATCTCGCGGTCCA
1 TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
* * * * * ** * *
45925469 CTGATTTACGATCACAACTTTCTACTTACGGGGTTTTATTAATCTCGTGGTCCT
1 TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
* * ** *
45925523 TTGATTTACGATCACGACCTTTTACTTACGGGATTTTAAAAATCTCATGGGCCA
1 TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
* * * * * *
45925577 CTT-ATTTACAATCACAATCTTCTACTTATGGGATTTTATGAATCTCATGCTTCA
1 -TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
* ** * *
45925631 TTGATTTATGATCACGACCTTCTACTTATATGATTTTACGAATCT--TGCGACCCG
1 TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATG-G-TCCA
* * * * * * * **
45925685 CT-ATTTACGTTGACGACCTTTTACTTATGGGATTTTACGAGTCTTACGGTATA
1 TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
* * * * * * * ** ***
45925738 TTGATTTAGGAGCATGGCCTTCTACTTACGTGG-TTTTACAAATATTGTGGTATG
1 TTGATTTACGATCACGACCTTCTACTTATG-GGATTTTACGAATCTCATGGTCCA
* * * * * * * * * *
45925792 TTGATTTACAATCATGACATTTTACTTACGAGAATTTATGAATCTCATGGTTCG
1 TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
* * * * * ** * *
45925846 CTGATTGACAATCACGACCTTCTACTTACGGGATTTTACAAATCTCGCGGCCCG
1 TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
*
45925900 TTGATTTACAATCACGAC
1 TTGATTTACGATCACGAC
45925918 TTGCTGCATA
Statistics
Matches: 338, Mismatches: 102, Indels: 18
0.74 0.22 0.04
Matches are distributed among these distances:
52 2 0.01
53 39 0.12
54 292 0.86
55 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (54 bp):
TTGATTTACGATCACGACCTTCTACTTATGGGATTTTACGAATCTCATGGTCCA
Found at i:45925903 original size:108 final size:109
Alignment explanation
Indices: 45925410--45925917 Score: 390
Period size: 108 Copynumber: 4.7 Consensus size: 109
45925400 TCTAAAGAGC
* * * ** * * **
45925410 TTCAGTTGATTTACAATCACGACCTTTTAGTTATAGGATTTTACGAATCTCGCGGTCCACTGATT
1 TTCA-TTGATTTACGATCACGACCTTCTACTTACGGGATTTTACAAATCTCGCGGCCCGTTGATT
* * * * *
45925475 TACGATCACAAC-TTTCTACTTACGGGGTTTTATTAATCTCGTGG
65 TACAATCACGACATTTCTACTTACGGGATTTTATGAATCTCATGG
* * * *
45925519 TCCTTTGATTTACGATCACGACCTTTTACTTACGGGATTTTAAAAATCTCATG-GGCCAC-TT-A
1 TTCATTGATTTACGATCACGACCTTCTACTTACGGGATTTTACAAATCTC--GCGGCC-CGTTGA
* *
45925581 TTTACAATCAC-A-ATCTTCTACTTATGGGATTTTATGAATCTCATGC
63 TTTACAATCACGACAT-TTCTACTTACGGGATTTTATGAATCTCATGG
* *** * * * *
45925627 TTCATTGATTTATGATCACGACCTTCTACTTATATGATTTTACGAATCTTGCGACCCGCT-ATTT
1 TTCATTGATTTACGATCACGACCTTCTACTTACGGGATTTTACAAATCTCGCGGCCCGTTGATTT
** * * * * * * *
45925691 ACGTTGACGACCTTT-TACTTATGGGATTTTACGAGTCTTACGG
66 ACAATCACGACATTTCTACTTACGGGATTTTATGAATCTCATGG
* * * * * * * ***
45925734 TAT-ATTGATTTAGGAGCATGGCCTTCTACTTACGTGG-TTTTACAAATATTGTGGTATGTTGAT
1 T-TCATTGATTTACGATCACGACCTTCTACTTACG-GGATTTTACAAATCTCGCGGCCCGTTGAT
* * *
45925797 TTACAATCATGACATTT-TACTTACGAGAATTTATGAATCTCATGG
64 TTACAATCACGACATTTCTACTTACGGGATTTTATGAATCTCATGG
** * *
45925842 TTCGCTGATTGACAATCACGACCTTCTACTTACGGGATTTTACAAATCTCGCGGCCCGTTGATTT
1 TTCATTGATTTACGATCACGACCTTCTACTTACGGGATTTTACAAATCTCGCGGCCCGTTGATTT
45925907 ACAATCACGAC
66 ACAATCACGAC
45925918 TTGCTGCATA
Statistics
Matches: 306, Mismatches: 79, Indels: 29
0.74 0.19 0.07
Matches are distributed among these distances:
106 2 0.01
107 82 0.27
108 213 0.70
109 7 0.02
110 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (109 bp):
TTCATTGATTTACGATCACGACCTTCTACTTACGGGATTTTACAAATCTCGCGGCCCGTTGATTT
ACAATCACGACATTTCTACTTACGGGATTTTATGAATCTCATGG
Found at i:45928712 original size:107 final size:107
Alignment explanation
Indices: 45928526--45928843 Score: 537
Period size: 107 Copynumber: 3.0 Consensus size: 107
45928516 AATTTTTTCT
* * *
45928526 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGTCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAATGTGCCCTAACGTGCTGGGTTTCGATT
*
45928591 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* *
45928633 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAATGTGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAATGTGCCCTAACGTGCTGGGTTTCGATT
45928698 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* *
45928740 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAATGTGCCCGAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAATGTGCCCTAACGTGCTGGGTTTCGATT
* * *
45928805 TCTCGTTTGACTAAATAGCCAAATATCCTCTTAAAACTT
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTT
45928844 CAAAGTATGG
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 198 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAATGTGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:45932829 original size:13 final size:13
Alignment explanation
Indices: 45932811--45932844 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
45932801 ATTGTGTGCT
45932811 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
45932824 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
45932837 TGTTTTTT
1 T-TTTTTT
45932845 GGAATAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:45948516 original size:15 final size:15
Alignment explanation
Indices: 45948492--45948526 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45948482 AAATATATAT
* *
45948492 GAACAGTAATCAATG
1 GAACAATAATCAAGG
45948507 GAACAATAATCAAGG
1 GAACAATAATCAAGG
45948522 GAACA
1 GAACA
45948527 GTAAAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.20, T:0.14
Consensus pattern (15 bp):
GAACAATAATCAAGG
Found at i:45950123 original size:29 final size:29
Alignment explanation
Indices: 45950090--45950147 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
45950080 ATTTATTGTT
45950090 GTTTCGTTCACCCATTCTAGATATTCTTC
1 GTTTCGTTCACCCATTCTAGATATTCTTC
45950119 GTTTCGTTCACCCATTCTAGATATTCTTC
1 GTTTCGTTCACCCATTCTAGATATTCTTC
45950148 TGTCCGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.28, G:0.10, T:0.45
Consensus pattern (29 bp):
GTTTCGTTCACCCATTCTAGATATTCTTC
Found at i:45950155 original size:29 final size:29
Alignment explanation
Indices: 45950094--45950155 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
45950084 ATTGTTGTTT
*
45950094 CGTTCACCCATTCTAGATATTCTTCGTTT
1 CGTTCACCCATTCTAGATATTCTTCGTTC
45950123 CGTTCACCCATTCTAGATATTCTTC-TGTC
1 CGTTCACCCATTCTAGATATTCTTCGT-TC
45950152 CGTT
1 CGTT
45950156 GAAACGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (29 bp):
CGTTCACCCATTCTAGATATTCTTCGTTC
Found at i:45955396 original size:18 final size:18
Alignment explanation
Indices: 45955360--45955397 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45955350 TGATTTTCAG
*
45955360 GAAGATAAACAAAGGGTT
1 GAAGATAAACAAAGAGTT
45955378 GAAGA-AAACAATAGAGTT
1 GAAGATAAACAA-AGAGTT
45955396 GA
1 GA
45955398 GATCTTGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.53, C:0.05, G:0.26, T:0.16
Consensus pattern (18 bp):
GAAGATAAACAAAGAGTT
Found at i:45963207 original size:22 final size:22
Alignment explanation
Indices: 45963179--45963327 Score: 217
Period size: 22 Copynumber: 6.8 Consensus size: 22
45963169 GGTATTCTGA
*
45963179 ACTAAGCTCTCATGTTTCACGT
1 ACTAAGCTCTCATGTTTAACGT
45963201 ACTAAGCTCTCATGTTTAACGT
1 ACTAAGCTCTCATGTTTAACGT
*
45963223 ACTAAGCTCTCATGTTTAACGA
1 ACTAAGCTCTCATGTTTAACGT
* * **
45963245 ACTAAACCCTCATGGCTAACGT
1 ACTAAGCTCTCATGTTTAACGT
**
45963267 ACTAAGCTCTCATGGCTAACGT
1 ACTAAGCTCTCATGTTTAACGT
*
45963289 ACTAAGCTCTCATGTTTCACGT
1 ACTAAGCTCTCATGTTTAACGT
45963311 ACTAAGCTCTCATGTTT
1 ACTAAGCTCTCATGTTT
45963328 GAACAATAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 115 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACTAAGCTCTCATGTTTAACGT
Found at i:45966590 original size:81 final size:81
Alignment explanation
Indices: 45966505--45966762 Score: 174
Period size: 81 Copynumber: 3.1 Consensus size: 81
45966495 ATGTTTCTAG
45966505 CAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACATTTGAATTTAATAACAAA
1 CAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACATTTGAATTTAATAACAAA
45966570 CTAAATTGATTGTTTC
66 CTAAATTGATTGTTTC
* ** **
45966586 CAAATGAACAATAAGATAATCACTTGGTAAATATTGT-AAT-ACCAAATGTTTCCACATGTAAGG
1 CAAAT----AA-AAGGTTGTCA-----TAAATATT-TAAATAACC--A-G-TTCCA-A--TAACA
* ** ** **
45966649 TTT-CATTT--TAGGATGC-AAA-TG-TT-TCTAG
48 TTTGAATTTAATAACAAACTAAATTGATTGT-TTC
45966677 CAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACATTTGAATTTAATAACAAA
1 CAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACATTTGAATTTAATAACAAA
45966742 CTAAATTGATTGTTTC
66 CTAAATTGATTGTTTC
45966758 CAAAT
1 CAAAT
45966763 GAATAATAAT
Statistics
Matches: 125, Mismatches: 24, Indels: 56
0.61 0.12 0.27
Matches are distributed among these distances:
75 6 0.05
76 4 0.03
77 1 0.01
78 9 0.07
79 4 0.03
80 4 0.03
81 24 0.19
82 4 0.03
85 2 0.02
86 14 0.11
87 2 0.02
90 4 0.03
91 19 0.15
92 4 0.03
93 4 0.03
94 9 0.07
95 1 0.01
96 4 0.03
97 6 0.05
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (81 bp):
CAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACATTTGAATTTAATAACAAA
CTAAATTGATTGTTTC
Found at i:45966709 original size:172 final size:172
Alignment explanation
Indices: 45966423--45966771 Score: 680
Period size: 172 Copynumber: 2.0 Consensus size: 172
45966413 CTCGAAACCA
45966423 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGCAAGGTTTCATTTTAG
1 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGCAAGGTTTCATTTTAG
45966488 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
66 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
45966553 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
131 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
*
45966595 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
1 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGCAAGGTTTCATTTTAG
45966660 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
66 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
*
45966725 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAT
131 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
45966767 AATAA
1 AATAA
45966772 TATCCAAATT
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 175 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (172 bp):
AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGCAAGGTTTCATTTTAG
GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
Found at i:45967513 original size:418 final size:418
Alignment explanation
Indices: 45966736--45967576 Score: 1163
Period size: 418 Copynumber: 2.0 Consensus size: 418
45966726 TGAATTTAAT
* *
45966736 AACAAACTAAATTGATTGTTTCCAAATGAATAATAATATCCAAATTTGTCCAACAAAAAAACATA
1 AACAAACTAAACTGATTGTTTCCAAATGAACAATAATATCCAAATTTGTCCAACAAAAAAACATA
* * *
45966801 AACTAAATTGCATCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATGAAAATTAAAAA
66 AACTAAACTCCATCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAAAAA
* *
45966866 AAGTTCCTAATAACAACCTAAAATGCCCAATTGCTTCCACTTCCATCGATTTTCCATCGCCCACG
131 AAGTTCCTAATAACAACCTAAAATGCCCAATTGCTTCCACTTCCACCGATTTTCCATCGCCCACA
* * * *
45966931 AAGATGTGTCTTTCACCATCACTTGACTTTCGGTAGCTTAGACAGCCTTGCATAGAAACACTTAT
196 AAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCATAGAAACACTTAT
* * *
45966996 GTGAGTAGTAGAACCAGAATCTATCCACCAGGTGTTTCTAGATACTGAAACTAAATTAACCTTAG
261 GTGAGTAGTAGAACCAAAATCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAACCTTAG
* * **
45967061 AACATACTAAAGTAAGAATTACACCTTTATTTGCACGCCAAGTGTGATATTT-AACACATTCTTT
326 AACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGTGTGATATTTGAA-ACATTCTTT
* *
45967125 CTTCACATGTCTAGACTCGTTACAAAAGA
390 CTTCACATGTCCAAACTCGTTACAAAAGA
* * *
45967154 AACAAACTAAACTGATTGTTTTCGAATGAACAATAATATCCAAAATTT-TCCAACAAAGAAACAT
1 AACAAACTAAACTGATTGTTTCCAAATGAACAATAATATCC-AAATTTGTCCAACAAAAAAACAT
* * *
45967218 AAACTAAACTCCGTCTAAAAGAC-GATACAACAAAATTTTCTTTTAAATCTAAATAAAAATTAAA
65 AAACTAAACTCCATCTAAAAGACAG-TACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAAA
* * * * * *
45967282 TAAA-TTCCTAATAGCAACCTAAAATGCCCATATTGCTTCCATTTCTACCGATTTTTCATTGCCC
129 AAAAGTTCCTAATAACAACCTAAAATGCCCA-ATTGCTTCCACTTCCACCGATTTTCCATCGCCC
* * * *
45967346 ACAAAGATGTGTCTTTTAACACCACTTGGCTTTCGGTAGCTCAGGCAACCTTGCATAGGAACACT
193 ACAAAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCATAGAAACACT
* * * *
45967411 TATGTGAGTAGTAGAACTAAAAGT-TATCCACCAAGTGTTTCTAGGCACTGAAACTAACTTAA-T
258 TATGTGAGTAGTAGAACCAAAA-TCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAACC
* * * * * *
45967474 TTCAGAACAGGCCAAAGTAAGAATTATAAATTTATTTGCAGGCTAGGTGTGATATTTGGAACATT
322 TT-AGAACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGTGTGATATTTGAAACATT
*
45967539 CTTTCTTCACATGTCCAAACTTGTTACAAAAGA
386 CTTTCTTCACATGTCCAAACTCGTTACAAAAGA
45967572 AACAA
1 AACAA
45967577 CTCTCTGTAA
Statistics
Matches: 370, Mismatches: 47, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
417 28 0.08
418 334 0.90
419 8 0.02
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (418 bp):
AACAAACTAAACTGATTGTTTCCAAATGAACAATAATATCCAAATTTGTCCAACAAAAAAACATA
AACTAAACTCCATCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAAAAA
AAGTTCCTAATAACAACCTAAAATGCCCAATTGCTTCCACTTCCACCGATTTTCCATCGCCCACA
AAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCATAGAAACACTTAT
GTGAGTAGTAGAACCAAAATCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAACCTTAG
AACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGTGTGATATTTGAAACATTCTTTC
TTCACATGTCCAAACTCGTTACAAAAGA
Found at i:45970522 original size:25 final size:25
Alignment explanation
Indices: 45970480--45970532 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
45970470 ATTAGCATAT
*
45970480 ATATATTATCTTAAAAATTATAAA-A
1 ATATACTATCTTAAAAATT-TAAAGA
45970505 ATATACTAT-TTAATAAATTTAAAGA
1 ATATACTATCTTAA-AAATTTAAAGA
45970530 ATA
1 ATA
45970533 AACATGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
ATATACTATCTTAAAAATTTAAAGA
Found at i:45970941 original size:16 final size:15
Alignment explanation
Indices: 45970905--45970943 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
45970895 GTTTAGTCCC
*
45970905 TAGGGTTTTTTGGTT
1 TAGGGTTTTTTGGGT
45970920 TA-GGTTTTTTAGGGT
1 TAGGGTTTTTT-GGGT
45970935 TAGGGTTTT
1 TAGGGTTTT
45970944 GTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 8 0.38
15 7 0.33
16 6 0.29
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.56
Consensus pattern (15 bp):
TAGGGTTTTTTGGGT
Found at i:45971004 original size:21 final size:21
Alignment explanation
Indices: 45970938--45971004 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
45970928 TTAGGGTTAG
45970938 GGTTTTGTTAAAATAATTTAA
1 GGTTTTGTTAAAATAATTTAA
* ** *** ** *
45970959 GATTAGGTTTGTATGGTTTAG
1 GGTTTTGTTAAAATAATTTAA
45970980 GGTTTTGTTAAAATAATTTAA
1 GGTTTTGTTAAAATAATTTAA
45971001 GGTT
1 GGTT
45971005 CTAGGTTTTA
Statistics
Matches: 28, Mismatches: 18, Indels: 0
0.61 0.39 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (21 bp):
GGTTTTGTTAAAATAATTTAA
Found at i:45971098 original size:34 final size:34
Alignment explanation
Indices: 45971056--45971165 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 34
45971046 TTCTTTTTTT
45971056 AAAAATTAATTAAATTAGAGTTTAAG-GGTTTTAA
1 AAAAATTAATTAAATTAGAGTTT-AGTGGTTTTAA
* * * *
45971090 AAAAATTAATTAATTTTGGGTTTAGTGTTTTTAA
1 AAAAATTAATTAAATTAGAGTTTAGTGGTTTTAA
* * *
45971124 AAAAATTAATTAAATTTGGGTTTA-T-TTTTTAA
1 AAAAATTAATTAAATTAGAGTTTAGTGGTTTTAA
*
45971156 AAAAAATAAT
1 AAAAATTAAT
45971166 ATTGTGTTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
32 16 0.23
33 3 0.04
34 50 0.72
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.44
Consensus pattern (34 bp):
AAAAATTAATTAAATTAGAGTTTAGTGGTTTTAA
Found at i:45971180 original size:68 final size:68
Alignment explanation
Indices: 45971056--45971187 Score: 151
Period size: 68 Copynumber: 1.9 Consensus size: 68
45971046 TTCTTTTTTT
* * *
45971056 AAAAATTAATTAAATTAGAGTTTAAGGGTTTTAAAAAAATTAATTAATTTTGGGTTTAGTGTTTT
1 AAAAATTAATTAAATTAGAGTTTAAGGGTTTTAAAAAAAATAATTAATTTTAGGTTTAGGGTTTT
45971121 TAA
66 TAA
* * ** **
45971124 AAAAATTAATTAAATTTGGGTTT-A-TTTTTTAAAAAAAATAATATTGTGTTTAGGTTTAGGGTT
1 AAAAATTAATTAAATTAGAGTTTAAGGGTTTTAAAAAAAATAAT-TAAT-TTTAGGTTTAGGGTT
45971187 T
64 T
45971188 AGGGAAAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
66 15 0.28
67 3 0.06
68 35 0.66
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (68 bp):
AAAAATTAATTAAATTAGAGTTTAAGGGTTTTAAAAAAAATAATTAATTTTAGGTTTAGGGTTTT
TAA
Found at i:45971405 original size:125 final size:126
Alignment explanation
Indices: 45971222--45971549 Score: 498
Period size: 125 Copynumber: 2.6 Consensus size: 126
45971212 GATTTTAGTT
* *
45971222 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * * *
45971287 ATGCTTCAAGTAGAATGCACT-ATTAGCAAAAATGATGAAAAAAGCTCCCACGTGGACACTC
66 ATGCTTCAAGCAGAATGCACTGA-CAGCAAAAATGAAGAAAAAAGCTCCCACATGGACACTC
*
45971348 TTTTTCTACAGTAGTTCCTG-AAAAATAATTTTGTGAAGACGTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * * *
45971412 ATGCTTCAAGCAGGATGCATTGACAGCAAAATTGAAGAAAAAAGCTCCCACATGGACGCTC
66 ATGCTTCAAGCAGAATGCACTGACAGCAAAAATGAAGAAAAAAGCTCCCACATGGACACTC
* * *
45971473 TTTTTCTACAGTAGTTCATGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
*
45971538 ACGCTTCAAGCA
66 ATGCTTCAAGCA
45971550 TGATGGGACA
Statistics
Matches: 184, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
125 111 0.60
126 73 0.40
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
ATGCTTCAAGCAGAATGCACTGACAGCAAAAATGAAGAAAAAAGCTCCCACATGGACACTC
Found at i:45972759 original size:21 final size:21
Alignment explanation
Indices: 45972735--45972778 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
45972725 GTTCAGCTTT
*
45972735 CGGTGGGGGTTGGGGTTGCTC
1 CGGTGAGGGTTGGGGTTGCTC
*
45972756 CGGTGAGGGTTGTGGTTGCTC
1 CGGTGAGGGTTGGGGTTGCTC
45972777 CG
1 CG
45972779 ATTGTGGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.16, G:0.52, T:0.30
Consensus pattern (21 bp):
CGGTGAGGGTTGGGGTTGCTC
Found at i:45973051 original size:18 final size:18
Alignment explanation
Indices: 45973030--45973065 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45973020 AAAAGGAAAT
* *
45973030 ATATAAGGGTTAGGATAC
1 ATATAAAGGCTAGGATAC
45973048 ATATAAAGGCTAGGATAC
1 ATATAAAGGCTAGGATAC
45973066 GCACCTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (18 bp):
ATATAAAGGCTAGGATAC
Found at i:45975491 original size:6 final size:6
Alignment explanation
Indices: 45975480--45975508 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
45975470 GACTATTAAG
45975480 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
45975509 TGAAGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:45996058 original size:22 final size:23
Alignment explanation
Indices: 45996032--45996074 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
45996022 ATTTTTAGAA
45996032 TTAAAAGTATAAAAAT-TAAATT
1 TTAAAAGTATAAAAATATAAATT
*
45996054 TTAAATGTATAAAAATATAAA
1 TTAAAAGTATAAAAATATAAA
45996075 GACTGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (23 bp):
TTAAAAGTATAAAAATATAAATT
Found at i:45997894 original size:41 final size:41
Alignment explanation
Indices: 45997813--45997895 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
45997803 TTTAATTAAA
45997813 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
1 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
45997854 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
1 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
45997895 T
1 T
45997896 GTTTATGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (41 bp):
TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
Found at i:46001066 original size:143 final size:144
Alignment explanation
Indices: 46000809--46001086 Score: 371
Period size: 143 Copynumber: 1.9 Consensus size: 144
46000799 CACAAACAGG
* * * *
46000809 AAAATTTTCAAAACAGGGTCACACGATCGTATGCATAGGCCGTTTTACAAAGAGTGATCGTGTGA
1 AAAATTTTCAAAACAGGGTCACACGATCATATGCATAAGCCGTGTTACAAAGAGTGATAGTGTGA
* * *
46000874 AACTGGAGCCACACAGTTGTGCGTCCAGGCTGAGTAACTCACTGAAGCCGTGTGGACCTAAATGC
66 AACTGGAGCCACACAGTTGTGCGTCCAGGCTGAGTAACTCACTAAAGCCGTGTGAACCTAAATGA
46000939 AAAAATTAAATTGA
131 AAAAATTAAATTGA
* * * * * *
46000953 AAAATTTTC-AAATAGGGTCACACGGTCATGTGCATAAGTCGTGTTAGAAAG-GATGATAGTTTG
1 AAAATTTTCAAAACAGGGTCACACGATCATATGCATAAGCCGTGTTACAAAGAG-TGATAGTGTG
* * * * *
46001016 AAACTGGAGCCACACGGTTGTGTGTCTAGGCTGTGTAACTTACTAAAGCCGTGTGAACCTAAATG
65 AAACTGGAGCCACACAGTTGTGCGTCCAGGCTGAGTAACTCACTAAAGCCGTGTGAACCTAAATG
46001081 AAAAAA
130 AAAAAA
46001087 CTTACAAACA
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
142 1 0.01
143 105 0.91
144 9 0.08
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (144 bp):
AAAATTTTCAAAACAGGGTCACACGATCATATGCATAAGCCGTGTTACAAAGAGTGATAGTGTGA
AACTGGAGCCACACAGTTGTGCGTCCAGGCTGAGTAACTCACTAAAGCCGTGTGAACCTAAATGA
AAAAATTAAATTGA
Found at i:46006579 original size:27 final size:26
Alignment explanation
Indices: 46006539--46006589 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
46006529 TTATTTTATC
*
46006539 AAAATAAATTTAAAAATCAAAAAACAA
1 AAAATAAATATAAAAA-CAAAAAACAA
*
46006566 AAAATTAATATAAAAACAAAAAAC
1 AAAATAAATATAAAAACAAAAAAC
46006590 TATCCTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (26 bp):
AAAATAAATATAAAAACAAAAAACAA
Found at i:46020430 original size:29 final size:29
Alignment explanation
Indices: 46020398--46020477 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
46020388 TTAACCACGG
46020398 ATTATGAACAAAATTGAAGGAATCAACGA
1 ATTATGAACAAAATTGAAGGAATCAACGA
* *
46020427 ATTATGAA-AGGAA-TGAAAGGAATCAACGG
1 ATTATGAACA-AAATTG-AAGGAATCAACGA
*
46020456 ATTATGAACAACATTGAAGGAA
1 ATTATGAACAAAATTGAAGGAA
46020478 AATGAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.20
Consensus pattern (29 bp):
ATTATGAACAAAATTGAAGGAATCAACGA
Found at i:46027513 original size:88 final size:88
Alignment explanation
Indices: 46027364--46027540 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
46027354 GAAAACAACT
46027364 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTGCTCATATTTTATCTCATTAATCTCTGTG
1 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTGCTCATATTTTATCTCATTAATCTCTGTG
46027429 AGATAATATTCATTCTCCCAATA
66 AGATAATATTCATTCTCCCAATA
46027452 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTGCTCATATTTTATCTCATTAATCTCTGTG
1 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTGCTCATATTTTATCTCATTAATCTCTGTG
46027517 AGATAATATTCATTCTCCCAATA
66 AGATAATATTCATTCTCCCAATA
46027540 T
1 T
46027541 TATCCTATTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (88 bp):
TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTGCTCATATTTTATCTCATTAATCTCTGTG
AGATAATATTCATTCTCCCAATA
Found at i:46029691 original size:24 final size:22
Alignment explanation
Indices: 46029644--46029691 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
46029634 ATCATGGTGG
46029644 AATTGCACTTAAGGCTTGGGTA
1 AATTGCACTTAAGGCTTGGGTA
* *
46029666 AATTGCATGTTAAGGACTTGGTTA
1 AATTGCA-CTTAAGG-CTTGGGTA
46029690 AA
1 AA
46029692 CACTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 9 0.41
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (22 bp):
AATTGCACTTAAGGCTTGGGTA
Found at i:46030445 original size:31 final size:31
Alignment explanation
Indices: 46030407--46030474 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
46030397 AAGACTCAAT
46030407 CAACTTCTTTTATTAAAATTTTAAATTTAAA
1 CAACTTCTTTTATTAAAATTTTAAATTTAAA
46030438 CAACTTCTTTTATTAAAATTTTAAATTTAAA
1 CAACTTCTTTTATTAAAATTTTAAATTTAAA
46030469 CAACTT
1 CAACTT
46030475 AGCATATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (31 bp):
CAACTTCTTTTATTAAAATTTTAAATTTAAA
Found at i:46030878 original size:20 final size:21
Alignment explanation
Indices: 46030841--46030879 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
46030831 TGAAATAATA
*
46030841 TAATTTCTCATTTAATATATT
1 TAATTTCTCATATAATATATT
*
46030862 TAATTT-TCATATGATATA
1 TAATTTCTCATATAATATA
46030880 AATTATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (21 bp):
TAATTTCTCATATAATATATT
Found at i:46045773 original size:3 final size:3
Alignment explanation
Indices: 46045748--46045806 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
46045738 TTTTTCAAGT
* * *
46045748 TTA TT- TTA TTA ATA TTG TTA TTA TTA -TA TTA TTA TCA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46045793 TTA TATA TTA TTA T
1 TTA T-TA TTA TTA T
46045807 ACCTGCATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 6 0.13
3 37 0.80
4 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:46045780 original size:17 final size:17
Alignment explanation
Indices: 46045748--46045806 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
46045738 TTTTTCAAGT
46045748 TTATT-TTATTA-A-TA
1 TTATTATTATTATATTA
*
46045762 TTGTTATTATTATATTA
1 TTATTATTATTATATTA
*
46045779 TTATCATTATTATATTA
1 TTATTATTATTATATTA
46045796 TATATTATTAT
1 T-TATTATTAT
46045807 ACCTGCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.11
15 6 0.16
16 1 0.03
17 18 0.49
18 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATTATTATTATATTA
Found at i:46045959 original size:36 final size:35
Alignment explanation
Indices: 46045876--46045960 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 35
46045866 TTTAAATACA
46045876 TATACATATTT-TATTATTATATTATTATTTTATTT
1 TATA-ATATTTATATTATTATATTATTATTTTATTT
* *
46045911 TCATAGTTTTTATATATATGTATA-TA-TATTTATATTT
1 T-ATAATATTTATAT-TAT-TATATTATTATTT-TATTT
46045948 TATAATATTTATA
1 TATAATATTTATA
46045961 CATTTTCCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
35 5 0.12
36 21 0.51
37 11 0.27
38 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (35 bp):
TATAATATTTATATTATTATATTATTATTTTATTT
Found at i:46056028 original size:25 final size:25
Alignment explanation
Indices: 46055988--46056039 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
46055978 TACTTTTCTT
*
46055988 AAAAAAAATGAAAGAAGAAGAAGAAG
1 AAAAAAAATGAAAGAAAAAGAA-AAG
*
46056014 AAAAAAAA-GAGAGAAAAAGAAAAG
1 AAAAAAAATGAAAGAAAAAGAAAAG
46056038 AA
1 AA
46056040 GAGGCCAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 11 0.46
26 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (25 bp):
AAAAAAAATGAAAGAAAAAGAAAAG
Found at i:46056041 original size:18 final size:19
Alignment explanation
Indices: 46055998--46056042 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
46055988 AAAAAAAATG
*
46055998 AAAGAAGA-AGAAGAAGAA
1 AAAGAAGAGAGAAAAAGAA
*
46056016 AAAAAAGAGAGAAAAAG-A
1 AAAGAAGAGAGAAAAAGAA
46056034 AAAGAAGAG
1 AAAGAAGAG
46056043 GCCAAGGCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAGAGAGAAAAAGAA
Found at i:46057315 original size:88 final size:88
Alignment explanation
Indices: 46057200--46057385 Score: 264
Period size: 88 Copynumber: 2.1 Consensus size: 88
46057190 GGTGAAACTT
* * * ** *
46057200 CAGCCTTATCTCCCTGAGCAGCCGTGGAGTAGGTTGAAACTAGTAGATCTTGTCTTCCTGTATTG
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTG
* *
46057265 GCAGCGAAGTAGATCGAAGATAC
66 GCAGCGAAGCAGATCGAAGACAC
* *
46057288 CAGCCTTGTCTCCCTGCGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTG
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTG
*
46057353 GCAGCGAAGCAGATCGAGGACAC
66 GCAGCGAAGCAGATCGAAGACAC
*
46057376 CAGTCTTATC
1 CAGCCTTATC
46057386 GCCTTGACGT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (88 bp):
CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTG
GCAGCGAAGCAGATCGAAGACAC
Found at i:46057628 original size:50 final size:50
Alignment explanation
Indices: 46057566--46057831 Score: 201
Period size: 50 Copynumber: 5.3 Consensus size: 50
46057556 TTGGCATTAC
* * *
46057566 AGTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGTGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
* * * ** * * ** *
46057616 AGTGGAACAGATTGAAACCACGACGGCGGATCTTGTTTCCCCGACATTGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
* ** * * * *
46057666 AATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCTTGGCGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
* * ** * * ** *
46057716 AGTGGAACAGATTGAAGCCACGACGGCGGATCTTGTTTTCC-GACATTGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
* * * * * *
46057765 AATTGAAAAGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
*
46057815 AGTGGAACATATTGAAG
1 AGTGGAACAGATTGAAG
46057832 ATACGATGGC
Statistics
Matches: 152, Mismatches: 63, Indels: 2
0.70 0.29 0.01
Matches are distributed among these distances:
49 36 0.24
50 116 0.76
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (50 bp):
AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGT
Found at i:46057805 original size:49 final size:49
Alignment explanation
Indices: 46057656--46057805 Score: 140
Period size: 49 Copynumber: 3.0 Consensus size: 49
46057646 TCTTGTTTCC
* *
46057656 CCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TT
1 CCGACATTGCAATTGAAAAGATTGAAGCCACAATGGCGAATCTTACTTT
* ** * * * * * * * **
46057704 CCTTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGCGGATCTTGTTTT
1 CC--GACATTGCAATTGAAAAGATTGAAGCCACAATGGCGAATCTTACTTT
*
46057755 CCGACATTGCAATTGAAAAGATTGAAGCCACAATGACGAATCTTACTTT
1 CCGACATTGCAATTGAAAAGATTGAAGCCACAATGGCGAATCTTACTTT
46057804 CC
1 CC
46057806 TGGCGGTGTA
Statistics
Matches: 72, Mismatches: 27, Indels: 5
0.69 0.26 0.05
Matches are distributed among these distances:
48 2 0.03
49 36 0.50
50 30 0.42
51 4 0.06
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (49 bp):
CCGACATTGCAATTGAAAAGATTGAAGCCACAATGGCGAATCTTACTTT
Found at i:46057810 original size:99 final size:99
Alignment explanation
Indices: 46057574--46057870 Score: 425
Period size: 99 Copynumber: 3.0 Consensus size: 99
46057564 ACAGTGGAAT
* * * * *
46057574 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAACCACGA
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
46057639 CGGCGGATCTTGTTTCCCCGACATTGCAATTAAAA
66 CGGCGGATCTTGTTT-CCCGACATTGCAATTAAAA
*
46057674 AGATTGAAGCTACAATGGCGAATCTTAC-TTCCTTGGCGGTGTAGTGGAACAGATTGAAGCCACG
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCC-TGGCGGTGTAGTGGAACAGATTGAAGCCACG
* *
46057738 ACGGCGGATCTTGTTTTCCGACATTGCAATTGAAA
65 ACGGCGGATCTTGTTTCCCGACATTGCAATTAAAA
* * **
46057773 AGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCGGTGTAGTGGAACATATTGAAGATACGA
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
* * * *
46057838 TGGCGAATCTTGTTTCCCGACATCGCAGTTAAA
66 CGGCGGATCTTGTTTCCCGACATTGCAATTAAA
46057871 CAAGTTAAAG
Statistics
Matches: 176, Mismatches: 19, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
99 102 0.58
100 74 0.42
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (99 bp):
AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
CGGCGGATCTTGTTTCCCGACATTGCAATTAAAA
Found at i:46059344 original size:3 final size:3
Alignment explanation
Indices: 46059338--46059381 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
46059328 TAATAATAAG
* *
46059338 ATT ATT ATT ATT ATC ATT ATC ATT ATT A-T ATT ATAT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT AT
46059382 ACCTACATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:46059362 original size:15 final size:14
Alignment explanation
Indices: 46059338--46059382 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
46059328 TAATAATAAG
46059338 ATTATTATTATTAT
1 ATTATTATTATTAT
*
46059352 CATTATCATTATTAT
1 -ATTATTATTATTAT
46059367 ATTATATATTATTAT
1 ATTAT-TATTATTAT
46059382 A
1 A
46059383 CCTACATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATTATTATTAT
Found at i:46065371 original size:46 final size:38
Alignment explanation
Indices: 46065348--46065496 Score: 167
Period size: 37 Copynumber: 3.8 Consensus size: 38
46065338 AGCTGAAGCT
*
46065348 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
**
46065386 -CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA-
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
**
46065422 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
46065460 CTAAAACTACCACTTATCACTTTGTCACTTGATCAGA
1 --------ACCACTTATCACTTTGTCACTTGATCAGA
46065497 AGTACTCAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
37 69 0.72
46 27 0.28
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (38 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:46065390 original size:37 final size:37
Alignment explanation
Indices: 46065349--46065460 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
46065339 GCTGAAGCTA
* **
46065349 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
*
46065386 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
46065423 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
46065460 C
1 C
46065461 TAAAACTACC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
Found at i:46067134 original size:25 final size:25
Alignment explanation
Indices: 46067106--46067156 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
46067096 GGAGTACTAA
*
46067106 GTCTGGAACCAAGCTCAGATCTTTT
1 GTCTGGAACCAAGATCAGATCTTTT
46067131 GTCTGGAACCAAGATCAGATCTTTT
1 GTCTGGAACCAAGATCAGATCTTTT
46067156 G
1 G
46067157 CATCGATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
GTCTGGAACCAAGATCAGATCTTTT
Found at i:46070117 original size:18 final size:18
Alignment explanation
Indices: 46070094--46070130 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46070084 AAATATGTAG
46070094 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
46070112 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
46070130 A
1 A
46070131 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:46071674 original size:44 final size:44
Alignment explanation
Indices: 46071615--46072109 Score: 212
Period size: 44 Copynumber: 11.4 Consensus size: 44
46071605 CACTCTACTA
* *
46071615 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTG
* * * * *
46071659 CAACCTCAGGGAGATAGGAT-TATCGACTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCCGCTCCACTG
* * * * * * * *
46071703 CAACCTCAAGGAGATAAGATTTGCTT-CTTCAGTCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCCGCTCCACTG
** * * * * **
46071747 TGACTTCAGGGGGATAA-AACT-TGT-TTTCTCAGTCTACTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTT-T-AATCCGCTCCACTG
* * * * * * *
46071791 CAACCTCAGGGAGATGAGACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCCGCTCCACTG
** *
46071832 CAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTG
* * *
46071876 CAACTTCAGGGAGATAGGAT-TATCGACTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCCGCTCCACTG
* * * * ** * *
46071920 TAACTTCAGGGAGATAAGATTTGTAATCTTCGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCCGCTCCACTG
* * * * ** * *
46071965 CAACTTCAGGG-GTATAAGACCTGCTTAC-TCAGTGTGCTTCGCTG
1 CAACTTCAGGGAG-ATAAGATCT-ATTACTTTAATCCGCTCCACTG
* * * ** *
46072009 CAACTTCAGGGAGATAAGACCTGA-TGC---GATCCATTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCCGCTCCACTG
* * * * *
46072050 CAACTTTAGAGAGATAAGAACTATTACTTTAATCCACTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTG
46072094 CAACTTCAGGGAGATA
1 CAACTTCAGGGAGATA
46072110 GGCTTATCGG
Statistics
Matches: 337, Mismatches: 90, Indels: 48
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.01
41 56 0.17
42 3 0.01
43 10 0.03
44 222 0.66
45 41 0.12
46 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTG
Found at i:46072081 original size:218 final size:217
Alignment explanation
Indices: 46071589--46072131 Score: 802
Period size: 218 Copynumber: 2.5 Consensus size: 217
46071579 TCTAGTCGGC
* *
46071589 AAGACTTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
*
46071654 CACTACAACCTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAAGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAAGGAGATA
** * * *
46071719 AGATTTGCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAAACTTGTTTTCTCAGTCTAC
131 AGATTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACCTGCTTACTCAGTCTAC
46071784 TCCACTGCAACCTCAGGGAGAT
196 TCCACTGCAACCTCAGGGAGAT
* *
46071806 GAGACCTGATGCGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
* * * *
46071871 CACTACAACTTCAGGGAGATAGGATTATCGACTTTAATCTGCTCCACTGTAACTTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAAGGAGATA
* * *
46071936 AGATTTG-TAATCTTC-GATCTGCCCCACTGCAACTTCAGGGGTATAAGACCTGCTTACTCAGTG
131 AGATTTGCT--TCTTCAG-TCTGCCCCACTGCAACTTCAGGGGGATAAAACCTGCTTACTCAGTC
* * * *
46071999 TGCTTCGCTGCAACTTCAGGGAGAT
193 TACTCCACTGCAACCTCAGGGAGAT
* * * *
46072024 AAGACCTGATGCGATCCATTCTACTGCAACTTTAGAGAGATAAGAACTATTACTTTAATCCACTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
* *
46072089 CACTACAACTTCAGGGAGATAGGCTTATCGGCTTCAATCTGCT
66 CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCT
46072132 TCCTTACACT
Statistics
Matches: 293, Mismatches: 30, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
216 1 0.00
217 129 0.44
218 163 0.56
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (217 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAAGGAGATA
AGATTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACCTGCTTACTCAGTCTAC
TCCACTGCAACCTCAGGGAGAT
Found at i:46072261 original size:128 final size:128
Alignment explanation
Indices: 46072100--46072747 Score: 996
Period size: 128 Copynumber: 5.0 Consensus size: 128
46072090 ACTACAACTT
* * * * *
46072100 CAGGGAGATAGG-CTTATCGGCTTCAATCTGCTTCCTTACACTTGAAGATAAGATGCGCCATCTT
1 CAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
* *
46072164 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTATTCCACTGCTGAC
65 TGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
* * *
46072228 CAGGGACATAGGACTTGTGGATTAAATCTGCTTCCTTACACTTGAAGATAAAATTCACCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
* * *
46072293 GATCTGCTCTGCTACTGCTTAAGGAGACAAGATCTGTAATTTCTCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTC-CAACCTATTCCACTGCTGAC
* * *
46072357 CAGAGACATAGGACTTGTGGTTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCG-CTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
*
46072421 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGAC
66 -GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
* * *
46072485 CAGGGACATACGACTTGTGGCTTAAATCTACTTCCTTACACTCGAAGATAAGATTCGCCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
* *
46072550 GATCTGCTCCGTTACTGCTTAGGGAGACAAGAT-TGGTAATTTCCAACCTATTCCACTGCTGAA
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCT-GTAATTTCCAACCTATTCCACTGCTGAC
*
46072613 CAGGGACATAGGACTTGTGGCTTAAATTTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
* * *
46072678 GATCTACTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTACTCCAATGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGAC
46072742 CAGGGA
1 CAGGGA
46072748 GCTAGGTTTT
Statistics
Matches: 475, Mismatches: 38, Indels: 13
0.90 0.07 0.02
Matches are distributed among these distances:
127 1 0.00
128 325 0.68
129 149 0.31
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (128 bp):
CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
Found at i:46072430 original size:257 final size:256
Alignment explanation
Indices: 46072118--46072747 Score: 987
Period size: 257 Copynumber: 2.5 Consensus size: 256
46072108 TAGGCTTATC
* * *
46072118 GGCTTCAATCTGCTTCCTTACACTTGAAGATAAGATGCGCC-ATCTTCGATCTGCTCCGCTACTG
1 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCT-TTCGATCTGCTCCGCTACTG
* *
46072182 CTTAGGGAGACAAGATCTGTAATTTTCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTG
65 CTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTG
* * *
46072247 GATTAAATCTGCTTCCTTACACTTGAAGATAAAATTCACCGTCTTTGATCTGCTCTGCTACTGCT
130 GATTAAATCTACTTCCTTACACTCGAAGATAAAATTCACCGTCTTTGATCTGCTCCGCTACTGCT
*
46072312 TAAGGAGACAAGATCT-GTAATTTCTCAACCTACTCCACTGCTGACCAGAGACATAGGACTTGT
195 TAAGGAGACAAGAT-TGGTAATTTC-CAACCTACTCCACTGCTGAACAGAGACATAGGACTTGT
* *
46072375 GGTTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGCTTTCGATCTGCTCCGCTACTGC
1 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTTTCGATCTGCTCCGCTACTGC
*
46072440 TTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTGG
66 TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTGG
* * * *
46072505 CTTAAATCTACTTCCTTACACTCGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGTTACTGCTT
131 ATTAAATCTACTTCCTTACACTCGAAGATAAAATTCACCGTCTTTGATCTGCTCCGCTACTGCTT
* * *
46072570 AGGGAGACAAGATTGGTAATTTCCAACCTATTCCACTGCTGAACAGGGACATAGGACTTGT
196 AAGGAGACAAGATTGGTAATTTCCAACCTACTCCACTGCTGAACAGAGACATAGGACTTGT
* *
46072631 GGCTTAAATTTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT-GATCTACTCCGCTACTG
1 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCG-CTTTCGATCTGCTCCGCTACTG
* *
46072695 CTTAGGGAGACAAGATCTGTAATTTCCCAACCTACTCCAATGCTGACCAGGGA
65 CTTAGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGA
46072748 GCTAGGTTTT
Statistics
Matches: 343, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
256 115 0.34
257 227 0.66
258 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (256 bp):
GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTTTCGATCTGCTCCGCTACTGC
TTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTGG
ATTAAATCTACTTCCTTACACTCGAAGATAAAATTCACCGTCTTTGATCTGCTCCGCTACTGCTT
AAGGAGACAAGATTGGTAATTTCCAACCTACTCCACTGCTGAACAGAGACATAGGACTTGT
Found at i:46074138 original size:7 final size:7
Alignment explanation
Indices: 46074126--46074190 Score: 94
Period size: 7 Copynumber: 8.7 Consensus size: 7
46074116 TCTCCATTTT
46074126 TTTTTCA
1 TTTTTCA
46074133 TTTTTCA
1 TTTTTCA
46074140 TTTTTCA
1 TTTTTCA
46074147 TTTTTTCA
1 -TTTTTCA
46074155 TTTTTCA
1 TTTTTCA
46074162 TTTTTCA
1 TTTTTCA
46074169 TTTTTTTCA
1 --TTTTTCA
46074178 TTTTTCA
1 TTTTTCA
46074185 TATTTT
1 T-TTTT
46074191 TTCTGACTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
7 36 0.67
8 11 0.20
9 7 0.13
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:46074151 original size:15 final size:15
Alignment explanation
Indices: 46074125--46074191 Score: 93
Period size: 16 Copynumber: 4.4 Consensus size: 15
46074115 CTCTCCATTT
46074125 TTTTTTCATTTTTCA
1 TTTTTTCATTTTTCA
46074140 -TTTTTCATTTTTTCA
1 TTTTTTCA-TTTTTCA
46074155 -TTTTTCATTTTTCA
1 TTTTTTCATTTTTCA
46074169 TTTTTTTCATTTTTCA
1 -TTTTTTCATTTTTCA
46074185 TATTTTT
1 T-TTTTT
46074192 TCTGACTCAG
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 14 0.29
15 15 0.31
16 19 0.40
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:46074153 original size:22 final size:23
Alignment explanation
Indices: 46074124--46074190 Score: 118
Period size: 22 Copynumber: 2.9 Consensus size: 23
46074114 CCTCTCCATT
46074124 TTTTTTTCATTTTTCATTTTTCA
1 TTTTTTTCATTTTTCATTTTTCA
46074147 -TTTTTTCATTTTTCATTTTTCA
1 TTTTTTTCATTTTTCATTTTTCA
46074169 TTTTTTTCATTTTTCATATTTT
1 TTTTTTTCATTTTTCAT-TTTT
46074191 TTCTGACTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.52
23 16 0.38
24 4 0.10
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTCATTTTTCATTTTTCA
Found at i:46078232 original size:46 final size:45
Alignment explanation
Indices: 46078126--46078249 Score: 189
Period size: 46 Copynumber: 2.8 Consensus size: 45
46078116 CATATGACCT
* * *
46078126 CTTATCAC-TTGTC-CTTGATTAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
46078169 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
46078215 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
46078250 CACTTATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 8 0.11
44 3 0.04
45 20 0.27
46 42 0.58
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:46078291 original size:37 final size:37
Alignment explanation
Indices: 46078213--46078291 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
46078203 CTGAAGCTAC
* *
46078213 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTATCACTTGATCAGATAAGCGTAGA
* ** *
46078250 CACTTATCACTTTGTTTCTTGATCAGATACGCGTCA-A
1 CACTTATCACTTTATCACTTGATCAGATAAGCGT-AGA
46078287 CACTT
1 CACTT
46078292 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTATCACTTGATCAGATAAGCGTAGA
Found at i:46078907 original size:2 final size:2
Alignment explanation
Indices: 46078857--46078894 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46078847 AAGATAATAG
46078857 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46078895 CATGTACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46079692 original size:15 final size:14
Alignment explanation
Indices: 46079658--46079694 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
46079648 TAATTTAACT
46079658 AAATATTCAAAATC
1 AAATATTCAAAATC
46079672 ATAATATATCAAAATC
1 A-AATAT-TCAAAATC
46079688 AAATATT
1 AAATATT
46079695 ATTCAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.10
15 10 0.48
16 9 0.43
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATATTCAAAATC
Found at i:46081482 original size:18 final size:18
Alignment explanation
Indices: 46081459--46081495 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46081449 AAATATGTAG
46081459 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
46081477 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
46081495 A
1 A
46081496 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:46090537 original size:16 final size:16
Alignment explanation
Indices: 46090516--46090552 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
46090506 ATTCTTAGAA
*
46090516 ATGAAAGAGTGCGCCT
1 ATGAAAGAGTGAGCCT
46090532 ATGAAAGAGTGAGCCT
1 ATGAAAGAGTGAGCCT
46090548 ATGAA
1 ATGAA
46090553 GGGATACGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.19
Consensus pattern (16 bp):
ATGAAAGAGTGAGCCT
Found at i:46095358 original size:91 final size:90
Alignment explanation
Indices: 46095190--46095378 Score: 254
Period size: 91 Copynumber: 2.1 Consensus size: 90
46095180 CAACAGCTTC
* * * *
46095190 CGAGAAATCTTGTCGATAAGAAGTTCAAAAAAAGAAGTCTAGAGAAATGTTGAGAAAACTAGCAA
1 CGAGAAATCTTGCCGATAAGAAGTTCAAAAAAAGAAGTCTAAAGAAATGTCGAGAAAACTAACAA
*
46095255 TTGAATAGCAACAATCAAAAATTGT
66 TTGAATAGCAACAACCAAAAATTGT
* *
46095280 CGAGAAATCTTGCCGATAAGAAGTTCAAAAAAAATAAGTTTAAAGAAATGTCGAGAAAAAC-AAC
1 CGAGAAATCTTGCCGATAAGAAGTTC-AAAAAAAGAAGTCTAAAGAAATGTCGAG-AAAACTAAC
* * *
46095344 AATTGAATATCAACAACCAACAGTTGT
64 AATTGAATAGCAACAACCAAAAATTGT
*
46095371 AGAGAAAT
1 CGAGAAAT
46095379 TTTTAATTAG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
90 25 0.29
91 56 0.65
92 5 0.06
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (90 bp):
CGAGAAATCTTGCCGATAAGAAGTTCAAAAAAAGAAGTCTAAAGAAATGTCGAGAAAACTAACAA
TTGAATAGCAACAACCAAAAATTGT
Found at i:46100673 original size:49 final size:49
Alignment explanation
Indices: 46100619--46100716 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
46100609 TTTGGAAAAC
* **
46100619 AATTCTCAAGAAGAAAACACTCATATATAATATGCATTTGCTT-TGTGTA
1 AATTCTCAAAAAGAAAACACTCATATATAATACACATTTG-TTATGTGTA
46100668 AATTCTCAAAAAGAAAACACTCATATATAATACACATTTGTTATGTGTA
1 AATTCTCAAAAAGAAAACACTCATATATAATACACATTTGTTATGTGTA
46100717 TTTATAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 2 0.04
49 43 0.96
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (49 bp):
AATTCTCAAAAAGAAAACACTCATATATAATACACATTTGTTATGTGTA
Found at i:46104125 original size:125 final size:125
Alignment explanation
Indices: 46103827--46104235 Score: 624
Period size: 125 Copynumber: 3.3 Consensus size: 125
46103817 ATTTATTAAG
* * * *
46103827 GAAATCGCTCCCACGA-GGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGA
1 GAAATCGCTCCCAC-ATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGA
* * *
46103891 TGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGAATGCTTTATCAGAAGAATTTCT
65 CGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
** *
46103952 GAAATCGCTCTTACGTGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
46104017 GTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
*
46104076 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
* * * * **
46104141 GTTTCTGAACAAATAGTATAAAAAATGCTTCAAGCAGGATGTTTTATTGAAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
* *
46104201 GAAATCGCTCCCACGTGAACGCGCTTTTGCTACAG
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAG
46104236 TAGAATGTTT
Statistics
Matches: 260, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
124 117 0.45
125 143 0.55
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
Found at i:46106843 original size:14 final size:14
Alignment explanation
Indices: 46106824--46106859 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
46106814 TATCGTGTAC
46106824 ACTTGCGAAATAAG
1 ACTTGCGAAATAAG
* *
46106838 ACTTGCAAAATAGG
1 ACTTGCGAAATAAG
46106852 ACTTGCGA
1 ACTTGCGA
46106860 CTATGGGATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (14 bp):
ACTTGCGAAATAAG
Found at i:46107481 original size:49 final size:49
Alignment explanation
Indices: 46107337--46107457 Score: 233
Period size: 49 Copynumber: 2.5 Consensus size: 49
46107327 TAAGAATATT
*
46107337 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAATTA
46107386 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAATTA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAATTA
46107435 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
46107458 TAATATAAAC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAATTA
Found at i:46107881 original size:18 final size:18
Alignment explanation
Indices: 46107855--46107897 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
46107845 GACTAGAAAA
* *
46107855 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
46107873 AGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
46107891 AGGATAC
1 AGGATAC
46107898 GCACATGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:46109705 original size:11 final size:11
Alignment explanation
Indices: 46109691--46109788 Score: 73
Period size: 11 Copynumber: 9.3 Consensus size: 11
46109681 GAGAAATTTA
46109691 AGAGGAAATTG
1 AGAGGAAATTG
*
46109702 AGAGCAAATTG
1 AGAGGAAATTG
**
46109713 AGATTAAA-T-
1 AGAGGAAATTG
* *
46109722 A-TGG-ATTTG
1 AGAGGAAATTG
46109731 AGA-GAAATTTG
1 AGAGGAAA-TTG
46109742 -GAAGGAAATTG
1 AG-AGGAAATTG
* *
46109753 AGAGCAATTTG
1 AGAGGAAATTG
46109764 AGAGGAAATTG
1 AGAGGAAATTG
46109775 AGAGGAAATTG
1 AGAGGAAATTG
46109786 AGA
1 AGA
46109789 AAATAATTGA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 53 0.80
12 5 0.08
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:46109753 original size:22 final size:22
Alignment explanation
Indices: 46109728--46109788 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
46109718 AAATATGGAT
46109728 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
46109750 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
46109772 TTGAGAGGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
46109789 AAATAATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:46109763 original size:33 final size:33
Alignment explanation
Indices: 46109726--46109788 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
46109716 TTAAATATGG
46109726 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAG-AGGAAATTGAGAGCA
46109759 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
46109789 AAATAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAGGAAATTGAGAGCA
Found at i:46109796 original size:23 final size:22
Alignment explanation
Indices: 46109747--46109800 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
46109737 ATTTGGAAGG
* **
46109747 AAATTGAGAGCAATTTGAGAGG
1 AAATTGAGAGCAAATTGAGAAA
*
46109769 AAATTGAGAGGAAATTGAGAAA
1 AAATTGAGAGCAAATTGAGAAA
46109791 ATAATTGAGA
1 A-AATTGAGA
46109801 AAAGGATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.48, C:0.02, G:0.28, T:0.22
Consensus pattern (22 bp):
AAATTGAGAGCAAATTGAGAAA
Found at i:46110546 original size:30 final size:29
Alignment explanation
Indices: 46110470--46110546 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
46110460 ATAATTATGG
* *
46110470 AAAAAAATTTCTTATATTATAAATCCTAA
1 AAAAAAATTTATTATTTTATAAATCCTAA
* * *
46110499 AAAATAATTTTTGTATTTTATAAAT-TTATA
1 AAAAAAATTTAT-TATTTTATAAATCCTA-A
46110529 AAAAAAATTATATTATTT
1 AAAAAAATT-TATTATTT
46110547 AAATCTTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 12 0.31
30 25 0.64
31 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (29 bp):
AAAAAAATTTATTATTTTATAAATCCTAA
Found at i:46126342 original size:13 final size:13
Alignment explanation
Indices: 46126324--46126353 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46126314 ACATATATTG
46126324 TAATATTTATTAA
1 TAATATTTATTAA
*
46126337 TAATATTTATTCA
1 TAATATTTATTAA
46126350 TAAT
1 TAAT
46126354 CTTAATTCAA
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:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATATTTATTAA
Found at i:46128571 original size:23 final size:24
Alignment explanation
Indices: 46128544--46128596 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
46128534 TCTTTCTAGA
* *
46128544 ATATTTAGTATTTA-TAGTATAAT
1 ATATTTAGCATTTATTAGCATAAT
46128567 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAGCATTTATTAGCATAAT
*
46128591 TTATTT
1 ATATTT
46128597 GACTTACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:46153072 original size:21 final size:21
Alignment explanation
Indices: 46153033--46153072 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46153023 TGTCAATTTT
** *
46153033 AGGTATTGATATCATTTATCG
1 AGGTATTGATAAAAGTTATCG
46153054 AGGTATTGATAAAAGTTAT
1 AGGTATTGATAAAAGTTAT
46153073 AATATATCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (21 bp):
AGGTATTGATAAAAGTTATCG
Found at i:46154234 original size:24 final size:24
Alignment explanation
Indices: 46154203--46154273 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
46154193 AAGAATTTAG
* *
46154203 TCAAGATCATTCATATATTTTCAA
1 TCAAGATCATTCATGTATATTCAA
*
46154227 TCAAGATCATTCATGCATATTCAA
1 TCAAGATCATTCATGTATATTCAA
*
46154251 TCAAAATCATTCATGTATATTCA
1 TCAAGATCATTCATGTATATTCA
46154274 CATAATTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (24 bp):
TCAAGATCATTCATGTATATTCAA
Found at i:46154456 original size:32 final size:30
Alignment explanation
Indices: 46154420--46154483 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
46154410 AAGCAGAGGC
* *
46154420 ACGATTGTGCAATCAGAGGCACCAGAGTGCAA
1 ACGATTGTG--ATCAAAGGCACCAAAGTGCAA
*
46154452 ACGATTGTGATGAAAGGCACCAAAGTGCAA
1 ACGATTGTGATCAAAGGCACCAAAGTGCAA
46154482 AC
1 AC
46154484 CCGTGCAAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 20 0.69
32 9 0.31
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.16
Consensus pattern (30 bp):
ACGATTGTGATCAAAGGCACCAAAGTGCAA
Found at i:46160062 original size:17 final size:17
Alignment explanation
Indices: 46160040--46160176 Score: 76
Period size: 17 Copynumber: 7.5 Consensus size: 17
46160030 AATATTAAAG
46160040 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* **
46160057 AATTATGTAGTGATTCAAAT
1 AATTATGTAATG-TT--TTT
* *
46160077 ACTTATGTAATATTTTT
1 AATTATGTAATGTTTTT
* ***
46160094 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
46160112 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
* * *
46160131 AATTATGTAGTGATTCTA
1 AATTATGTAATG-TTTTT
46160149 AGATTTATGTAATGTTTTT
1 A-A-TTATGTAATGTTTTT
46160168 AATTATGTA
1 AATTATGTA
46160177 GTGATTCAAT
Statistics
Matches: 85, Mismatches: 26, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
17 36 0.42
18 11 0.13
19 11 0.13
20 27 0.32
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:46160084 original size:20 final size:20
Alignment explanation
Indices: 46160059--46160122 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
46160049 ATGTTTTTAA
46160059 TTATGTAGTGATTCAAATAC
1 TTATGTAGTGATTCAAATAC
* ** *
46160079 TTATGTAAT-ATT--TTTAA
1 TTATGTAGTGATTCAAATAC
*
46160096 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAATAC
46160116 TTATGTA
1 TTATGTA
46160123 ATATTTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 10 0.31
18 3 0.09
19 3 0.09
20 16 0.50
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCAAATAC
Found at i:46160093 original size:37 final size:37
Alignment explanation
Indices: 46160036--46160185 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
46160026 GGAGAATATT
* *
46160036 AAAGAATTATGTAATGTTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
*
46160073 AAATACTTATGTAATATTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
46160110 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
* * *
46160147 TAAGATTTATGTAATGTTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
46160184 AA
1 AA
46160186 TTTGGGTAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (37 bp):
AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
Found at i:46160201 original size:9 final size:9
Alignment explanation
Indices: 46160184--46160223 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
46160174 GTAGTGATTC
*
46160184 AATTTGGGT
1 AATTCGGGT
46160193 AATTCGGGT
1 AATTCGGGT
*
46160202 AATTCTGGT
1 AATTCGGGT
46160211 AATTCGGGT
1 AATTCGGGT
46160220 AATT
1 AATT
46160224 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:46166578 original size:9 final size:9
Alignment explanation
Indices: 46166564--46166763 Score: 66
Period size: 10 Copynumber: 20.4 Consensus size: 9
46166554 TTATTACATA
46166564 TTTATAATT
1 TTTATAATT
46166573 TTTATAACTT
1 TTTATAA-TT
*
46166583 TTTAATACTT
1 TTT-ATAATT
*
46166593 TTAATAAGTT
1 TTTATAA-TT
46166603 TTTATAACTTT
1 TTTATAA--TT
46166614 TTTAAAATAAATT
1 TTT---AT-AATT
* *
46166627 TATATATTT
1 TTTATAATT
46166636 TTATATAATT
1 TT-TATAATT
46166646 TCTTAT--TGT
1 T-TTATAAT-T
*
46166655 TTTAT-TTT
1 TTTATAATT
*
46166663 TTTATAAGT
1 TTTATAATT
*
46166672 TCTATAATT
1 TTTATAATT
*
46166681 TTATATTATT
1 TT-TATAATT
*
46166691 TATATAATAGT
1 TTTATAAT--T
* *
46166702 TTGATATCTT
1 TTTATA-ATT
*
46166712 TTTCATAACATA
1 TTT-AT-A-ATT
*
46166724 TTAATAATAT
1 TTTATAAT-T
46166734 TTTATAATT
1 TTTATAATT
46166743 TTTATAATT
1 TTTATAATT
*
46166752 TTT-TAATA
1 TTTATAATT
46166760 TTTA
1 TTTA
46166764 ATAACAATTT
Statistics
Matches: 142, Mismatches: 28, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
8 18 0.13
9 46 0.32
10 47 0.33
11 18 0.13
12 5 0.04
13 4 0.03
14 2 0.01
15 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTATAATT
Found at i:46169460 original size:16 final size:16
Alignment explanation
Indices: 46169435--46169490 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
46169425 TTATTTATAT
*
46169435 TTATTCATATAATAAA
1 TTATTAATATAATAAA
*
46169451 TTATTAATATAATTAA
1 TTATTAATATAATAAA
46169467 TTATT--T-TAATAAA
1 TTATTAATATAATAAA
46169480 TTATTTAATAT
1 TTA-TTAATAT
46169491 TTAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
16 20 0.61
17 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:46176566 original size:14 final size:14
Alignment explanation
Indices: 46176547--46176585 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
46176537 TTAATACTTG
46176547 CAACTTTAACTAAC
1 CAACTTTAACTAAC
*
46176561 CAACTTCAACTAAC
1 CAACTTTAACTAAC
*
46176575 CAACTGTAACT
1 CAACTTTAACT
46176586 GAAAATACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.26
Consensus pattern (14 bp):
CAACTTTAACTAAC
Found at i:46177584 original size:19 final size:20
Alignment explanation
Indices: 46177543--46177588 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
46177533 CTGAATTTTG
*
46177543 TATTTTTTTCATTTTCTCCC
1 TATTTTTTTCATTTTCTACC
* *
46177563 TATTTTTTTTATTTT-TATC
1 TATTTTTTTCATTTTCTACC
46177582 TATTTTT
1 TATTTTT
46177589 GAAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTTTTTCATTTTCTACC
Found at i:46177711 original size:30 final size:30
Alignment explanation
Indices: 46177652--46177714 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
46177642 TTCTCATATG
*
46177652 TTACATTTTTTTTGAAAAATTTCTGTTTTT
1 TTACATTTTTTTTGAAAAATTTCTCTTTTT
* *
46177682 TTACATTTTTTTTG-TAATTTTACTCTTTTT
1 TTACATTTTTTTTGAAAAATTT-CTCTTTTT
46177712 TTA
1 TTA
46177715 TTTTATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.67
Consensus pattern (30 bp):
TTACATTTTTTTTGAAAAATTTCTCTTTTT
Found at i:46183328 original size:20 final size:20
Alignment explanation
Indices: 46183283--46183363 Score: 53
Period size: 20 Copynumber: 4.0 Consensus size: 20
46183273 GCTAGTACAG
* *
46183283 GATTGCACTTCGGTGCCTCT
1 GATTGAACTTCGATGCCTCT
*
46183303 -ATTTGAACTTCGATGTCTCT
1 GA-TTGAACTTCGATGCCTCT
46183323 GATTGAA-TAATCG-TGCCTCT
1 GATTGAACT--TCGATGCCTCT
* *
46183343 -ATCTGTACTTCGATACCTCT
1 GAT-TGAACTTCGATGCCTCT
46183363 G
1 G
46183364 TTACGCATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
19 7 0.15
20 35 0.74
21 5 0.11
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (20 bp):
GATTGAACTTCGATGCCTCT
Found at i:46189040 original size:8 final size:8
Alignment explanation
Indices: 46189018--46189055 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
46189008 AAATTAGCCA
46189018 AATTTTA-
1 AATTTTAT
*
46189025 ACTTTTAT
1 AATTTTAT
46189033 AATTTTAT
1 AATTTTAT
46189041 AATTTTTAT
1 AA-TTTTAT
46189050 AATTTT
1 AATTTT
46189056 TGAATATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 13 0.48
9 8 0.30
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTAT
Found at i:46189049 original size:9 final size:9
Alignment explanation
Indices: 46189027--46189056 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46189017 AAATTTTAAC
46189027 TTTTATAA-
1 TTTTATAAT
46189035 TTTTATAAT
1 TTTTATAAT
46189044 TTTTATAAT
1 TTTTATAAT
46189053 TTTT
1 TTTT
46189057 GAATATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Found at i:46189166 original size:19 final size:19
Alignment explanation
Indices: 46189113--46189166 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
46189103 ATTTAAATTT
*
46189113 TTTCTAA-AATTTTAATAAT
1 TTTCTAATAATTTT-ATAAA
*
46189132 TTTCT-ATAATAATTATAAA
1 TTTCTAATAAT-TTTATAAA
46189151 TTTCTAATAATTTTAT
1 TTTCTAATAATTTTAT
46189167 TATGATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 7 0.24
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTCTAATAATTTTATAAA
Found at i:46191589 original size:16 final size:15
Alignment explanation
Indices: 46191565--46191598 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
46191555 ACAAAATGAT
*
46191565 AAAATATATTTTATAA
1 AAAAAATATTTTA-AA
46191581 AAAAAATATTTTAAA
1 AAAAAATATTTTAAA
46191596 AAA
1 AAA
46191599 TAACAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAAATATTTTAAA
Found at i:46192103 original size:14 final size:14
Alignment explanation
Indices: 46192084--46192110 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46192074 ATAATGAAAT
46192084 AAATATTTAATTTG
1 AAATATTTAATTTG
46192098 AAATATTTAATTT
1 AAATATTTAATTT
46192111 TTAGGGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATATTTAATTTG
Found at i:46192487 original size:6 final size:6
Alignment explanation
Indices: 46192435--46192462 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
46192425 AATAATAAAT
46192435 TTAATA TTAATA TTAATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAA
46192463 ATAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:46193447 original size:2 final size:2
Alignment explanation
Indices: 46193440--46193471 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
46193430 NNNNNNNNNN
46193440 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
46193472 GTTAGATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46195625 original size:21 final size:21
Alignment explanation
Indices: 46195585--46195626 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46195575 TGTTTGATAT
*
46195585 ATTTTAAAAAAGTATTTATTA
1 ATTTTAAAAAAGAATTTATTA
46195606 ATTTTAAAAAA-AATTGTATTA
1 ATTTTAAAAAAGAATT-TATTA
46195627 GCTTTGTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTTTAAAAAAGAATTTATTA
Found at i:46195834 original size:18 final size:19
Alignment explanation
Indices: 46195807--46195843 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46195797 TTTTTAAAAT
46195807 TTATTAAAT-AATTTTAAA
1 TTATTAAATAAATTTTAAA
*
46195825 TTATTTAATAAATTTTAAA
1 TTATTAAATAAATTTTAAA
46195844 AATGTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATTAAATAAATTTTAAA
Found at i:46204758 original size:41 final size:41
Alignment explanation
Indices: 46204701--46204809 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
46204691 GACTATACGT
*
46204701 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
46204742 CTAGCAGGCTAGGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
46204783 CTAGCAGGCCAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
46204810 TTAAATTAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 57 0.92
42 5 0.08
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:46207008 original size:5 final size:5
Alignment explanation
Indices: 46206998--46207040 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
46206988 CCTAAGATGG
* *
46206998 GAATT GAATT GAATT GAATT GAATAT GAATT GTATT AAATT GA
1 GAATT GAATT GAATT GAATT GAAT-T GAATT GAATT GAATT GA
46207041 GCTAAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (5 bp):
GAATT
Found at i:46207026 original size:21 final size:20
Alignment explanation
Indices: 46206998--46207040 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
46206988 CCTAAGATGG
*
46206998 GAATTGAATTGAATTGAATT
1 GAATTGAATTGAATTAAATT
*
46207018 GAATATGAATTGTATTAAATT
1 GAAT-TGAATTGAATTAAATT
46207039 GA
1 GA
46207041 GCTAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (20 bp):
GAATTGAATTGAATTAAATT
Found at i:46207382 original size:24 final size:24
Alignment explanation
Indices: 46207355--46207417 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
46207345 CAGCTCGAAA
46207355 GAGCATCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* *
46207379 GAGCATCCCGATATTTGGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
**
46207404 GAGTTTCCCGTTAT
1 GAGCATCCCGTTAT
46207418 ATGGTTATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:46207461 original size:24 final size:24
Alignment explanation
Indices: 46207354--46207462 Score: 71
Period size: 25 Copynumber: 4.5 Consensus size: 24
46207344 ACAGCTCGAA
46207354 AGAGCATCCCGTTAT-TAGCTCTC
1 AGAGCATCCCGTTATATAGCTCTC
* * *
46207377 ATGAGCATCCCGATATTTGGCTCTC
1 A-GAGCATCCCGTTATATAGCTCTC
** * * *
46207402 ATGAGTTTCCCGTTATATGGTTATTGC
1 A-GAGCATCCCGTTATATAGCT-CT-C
*
46207429 -GAGCCTCCCGTTA-ATAGCTCTTC
1 AGAGCATCCCGTTATATAGCTC-TC
46207452 AGAGCATCCCG
1 AGAGCATCCCG
46207463 ATTGGTTGTG
Statistics
Matches: 66, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
23 2 0.03
24 27 0.41
25 35 0.53
26 1 0.02
27 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (24 bp):
AGAGCATCCCGTTATATAGCTCTC
Found at i:46207637 original size:48 final size:50
Alignment explanation
Indices: 46207562--46207668 Score: 146
Period size: 48 Copynumber: 2.2 Consensus size: 50
46207552 CTCTTTCATA
* * * * *
46207562 AGCTTCCCGATTAATGGCTCTCTGGAGCTTCCTGATA-TTGGCTCGTATG
1 AGCTTCCCGATTAAAGGCTCTCCGGAGCTTCCTGATACATGGATCATATG
*
46207611 AGCTTCCC-ATTAAAGGCTCTCCGGAGCTTCCTGTTACATGGATCATATG
1 AGCTTCCCGATTAAAGGCTCTCCGGAGCTTCCTGATACATGGATCATATG
46207660 AGCTTCCCG
1 AGCTTCCCG
46207669 TTATATGGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
48 25 0.50
49 25 0.50
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (50 bp):
AGCTTCCCGATTAAAGGCTCTCCGGAGCTTCCTGATACATGGATCATATG
Found at i:46213981 original size:24 final size:24
Alignment explanation
Indices: 46213954--46214020 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 24
46213944 CAGCTCAAAA
*
46213954 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* *
46213978 GAGCATCCCGATATTTGGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
* * *
46214003 GAACTTCCCGTTAATAGC
1 GAGCATCCCGTTATTAGC
46214021 CCTTCGGAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 14 0.41
25 20 0.59
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:46214119 original size:25 final size:25
Alignment explanation
Indices: 46214091--46214180 Score: 60
Period size: 25 Copynumber: 3.5 Consensus size: 25
46214081 ATGAGCGTCA
46214091 TGATATATGGCTCTCTGGAGCTTCT
1 TGATATATGGCTCTCTGGAGCTTCT
* * *
46214116 TGATTAGAAGGCTCTTTCATGG-GCTTCC
1 TGA-TATATGGCTC--TC-TGGAGCTTCT
* * *
46214144 TAAT-TATTGCCTCTCTGTAGCTTCT
1 TGATATA-TGGCTCTCTGGAGCTTCT
46214169 TGATAT-TGGCTC
1 TGATATATGGCTC
46214181 GCTTGAACTT
Statistics
Matches: 47, Mismatches: 11, Indels: 15
0.64 0.15 0.21
Matches are distributed among these distances:
24 7 0.15
25 13 0.28
26 10 0.21
27 5 0.11
28 9 0.19
29 3 0.06
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (25 bp):
TGATATATGGCTCTCTGGAGCTTCT
Found at i:46218119 original size:23 final size:23
Alignment explanation
Indices: 46218093--46218139 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46218083 CGTTAAATAG
46218093 CATCCTTAATCCTTGCCAAGAAA
1 CATCCTTAATCCTTGCCAAGAAA
*
46218116 CATCTTTAATCCTTGCCAAGAAA
1 CATCCTTAATCCTTGCCAAGAAA
46218139 C
1 C
46218140 GATAAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.28
Consensus pattern (23 bp):
CATCCTTAATCCTTGCCAAGAAA
Found at i:46218837 original size:35 final size:36
Alignment explanation
Indices: 46218777--46218853 Score: 129
Period size: 35 Copynumber: 2.1 Consensus size: 36
46218767 TTGTGAATAA
*
46218777 TACATATGTTAGTTTTATCTGTATTTGTTATTGTACG
1 TACA-ATGTTAGTTTTATCTATATTTGTTATTGTACG
46218814 TACAATG-TAGTTTTATCTATATTTGTTATTGTACG
1 TACAATGTTAGTTTTATCTATATTTGTTATTGTACG
46218849 TACAA
1 TACAA
46218854 GGTGCCTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 32 0.82
36 3 0.08
37 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (36 bp):
TACAATGTTAGTTTTATCTATATTTGTTATTGTACG
Found at i:46223512 original size:19 final size:21
Alignment explanation
Indices: 46223466--46223506 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
46223456 TTAGTAAGTA
46223466 TGCATGATTGTTTCTCTTTAGT
1 TGCATGATTGTTTCTCTTTA-T
*
46223488 TGCATGATTGTTTTTCTTT
1 TGCATGATTGTTTCTCTTT
46223507 TGCATGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.59
Consensus pattern (21 bp):
TGCATGATTGTTTCTCTTTAT
Found at i:46226612 original size:12 final size:12
Alignment explanation
Indices: 46226591--46226625 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46226581 GCTGAAATTA
*
46226591 AATCTAAATAAT
1 AATCTTAATAAT
46226603 AATCTTAATAAT
1 AATCTTAATAAT
*
46226615 AATCCTAATAA
1 AATCTTAATAA
46226626 AATTCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
AATCTTAATAAT
Found at i:46227227 original size:6 final size:6
Alignment explanation
Indices: 46227216--46227260 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
46227206 TTTTACTTCT
**
46227216 TTTTTC TTTTTC TTTTTC --TTTC TTTTTC TTTTTC TCCTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
46227261 TTTCCTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
6 29 0.88
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:46227237 original size:16 final size:16
Alignment explanation
Indices: 46227205--46227260 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 16
46227195 TTATTATTAT
46227205 TTTTTACTTCTTT-TTTC
1 TTTTT-CTT-TTTCTTTC
46227222 TTTTTCTTTTTCTTTC
1 TTTTTCTTTTTCTTTC
46227238 TTTTTCTTTTTCTCCTTC
1 TTTTTCTTTTTCT--TTC
46227256 TTTTT
1 TTTTT
46227261 TTTCCTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.08
16 20 0.56
17 5 0.14
18 8 0.22
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTC
Found at i:46227241 original size:22 final size:21
Alignment explanation
Indices: 46227215--46227264 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
46227205 TTTTTACTTC
**
46227215 TTTTTTCTTTTTCTTTTTCTT
1 TTTTTTCTTTTTCTCCTTCTT
46227236 TCTTTTTCTTTTTCTCCTTCTT
1 T-TTTTTCTTTTTCTCCTTCTT
46227258 TTTTTTC
1 TTTTTTC
46227265 CTTAAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTCTTTTTCTCCTTCTT
Found at i:46233064 original size:13 final size:13
Alignment explanation
Indices: 46233043--46233073 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46233033 GCTTAGATCA
*
46233043 TCATCAAATAAAT
1 TCATAAAATAAAT
46233056 TCATAAAATAAAT
1 TCATAAAATAAAT
46233069 TCATA
1 TCATA
46233074 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:46233321 original size:30 final size:30
Alignment explanation
Indices: 46233286--46233343 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46233276 CCTCGACTCT
*
46233286 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
46233316 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
46233344 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:46234908 original size:14 final size:14
Alignment explanation
Indices: 46234889--46234915 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46234879 AGAAACTAAA
46234889 AAAAAAGAAAATAG
1 AAAAAAGAAAATAG
46234903 AAAAAAGAAAATA
1 AAAAAAGAAAATA
46234916 TATGTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (14 bp):
AAAAAAGAAAATAG
Found at i:46234908 original size:16 final size:15
Alignment explanation
Indices: 46234877--46234915 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
46234867 TATTAACATG
*
46234877 AAAGAAACTAAAAAA
1 AAAGAAAATAAAAAA
*
46234892 AAAGAAAAT-AGAAA
1 AAAGAAAATAAAAAA
46234906 AAAGAAAATA
1 AAAGAAAATA
46234916 TATGTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (15 bp):
AAAGAAAATAAAAAA
Found at i:46238257 original size:7 final size:7
Alignment explanation
Indices: 46238245--46238319 Score: 141
Period size: 7 Copynumber: 10.6 Consensus size: 7
46238235 AAACCTAGTT
46238245 TAAACCC
1 TAAACCC
46238252 TAAACCC
1 TAAACCC
46238259 TAAAACCC
1 T-AAACCC
46238267 TAAACCC
1 TAAACCC
46238274 TAAACCC
1 TAAACCC
46238281 TAAACCC
1 TAAACCC
46238288 TAAACCC
1 TAAACCC
46238295 TAAACCC
1 TAAACCC
46238302 TAAACCC
1 TAAACCC
46238309 TAAACCC
1 TAAACCC
46238316 TAAA
1 TAAA
46238320 AGATAAATAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
7 60 0.90
8 7 0.10
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:46238754 original size:84 final size:85
Alignment explanation
Indices: 46238659--46238943 Score: 263
Period size: 84 Copynumber: 3.4 Consensus size: 85
46238649 AGAGTATTAT
* *
46238659 CAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAAAAGTTGG-AGTAATTG-GAATATGTG
1 CAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAAAAG-TGGCAGTAACTGAAAATATGTG
* ** **
46238722 GTTCAATCACAAACTGAGTTG
65 GTTAAATCACAAACCAAGTCA
* * * * *
46238743 GAGTTTGTTTAATCTGTAAATATATTGTGCACTTACAACAAGTGGCAGTAACTGAAAATATGTGG
1 CAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAAAAGTGGCAGTAACTGAAAATATGTGG
46238808 TTAAATCACAAACCAAGTCA
66 TTAAATCACAAACCAAGTCA
* * ** * * *
46238828 CAGTTTGTTT-GTCTACAAATATGTCATGCACTCACAAGAAGTGGCAGTAAC-CACAATCAGTGT
1 CAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAAAAGTGGCAGTAACTGAAAAT-A-TGT
* * * **
46238891 GGTTCAATAACGAACCAAGTGG
64 GGTTAAATCACAAACCAAGTCA
* * *
46238913 TAGTTTTTTTTAATATGCAAATATGTTGTGC
1 CAG-TTTGTTTAATCTGCAAATATGTTGTGC
46238944 CCCGTAACAA
Statistics
Matches: 160, Mismatches: 35, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
83 7 0.04
84 78 0.49
85 55 0.34
86 6 0.04
87 14 0.09
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (85 bp):
CAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAAAAGTGGCAGTAACTGAAAATATGTGG
TTAAATCACAAACCAAGTCA
Found at i:46264566 original size:30 final size:30
Alignment explanation
Indices: 46264529--46264615 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
46264519 AAGGTTGTTT
46264529 TATTTTTAATTAATAAATATATTTTTTCAA
1 TATTTTTAATTAATAAATATATTTTTTCAA
* * *
46264559 TTTTTTTAATT--TTAAT-TCATCTTTTTAAA
1 TATTTTTAATTAATAAATAT-AT-TTTTTCAA
*
46264588 TATTTTTAATTAATAAATAT-TTTATTCA
1 TATTTTTAATTAATAAATATATTTTTTCA
46264616 TAAACTCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
27 1 0.02
28 6 0.13
29 22 0.49
30 11 0.24
31 4 0.09
32 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTTTAATTAATAAATATATTTTTTCAA
Found at i:46275046 original size:23 final size:23
Alignment explanation
Indices: 46275016--46275061 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46275006 TTAGGGGAGT
*
46275016 TTGGACGAACGAATTGCCTAAGG
1 TTGGACGAACGAATCGCCTAAGG
46275039 TTGGACGAACGAATCGCCTAAGG
1 TTGGACGAACGAATCGCCTAAGG
46275062 CCACACGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (23 bp):
TTGGACGAACGAATCGCCTAAGG
Found at i:46275555 original size:16 final size:15
Alignment explanation
Indices: 46275534--46275563 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46275524 TGCACATAAA
46275534 AAATGTTTTATTTTTG
1 AAATGTTTT-TTTTTG
46275550 AAATGTTTTTTTTT
1 AAATGTTTTTTTTT
46275564 ATTTACCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
AAATGTTTTTTTTTG
Found at i:46275912 original size:112 final size:114
Alignment explanation
Indices: 46275694--46275918 Score: 364
Period size: 112 Copynumber: 2.0 Consensus size: 114
46275684 ATTTCCTTGT
* *
46275694 TTGTGAAAGTTGAAACTAACTTTAACATTTTGGATATTTTGAATGTTATGTTTTAAAAAAAAAAA
1 TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATATTTTGAATGTCATGTTTT-AAAAAAAAAA
*
46275759 TACAGAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAACC
65 TACAAAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAACC
* * *
46275809 TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATCTTTTGAAT-TCATGTTTT-AAAAGACAAT
1 TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATATTTTGAATGTCATGTTTTAAAAAAAAAAT
*
46275872 ACAAAAGTTTTAGTTAAACTTGAACTCACTGCATTTTATGTGCATAA
66 ACAAAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAA
46275919 ACTTTCAACC
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
112 53 0.51
114 8 0.08
115 42 0.41
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (114 bp):
TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATATTTTGAATGTCATGTTTTAAAAAAAAAAT
ACAAAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAACC
Found at i:46279796 original size:61 final size:57
Alignment explanation
Indices: 46279728--46279894 Score: 185
Period size: 57 Copynumber: 2.9 Consensus size: 57
46279718 TTTTTATAAT
* * * *
46279728 ATTATATATTATGATTT-TTTAATTCATATTTTAATAATAATTATATTAAGAATGTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATA-TTTAACAATAATTATATTAA-AATATGATTAA
* *
46279789 ATTATATATTATTTTATTAAATTGTATTTAACAATAATTATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAATTATATTTAACAATAATTATATTAAAATATGATTAA
* * *
46279846 ATTATTTATTATTTTATTAAAATATATTTAATAATAATCT-TATTAAAAT
1 ATTATATATTATTTTATTAAATTATATTTAACAATAAT-TATATTAAAAT
46279895 TTAATAACAA
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 51 0.55
58 19 0.20
59 5 0.05
60 6 0.06
61 12 0.13
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTATATTTAACAATAATTATATTAAAATATGATTAA
Found at i:46279892 original size:57 final size:57
Alignment explanation
Indices: 46279753--46279894 Score: 189
Period size: 57 Copynumber: 2.5 Consensus size: 57
46279743 TTTTTAATTC
* *
46279753 ATAT-TTTAATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAA
1 ATATATTTAATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAA
* * * * *
46279810 TTGTATTTAACAATAATTATGTTAAAATATGATTAAATTATTTATTATTTTATTAAA
1 ATATATTTAATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAA
46279867 ATATATTTAATAATAATCT-TATTAAAAT
1 ATATATTTAATAATAAT-TATATTAAAAT
46279895 TTAATAACAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
57 53 0.74
58 19 0.26
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (57 bp):
ATATATTTAATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAA
Done.