Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 163 of 250
Found at i:52476952 original size:31 final size:31
Alignment explanation
Indices: 52476915--52476977 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
52476905 AAGAATATGA
*
52476915 GATAGTGAATTGAAAATAGAAGGTGAAATAT
1 GATAGTGAATTGAAAATAGAAAGTGAAATAT
52476946 GATAGTGAATTGAAAATAGAAAGTGAAATAT
1 GATAGTGAATTGAAAATAGAAAGTGAAATAT
52476977 G
1 G
52476978 TTGTAAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.25
Consensus pattern (31 bp):
GATAGTGAATTGAAAATAGAAAGTGAAATAT
Found at i:52476970 original size:18 final size:18
Alignment explanation
Indices: 52476918--52476972 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
52476908 AATATGAGAT
52476918 AGTGAATTGAAAATAG-A
1 AGTGAATTGAAAATAGAA
*
52476935 AG-G---TG-AAATATGAT
1 AGTGAATTGAAAATA-GAA
52476949 AGTGAATTGAAAATAGAA
1 AGTGAATTGAAAATAGAA
52476967 AGTGAA
1 AGTGAA
52476973 ATATGTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 13
0.66 0.05 0.30
Matches are distributed among these distances:
12 5 0.17
13 3 0.10
14 2 0.07
15 1 0.03
16 1 0.03
17 2 0.07
18 10 0.34
19 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AGTGAATTGAAAATAGAA
Found at i:52477525 original size:18 final size:19
Alignment explanation
Indices: 52477487--52477525 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52477477 GACGATATGA
*
52477487 TTAAATTATGATGTGAATG
1 TTAAATAATGATGTGAATG
*
52477506 TTAAATAATTATGT-AATG
1 TTAAATAATGATGTGAATG
52477524 TT
1 TT
52477526 TGTATTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (19 bp):
TTAAATAATGATGTGAATG
Found at i:52481369 original size:183 final size:183
Alignment explanation
Indices: 52481061--52481399 Score: 633
Period size: 183 Copynumber: 1.9 Consensus size: 183
52481051 TTTCATGAAC
*
52481061 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCTG
1 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCTA
* *
52481126 TCTAAGGAGATTGAAACTTAAGCGGGACCGTTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
66 TCTAAGGAGATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
52481191 AATGTAATTTGTTAAGCAAAAATTTTCTAATTAAGATTTAAAATTTTTAAGTT
131 AATGTAATTTGTTAAGCAAAAATTTTCTAATTAAGATTTAAAATTTTTAAGTT
52481244 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCTA
1 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCTA
*
52481309 TCTAAGGATATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
66 TCTAAGGAGATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
*
52481374 AATGTAATTTGTTAAGCAGAAATTTT
131 AATGTAATTTGTTAAGCAAAAATTTT
52481400 TAAATTTTTA
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 151 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (183 bp):
TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCTA
TCTAAGGAGATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
AATGTAATTTGTTAAGCAAAAATTTTCTAATTAAGATTTAAAATTTTTAAGTT
Found at i:52483296 original size:183 final size:183
Alignment explanation
Indices: 52482988--52483326 Score: 642
Period size: 183 Copynumber: 1.9 Consensus size: 183
52482978 TAAAAATTTA
52482988 AAAATTTCTGCTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
1 AAAATTTCTGCTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
* *
52483053 CCTGCTTAAGTTTCAATATCCTTAGATAGAATTAATTAAATGTAATAAGTTAAGAAAATAAGTTA
66 CCCGCTTAAGTTTCAATATCCTTAGACAGAATTAATTAAATGTAATAAGTTAAGAAAATAAGTTA
52483118 TAATTATTTATTTATTTAAAAAATGAAACTTAAAAATTTTAAATCTTAATTAG
131 TAATTATTTATTTATTTAAAAAATGAAACTTAAAAATTTTAAATCTTAATTAG
*
52483171 AAAATTTTTGCTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
1 AAAATTTCTGCTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
*
52483236 CCCGCTTAAGTTTCAATCTCCTTAGACAGAATTAATTAAATGTAATAAGTTAAGAAAATAAGTTA
66 CCCGCTTAAGTTTCAATATCCTTAGACAGAATTAATTAAATGTAATAAGTTAAGAAAATAAGTTA
52483301 TAATTATTTATTTATTTAAAAAATGA
131 TAATTATTTATTTATTTAAAAAATGA
52483327 GTTCATGAAA
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 152 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (183 bp):
AAAATTTCTGCTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
CCCGCTTAAGTTTCAATATCCTTAGACAGAATTAATTAAATGTAATAAGTTAAGAAAATAAGTTA
TAATTATTTATTTATTTAAAAAATGAAACTTAAAAATTTTAAATCTTAATTAG
Found at i:52489845 original size:30 final size:30
Alignment explanation
Indices: 52489809--52489868 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
52489799 AACATGTTTG
*
52489809 GTGAAGTTATGTACTTA-GCAAATGGCCATA
1 GTGAAGTTATGCAC-TAGGCAAATGGCCATA
52489839 GTGAAGTTATGCACTAGGCAAATGGCCATA
1 GTGAAGTTATGCACTAGGCAAATGGCCATA
52489869 TAGTATTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (30 bp):
GTGAAGTTATGCACTAGGCAAATGGCCATA
Found at i:52495184 original size:27 final size:27
Alignment explanation
Indices: 52495135--52495186 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
52495125 AGACTTCCTT
* ***
52495135 GTGTTTAGTGTCTCGGGGGACTACCCC
1 GTGTTTACTGTCTCGGCAAACTACCCC
52495162 GTGTTTACTGTCTCGGCAAACTACC
1 GTGTTTACTGTCTCGGCAAACTACC
52495187 TATGTTGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (27 bp):
GTGTTTACTGTCTCGGCAAACTACCCC
Found at i:52501875 original size:21 final size:20
Alignment explanation
Indices: 52501848--52501906 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
52501838 TTTTTCACAT
52501848 AAATTTAATATTAAATAATA
1 AAATTTAATATTAAATAATA
*
52501868 ACAATTT-ATATTAGAAGAATA
1 A-AATTTAATATTA-AATAATA
* *
52501889 ATATTTAAATATAAAATA
1 AAATTT-AATATTAAATA
52501907 TTTTATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 11 0.35
21 15 0.48
22 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATTTAATATTAAATAATA
Found at i:52504268 original size:16 final size:17
Alignment explanation
Indices: 52504231--52504270 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
52504221 GAAGCGGAGA
52504231 AAAAAATGATAATATTT
1 AAAAAATGATAATATTT
52504248 AAAAAATGATAATATTT
1 AAAAAATGATAATATTT
52504265 AAAAAA
1 AAAAAA
52504271 ACATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAAAATGATAATATTT
Found at i:52504280 original size:18 final size:17
Alignment explanation
Indices: 52504239--52504280 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
52504229 GAAAAAAATG
**
52504239 ATAATATTTAAAAAATG
1 ATAATATTTAAAAAAAC
52504256 ATAATATTTAAAAAAAC
1 ATAATATTTAAAAAAAC
52504273 ATATATAT
1 ATA-ATAT
52504281 AATAATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAATATTTAAAAAAAC
Found at i:52504599 original size:26 final size:26
Alignment explanation
Indices: 52504578--52504627 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
52504568 ATATAATGGA
52504578 TAATATATATAAATAA-AAATAATAAC
1 TAATATATATAAA-AATAAATAATAAC
*
52504604 TAATATTTATAAAAATAAATAATA
1 TAATATATATAAAAATAAATAATA
52504628 TAAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
TAATATATATAAAAATAAATAATAAC
Found at i:52504602 original size:22 final size:23
Alignment explanation
Indices: 52504577--52504629 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
52504567 AATATAATGG
52504577 ATAATATATATAAATAAAAAT-A
1 ATAATATATATAAATAAAAATAA
**
52504599 ATAACTA-ATATTTATAAAAATAA
1 ATAA-TATATATAAATAAAAATAA
52504622 ATAATATA
1 ATAATATA
52504630 AAAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATATATATAAATAAAAATAA
Found at i:52504619 original size:28 final size:28
Alignment explanation
Indices: 52504583--52504640 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
52504573 ATGGATAATA
* **
52504583 TATATAAATAAA-AATAATAACTAATATT
1 TATAAAAATAAATAAT-ATAAAAAATATT
52504611 TATAAAAATAAATAATATAAAAAATATT
1 TATAAAAATAAATAATATAAAAAATATT
52504639 TA
1 TA
52504641 AAATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
TATAAAAATAAATAATATAAAAAATATT
Found at i:52506620 original size:206 final size:206
Alignment explanation
Indices: 52506091--52506635 Score: 860
Period size: 204 Copynumber: 2.7 Consensus size: 206
52506081 AATCTACTTT
*
52506091 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCCTCTTAGATTTGCTTCAGCGTAAGCACG
1 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
* * * * * *
52506156 CGAAAACCAAATCAGGTATGTCTTCGATTTGCTCCTTGTAAGCACGAGGATACCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
* * * * ** *
52506221 GATCTGCTTCAGTCTAATCATTTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAAAATGG
131 GATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCGAAAATGG
52506286 AGACGCCAAAC
196 AGACGCCAAAC
* *
52506297 TTCGATTTGTTCTCTGACAAT--AGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACG
1 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
* * *
52506360 TGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
*
52506425 GATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCGAATATGG
131 GATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCGAAAATGG
52506490 AGACGCCAAAC
196 AGACGCCAAAC
* * *
52506501 TTTGATTTGTTCCCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACG
1 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
*
52506566 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
52506631 GATCT
131 GATCT
52506636 TGCTTCAGCC
Statistics
Matches: 308, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
204 183 0.59
206 125 0.41
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (206 bp):
TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
GATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCGAAAATGG
AGACGCCAAAC
Found at i:52518655 original size:28 final size:27
Alignment explanation
Indices: 52518624--52518697 Score: 71
Period size: 30 Copynumber: 2.7 Consensus size: 27
52518614 GATTATATGC
*
52518624 ATAAGATATATATATAATGAAATATATA
1 ATAA-ATATATATATAATGAAATATACA
* *
52518652 ATAAAATATAATTTATAGATAAAATATACA
1 AT-AAATAT-ATATATA-ATGAAATATACA
52518682 AT-AATATA-ATATAATG
1 ATAAATATATATATAATG
52518698 GATAATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
25 2 0.05
26 4 0.11
27 1 0.03
28 11 0.29
29 8 0.21
30 12 0.32
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (27 bp):
ATAAATATATATATAATGAAATATACA
Found at i:52518711 original size:26 final size:26
Alignment explanation
Indices: 52518700--52518749 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
52518690 ATATAATGGA
52518700 TAATATTTATAAATAAAAATAATAAC
1 TAATATTTATAAATAAAAATAATAAC
52518726 TAATATTTATAAA-AATAAATAATA
1 TAATATTTATAAATAA-AAATAATA
52518750 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
TAATATTTATAAATAAAAATAATAAC
Found at i:52518724 original size:22 final size:23
Alignment explanation
Indices: 52518699--52518760 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
52518689 AATATAATGG
*
52518699 ATAATATTTATAAATAAAAAT-A
1 ATAATATATATAAATAAAAATAA
**
52518721 ATAACTA-ATATTTATAAAAATAA
1 ATAA-TATATATAAATAAAAATAA
*
52518744 ATAATATA-AAAAATAAA
1 ATAATATATATAAATAAA
52518761 TGCCAGGGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
22 23 0.74
23 8 0.26
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAATATATATAAATAAAAATAA
Found at i:52518758 original size:28 final size:26
Alignment explanation
Indices: 52518701--52518755 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
52518691 TATAATGGAT
**
52518701 AATATTTATAAATAAAAATAATAACT
1 AATATTTATAAATAAAAATAATAAAA
52518727 AATATTTATAAA-AATAAATAATATAAA
1 AATATTTATAAATAA-AAATAATA-AAA
52518754 AA
1 AA
52518756 ATAAATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 20 0.80
27 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
AATATTTATAAATAAAAATAATAAAA
Found at i:52524452 original size:18 final size:19
Alignment explanation
Indices: 52524429--52524467 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
52524419 CTTGGCCCAT
* *
52524429 TACAGTATCA-ATATTCAG
1 TACAGTAACAGATATACAG
52524447 TACAGTAACAGATATACAG
1 TACAGTAACAGATATACAG
52524466 TA
1 TA
52524468 TCAAATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
TACAGTAACAGATATACAG
Found at i:52526871 original size:27 final size:27
Alignment explanation
Indices: 52526841--52527055 Score: 295
Period size: 27 Copynumber: 8.0 Consensus size: 27
52526831 TTAGTTTACC
52526841 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
52526868 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52526895 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
52526922 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52526949 AAACTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52526976 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
52527003 AAATTACTGAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52527030 AAATTACCAAAATACCCCTGATTTGT
1 AAATTACCAAAATACCCCTGGTTTGT
52527056 GCAATTACTG
Statistics
Matches: 160, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 160 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:52527055 original size:81 final size:81
Alignment explanation
Indices: 52526841--52527134 Score: 306
Period size: 81 Copynumber: 3.6 Consensus size: 81
52526831 TTAGTTTACC
* * * * **
52526841 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
52526906 ATACCCCT-AGTTTGTA
66 ATACCCCTGA-TTTGTA
* * * * *
52526922 AAATTACTAAAATACCCTTTGTTTATAAAACTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
*
52526987 ATACCCCTGATTTGTG
66 ATACCCCTGATTTGTA
* ** **
52527003 AAATTACTGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGCAATTACTGAA
1 AAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
* **
52527068 ATA-CACTCGACCTGTA
66 ATACCCCT-GATTTGTA
* * * * **
52527084 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAGGTACCCCTGATTT
1 AAATTACTAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGATTT
52527135 ACAGAACTAC
Statistics
Matches: 182, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 8 0.04
81 173 0.95
82 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
ATACCCCTGATTTGTA
Found at i:52527061 original size:27 final size:27
Alignment explanation
Indices: 52526841--52527134 Score: 274
Period size: 27 Copynumber: 10.9 Consensus size: 27
52526831 TTAGTTTACC
*
52526841 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * **
52526868 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
52526895 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* * *
52526922 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-CTGATTTGTA
* *
52526949 AAACTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
52526976 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
**
52527003 AAATTACTGAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
52527030 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
* ** * **
52527057 CAATTACTGAAATA-CACTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** *
52527084 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
**
52527111 AAATTACCAAGGTACCCCTGATTT
1 AAATTACCAAAATACCCCTGATTT
52527135 ACAGAACTAC
Statistics
Matches: 219, Mismatches: 40, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
26 6 0.03
27 207 0.95
28 6 0.03
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:52527352 original size:27 final size:27
Alignment explanation
Indices: 52527166--52527361 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
52527156 CGATTTATAA
* *
52527166 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
52527193 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
52527220 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
52527247 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52527274 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
52527301 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
52527328 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
52527355 AATTACC
1 AATTACC
52527362 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:52527353 original size:81 final size:80
Alignment explanation
Indices: 52527166--52527361 Score: 275
Period size: 81 Copynumber: 2.4 Consensus size: 80
52527156 CGATTTATAA
* * * *
52527166 AATTATCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTATCG-AATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAA
*
52527231 TACCCTTGTAGGGTAG
65 TACCCCTGTAGGGTAG
*
52527247 AATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAA
1 AATTATCG-AATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAA
52527312 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * *
52527328 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTATCGA-ATACCCTTGTAGGGTAGAATTACC
52527362 ATTTTGCCCC
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 101 0.99
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (80 bp):
AATTATCGAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAAT
ACCCCTGTAGGGTAG
Found at i:52527598 original size:27 final size:26
Alignment explanation
Indices: 52527560--52527642 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
52527550 CGGAGGAAGC
*
52527560 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
52527587 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
52527613 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
52527640 GTT
1 GTT
52527643 GACCGATGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:52527761 original size:22 final size:22
Alignment explanation
Indices: 52527729--52527787 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52527719 CCCATTATTG
*
52527729 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52527751 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52527773 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52527788 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52527974 original size:27 final size:27
Alignment explanation
Indices: 52527960--52528025 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
52527950 TTTGCCACAT
52527960 TATCTG-ATTCTGGTGGCTCTGCAACAA
1 TATCTGTA-TCTGGTGGCTCTGCAACAA
* *
52527987 TATCTGTATCTGGTGACTCTGTC-ACGA
1 TATCTGTATCTGGTGGCTCTG-CAACAA
52528014 TATCTGT-TCTGG
1 TATCTGTATCTGG
52528026 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.14
27 28 0.80
28 2 0.06
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (27 bp):
TATCTGTATCTGGTGGCTCTGCAACAA
Found at i:52528152 original size:6 final size:6
Alignment explanation
Indices: 52528143--52528303 Score: 109
Period size: 6 Copynumber: 26.5 Consensus size: 6
52528133 TTGCATTCAC
* *
52528143 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
52528192 -TTACTA ATACTG ATTCTG ATTATG ATTCTG -TTACTG ATTGTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * *
52528240 ATCCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTA ATTCT- ATTACTA
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
52528289 ATAT-TG ATTCTG ATT
1 AT-TCTG ATTCTG ATT
52528304 TTGTTTCTCA
Statistics
Matches: 123, Mismatches: 18, Indels: 28
0.73 0.11 0.17
Matches are distributed among these distances:
5 10 0.08
6 100 0.81
7 10 0.08
8 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:52528297 original size:85 final size:85
Alignment explanation
Indices: 52528147--52528308 Score: 238
Period size: 85 Copynumber: 1.9 Consensus size: 85
52528137 ATTCACATTC
* * *
52528147 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGAT
1 TGATTCTGATCCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTAATTCTGAT
52528212 TATGATTCTGTTACTGATTG
66 TATGATTCTGTTACTGATTG
*
52528232 TGATTCTGATCCTGTCACCTAATTCTGATTCTGATTCTGATTCTAATT-CTATTACTAATAT-TG
1 TGATTCTGATCCTGTCACCTAATTCTGATTCTGATTCTGATTCT-ATTACTAATACTAAT-TCTG
* *
52528295 ATTCTGATTTTGTT
64 ATTATGATTCTGTT
52528309 TCTCATTTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
85 66 0.96
86 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (85 bp):
TGATTCTGATCCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTAATTCTGAT
TATGATTCTGTTACTGATTG
Found at i:52545461 original size:20 final size:20
Alignment explanation
Indices: 52545436--52545476 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
52545426 TCAAGTTAGG
52545436 AGAATGAGAAAATAGCGTGA
1 AGAATGAGAAAATAGCGTGA
52545456 AGAATGAGAAAATAGCGTGA
1 AGAATGAGAAAATAGCGTGA
52545476 A
1 A
52545477 AAATAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.29, T:0.15
Consensus pattern (20 bp):
AGAATGAGAAAATAGCGTGA
Found at i:52546359 original size:28 final size:28
Alignment explanation
Indices: 52546319--52546400 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
52546309 CTATGTACAT
52546319 CACTTAGTGTGTGAGATATTGAGTATGG
1 CACTTAGTGTGTGAGATATTGAGTATGG
52546347 CACTTAGTGTGTGAGATATTGAGTATGG
1 CACTTAGTGTGTGAGATATTGAGTATGG
* * *
52546375 CTCTTAGTGTGCGAAATATTGAGTAT
1 CACTTAGTGTGTGAGATATTGAGTAT
52546401 TAAGTGGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (28 bp):
CACTTAGTGTGTGAGATATTGAGTATGG
Found at i:52562015 original size:55 final size:56
Alignment explanation
Indices: 52561952--52562066 Score: 189
Period size: 56 Copynumber: 2.1 Consensus size: 56
52561942 GTATTTTAGT
* *
52561952 TGGTCAACCTAC-AAAATTCAAGAGA-AAGAAATTAACATCTTGCATATAATTTAAG
1 TGGTCAACCTACAAAAATTAAAGAGAGAA-AAATCAACATCTTGCATATAATTTAAG
52562007 TGGTCAACCTACAAAAATTAAAGAGAGAAAAATCAACATCTTGCATATAATTTAAG
1 TGGTCAACCTACAAAAATTAAAGAGAGAAAAATCAACATCTTGCATATAATTTAAG
52562063 TGGT
1 TGGT
52562067 GTTGTAGTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
55 12 0.21
56 42 0.75
57 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (56 bp):
TGGTCAACCTACAAAAATTAAAGAGAGAAAAATCAACATCTTGCATATAATTTAAG
Found at i:52563495 original size:29 final size:29
Alignment explanation
Indices: 52563428--52563502 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
52563418 TGTTAGTAGT
*
52563428 TGGATTAAATTTTAAAATATGAAAAGTAA
1 TGGATTAAATTCTAAAATATGAAAAGTAA
* *
52563457 AGTGACTAAATTCCTAAAA-AT-AAAAGTACA
1 TG-GATTAAATT-CTAAAATATGAAAAGTA-A
52563487 TGGATTAAATTCTAAA
1 TGGATTAAATTCTAAA
52563503 TTTTTGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.13
29 16 0.42
30 12 0.32
31 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.31
Consensus pattern (29 bp):
TGGATTAAATTCTAAAATATGAAAAGTAA
Found at i:52564564 original size:29 final size:30
Alignment explanation
Indices: 52564502--52564563 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
52564492 AATCTATATC
* *
52564502 TTTATAATTTTTAAAGGATTAAATTAAATT
1 TTTATAATTTTTAAAGGATCAAAGTAAATT
*
52564532 TTTATAA-TTTTAAAGGGTCAAAGTACAATT
1 TTTATAATTTTTAAAGGATCAAAGTA-AATT
52564562 TT
1 TT
52564564 ACCTTTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATCAAAGTAAATT
Found at i:52569715 original size:32 final size:31
Alignment explanation
Indices: 52569671--52569742 Score: 135
Period size: 32 Copynumber: 2.3 Consensus size: 31
52569661 AAACTAAGGT
52569671 ATGTATGCAGTGATAATTCAAAGGAATGATG
1 ATGTATGCAGTGATAATTCAAAGGAATGATG
52569702 ATGTTATGCAGTGATAATTCAAAGGAATGATG
1 ATG-TATGCAGTGATAATTCAAAGGAATGATG
52569734 ATGTATGCA
1 ATGTATGCA
52569743 ATAGATGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 9 0.22
32 31 0.77
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (31 bp):
ATGTATGCAGTGATAATTCAAAGGAATGATG
Found at i:52570735 original size:37 final size:37
Alignment explanation
Indices: 52570681--52570771 Score: 148
Period size: 36 Copynumber: 2.5 Consensus size: 37
52570671 TATCTTCTCC
52570681 TCTTTTTAAATTCTTTTTTCAACAACCCAAGATTATCT
1 TCTTTTTAAATT-TTTTTTCAACAACCCAAGATTATCT
* *
52570719 T-TTTTTAAAATTTTTTTCAACAACCCGAGATTATCT
1 TCTTTTTAAATTTTTTTTCAACAACCCAAGATTATCT
52570755 TCTTTTTAAATTTTTTT
1 TCTTTTTAAATTTTTTT
52570772 CTAGGATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 25 0.51
37 23 0.47
38 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.53
Consensus pattern (37 bp):
TCTTTTTAAATTTTTTTTCAACAACCCAAGATTATCT
Found at i:52584539 original size:20 final size:22
Alignment explanation
Indices: 52584489--52584544 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
52584479 TAGTCATATA
* * *
52584489 ATAAATTATTAATATAATAAAT
1 ATAATTTATTATTTTAATAAAT
52584511 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAATAAAT
52584533 -T-ATTTATTATTT
1 ATAATTTATTATTT
52584545 CAATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 19 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTATTATTTTAATAAAT
Found at i:52584583 original size:14 final size:14
Alignment explanation
Indices: 52584552--52584590 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
52584542 TTTCAATTTT
52584552 ATTTT-AATAATAA
1 ATTTTAAATAATAA
52584565 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
52584579 ATTTTAAATAAT
1 ATTTTAAATAAT
52584591 GTTATTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:52585126 original size:14 final size:14
Alignment explanation
Indices: 52585107--52585144 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
52585097 CTAGAAAAGT
52585107 AAATCATTTTCCAG
1 AAATCATTTTCCAG
52585121 AAATCA-TTTCCAG
1 AAATCATTTTCCAG
*
52585134 AAGTCATTTTC
1 AAATCATTTTC
52585145 AATGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:52586556 original size:27 final size:27
Alignment explanation
Indices: 52586530--52586775 Score: 264
Period size: 27 Copynumber: 9.1 Consensus size: 27
52586520 AGTACTCTCA
52586530 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* ** *
52586556 AGTTTATAGAATTACTATTTTACCCTTG
1 A-TTTACAGAATTACCGTTTTACCCTCG
52586584 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* ***
52586610 AGTTTATAGAATTACTACTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* * *
52586638 ATTTATAAAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
52586665 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
52586692 ATTTACAGAATTACTGGTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
52586718 AGTTTACAAAATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
52586746 ATTTACAGAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
52586773 ATT
1 ATT
52586776 GTGCAATTAC
Statistics
Matches: 181, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.02
27 175 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:52586569 original size:54 final size:54
Alignment explanation
Indices: 52586530--52586770 Score: 313
Period size: 54 Copynumber: 4.5 Consensus size: 54
52586520 AGTACTCTCA
* * *
52586530 ATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCATTTTACCCTCG
* * *
52586584 ATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTACTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCATTTTACCCTCG
* * * * * *
52586638 ATTTATAAAATTATCGTTTTACCCTC-GATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCAG-TTTATAAAATTACCATTTTACCCTCG
* * * * *
52586692 ATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCATTTTACCCTCG
52586746 ATTTACAGAATTACCGTTTTACCCT
1 ATTTACAGAATTACCGTTTTACCCT
52586771 TGATTGTGCA
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 161 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (54 bp):
ATTTACAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCATTTTACCCTCG
Found at i:52586632 original size:81 final size:81
Alignment explanation
Indices: 52586530--52586775 Score: 309
Period size: 81 Copynumber: 3.0 Consensus size: 81
52586520 AGTACTCTCA
*** * * *
52586530 ATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTA-CTATTTTACCCTTGATTTACAGAA
1 ATTTACAGAATTACTACTTTACCCTCAGTTTATAAAATTATC-GTTTTACCCTCGATTTACAGAA
52586594 TTACCGTTTTACCCTCAG
65 TTACCGTTTTACCCT-AG
* ** *
52586612 -TTTATAGAATTACTACTTTACCCTC-GATTTATAAAATTATCGTTTTACCCTCGATTTGTAAAA
1 ATTTACAGAATTACTACTTTACCCTCAG-TTTATAAAATTATCGTTTTACCCTCGATTTACAGAA
*
52586675 TTACCGTTTTACCCTTG
65 TTACCGTTTTACCCTAG
** *
52586692 ATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACTACTTTACCCTCAGTTTATAAAATTATCGTTTTACCCTCGATTTACAGAAT
*
52586757 TACCGTTTTACCCTTG
66 TACCGTTTTACCCTAG
52586773 ATT
1 ATT
52586776 GTGCAATTAC
Statistics
Matches: 142, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.01
81 138 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (81 bp):
ATTTACAGAATTACTACTTTACCCTCAGTTTATAAAATTATCGTTTTACCCTCGATTTACAGAAT
TACCGTTTTACCCTAG
Found at i:52586810 original size:27 final size:27
Alignment explanation
Indices: 52586780--52586974 Score: 221
Period size: 27 Copynumber: 7.2 Consensus size: 27
52586770 TTGATTGTGC
52586780 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
52586807 AATTTCTGAAATACCCATATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * **
52586834 AATTACTGAAATACCCTTATAGAATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
52586861 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
52586888 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
52586915 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
52586942 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
52586969 AATTAC
1 AATTAC
52586975 CATTTTGCCC
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:52586848 original size:54 final size:54
Alignment explanation
Indices: 52586780--52586975 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
52586770 TTGATTGTGC
* * * * *
52586780 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCATATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* ** *
52586834 AATTACTGAAATACCCTTATAGAATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
52586888 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
52586942 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
52586976 ATTTTGCCCC
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:52587212 original size:27 final size:26
Alignment explanation
Indices: 52587174--52587256 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
52587164 CGGAGGAAGC
52587174 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
52587201 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
52587227 GTATTTGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
52587254 GTT
1 GTT
52587257 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:52587376 original size:22 final size:22
Alignment explanation
Indices: 52587344--52587402 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52587334 CCCGTTATTA
*
52587344 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52587366 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52587388 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52587403 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52587589 original size:27 final size:27
Alignment explanation
Indices: 52587567--52587640 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
52587557 TAGGTGGGTT
*
52587567 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
52587594 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
52587621 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
52587641 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:52587798 original size:6 final size:6
Alignment explanation
Indices: 52587787--52587975 Score: 140
Period size: 6 Copynumber: 31.2 Consensus size: 6
52587777 CACATAATTT
* * *
52587787 TGATTC TGATTC TGATTC TG-TTAC TAATAC TGATTC TAATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC TGATTC
* * * *
52587835 TG-TTAC TGATTC TGATTC TAATTC TG-TCACC TAATTT TGATTC TGATTC
1 TGATT-C TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
* * * * *
52587884 TGCTTC TG-TCACC TAATTT TGATTC TGATTC TGATTC TG-TTAC TAATAT-
1 TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC TGATT-C TGAT-TC
52587933 TGATTC TGATTC TGATTC TG-TTAC TGATTC TGATTC TGATTC T
1 TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC T
52587976 CATTTGGGTT
Statistics
Matches: 144, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
5 11 0.08
6 120 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:52587962 original size:116 final size:116
Alignment explanation
Indices: 52587758--52587975 Score: 382
Period size: 116 Copynumber: 1.9 Consensus size: 116
52587748 TTGCATTCAC
52587758 ATTCTAATTCTGATTCTGTCACATAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTAATTCTGATTCTGTCACATAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
52587823 TAATTCTGATTCTGTTACTGATTCTGATTCTAATTCTGTCACCTAATTTTG
66 TAATTCTGATTCTGTTACTGATTCTGATTCTAATTCTGTCACCTAATTTTG
* * * *
52587874 ATTCTGATTCTGCTTCTGTCACCTAATTTTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTAATTCTGATTCTGTCACATAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
* *
52587939 TGATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
66 TAATTCTGATTCTGTTACTGATTCTGATTCTAATTCT
52587976 CATTTGGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (116 bp):
ATTCTAATTCTGATTCTGTCACATAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TAATTCTGATTCTGTTACTGATTCTGATTCTAATTCTGTCACCTAATTTTG
Found at i:52591067 original size:11 final size:11
Alignment explanation
Indices: 52591053--52591081 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
52591043 TATAAAATAA
52591053 TTAAATTGTAC
1 TTAAATTGTAC
52591064 TTAAATTGTAC
1 TTAAATTGTAC
52591075 TTAAATT
1 TTAAATT
52591082 ATTAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (11 bp):
TTAAATTGTAC
Found at i:52598512 original size:27 final size:27
Alignment explanation
Indices: 52598468--52598660 Score: 224
Period size: 27 Copynumber: 7.1 Consensus size: 27
52598458 GGTTGTTATT
* *
52598468 TGACCGTAATACCTCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
** *
52598495 TGATTGTAATGCCCCTGTAAGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* * * *
52598522 TAACTGAAATGCCCATGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
52598549 TGACCATAATGCCCCTTTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* * **
52598576 TAACCGTAATACCCCTAAAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
*
52598603 TGACAGTAATGCCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
52598630 TGACCGTAATACCCCTGTATGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
52598657 TGAC
1 TGAC
52598661 GATTATGCCC
Statistics
Matches: 137, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TGACCGTAATGCCCCTGTAGGGTAAAA
Found at i:52608469 original size:32 final size:32
Alignment explanation
Indices: 52608433--52608517 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 32
52608423 CCCATTACAG
* * * *
52608433 TATCAATTGGGCGTAGCCCATCTCAGAATCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
* *
52608465 TATCAGTTAGGCCTAGCCTATATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
52608497 TATCAGTTGGGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
52608518 TTCAATATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:52609606 original size:18 final size:18
Alignment explanation
Indices: 52609573--52609684 Score: 84
Period size: 18 Copynumber: 6.2 Consensus size: 18
52609563 AGTTTCATTT
52609573 AGTAAC-ATTCAATTATTC
1 AGTAACAATT-AATTATTC
* * *
52609591 AGTAGCAATTAGTTATTT
1 AGTAACAATTAATTATTC
* * **
52609609 AGTAACAATCATTTGCTC
1 AGTAACAATTAATTATTC
*
52609627 AGTAGC-ATTCAATTATTC
1 AGTAACAATT-AATTATTC
*
52609645 AGTAACAATCAATTATTC
1 AGTAACAATTAATTATTC
* * *
52609663 AGTAACAGTTAGTCATTC
1 AGTAACAATTAATTATTC
52609681 AGTA
1 AGTA
52609685 CTTTTATTTA
Statistics
Matches: 71, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
17 2 0.03
18 64 0.90
19 5 0.07
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
AGTAACAATTAATTATTC
Found at i:52609681 original size:36 final size:35
Alignment explanation
Indices: 52609567--52609684 Score: 119
Period size: 36 Copynumber: 3.3 Consensus size: 35
52609557 TTTATCAGTT
* *
52609567 TCATTTAGTAACATTCAATTATTCAGTAGCAATTAG
1 TCATTCAGTAACAATCAATTATTCAGTAGC-ATTAG
* * * ** *
52609603 TTATTTAGTAACAATCATTTGCTCAGTAGCATTCAA
1 TCATTCAGTAACAATCAATTATTCAGTAGCATT-AG
* *
52609639 TTATTCAGTAACAATCAATTATTCAGTAACAGTTAG
1 TCATTCAGTAACAATCAATTATTCAGTAGCA-TTAG
52609675 TCATTCAGTA
1 TCATTCAGTA
52609685 CTTTTATTTA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
35 3 0.04
36 62 0.93
37 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (35 bp):
TCATTCAGTAACAATCAATTATTCAGTAGCATTAG
Found at i:52609683 original size:54 final size:54
Alignment explanation
Indices: 52609567--52609684 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
52609557 TTTATCAGTT
* * * * * *
52609567 TCATTTAGTAACATTCAATTATTCAGTAGCAATTAGTTATTTAGTAACAATCAT
1 TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
*** * * *
52609621 TTGCTCAGTAGCATTCAATTATTCAGTAACAATCAATTATTCAGTAACAGTTAG
1 TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
52609675 TCATTCAGTA
1 TCATTCAGTA
52609685 CTTTTATTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
Found at i:52610049 original size:17 final size:17
Alignment explanation
Indices: 52610017--52610049 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52610007 TTCCATATTA
52610017 CATTTCAATTTCAATTT
1 CATTTCAATTTCAATTT
52610034 CATTCTCAATTT-AATT
1 CATT-TCAATTTCAATT
52610050 ACAACTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (17 bp):
CATTTCAATTTCAATTT
Found at i:52610623 original size:13 final size:15
Alignment explanation
Indices: 52610597--52610629 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
52610587 CATTTACTTT
52610597 ATATATATTATAATA
1 ATATATATTATAATA
52610612 ATATA-ATT-TAATA
1 ATATATATTATAATA
52610625 ATATA
1 ATATA
52610630 CTTATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATATTATAATA
Found at i:52610731 original size:4 final size:4
Alignment explanation
Indices: 52610722--52610760 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
52610712 TGTCAAACTT
*
52610722 TTAA TTAA TTAA TTAA TTAA TTTACA TTAT TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA -TTA-A TTAA TTAA TTAA T
52610761 ATAAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.77
5 6 0.19
6 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:52615306 original size:17 final size:17
Alignment explanation
Indices: 52615281--52615314 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52615271 TTTAATTCAA
*
52615281 CATATATCAATCAAAAT
1 CATAAATCAATCAAAAT
*
52615298 CATAAATCAATTAAAAT
1 CATAAATCAATCAAAAT
52615315 TTATCCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (17 bp):
CATAAATCAATCAAAAT
Found at i:52615704 original size:24 final size:24
Alignment explanation
Indices: 52615672--52615720 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52615662 AAAGAAGATA
52615672 GATAATCTAGTTTTTTCTCATGTG
1 GATAATCTAGTTTTTTCTCATGTG
52615696 GATAATCTAGTTTTTTCTCATGTG
1 GATAATCTAGTTTTTTCTCATGTG
52615720 G
1 G
52615721 CACGGCCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.49
Consensus pattern (24 bp):
GATAATCTAGTTTTTTCTCATGTG
Found at i:52623069 original size:24 final size:25
Alignment explanation
Indices: 52623027--52623074 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
52623017 ACACAAACGC
52623027 AGCTCTTCATGAGCGTCCTGATATA
1 AGCTCTTCATGAGCGTCCTGATATA
*
52623052 AGCTCTT-ATGAGCTTCCTGATAT
1 AGCTCTTCATGAGCGTCCTGATAT
52623075 GGCTCGCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTCTTCATGAGCGTCCTGATATA
Found at i:52628114 original size:17 final size:17
Alignment explanation
Indices: 52628092--52628124 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
52628082 GTGTGGTTCA
52628092 CCTGTGTGGCCCACACG
1 CCTGTGTGGCCCACACG
52628109 CCTGTGTGGCCCACAC
1 CCTGTGTGGCCCACAC
52628125 AGCCCAATTG
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:0.12, C:0.42, G:0.27, T:0.18
Consensus pattern (17 bp):
CCTGTGTGGCCCACACG
Found at i:52630975 original size:26 final size:26
Alignment explanation
Indices: 52630944--52631051 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
52630934 TGAAATGCCC
*
52630944 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
52630970 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
52630996 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52631022 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52631048 ATCA
1 ATCA
52631052 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52632635 original size:22 final size:19
Alignment explanation
Indices: 52632610--52632651 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
52632600 TGATAATAAC
52632610 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
52632632 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
52632651 T
1 T
52632652 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:52632642 original size:16 final size:15
Alignment explanation
Indices: 52632610--52632648 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
52632600 TGATAATAAC
52632610 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
52632626 TTATTATAATATATAT
1 TAATTATAAT-TATAT
52632642 TAATTAT
1 TAATTAT
52632649 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:52634277 original size:9 final size:9
Alignment explanation
Indices: 52634263--52634299 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
52634253 TATAGTTTGA
52634263 TATTCGAAT
1 TATTCGAAT
52634272 TATTCGAAT
1 TATTCGAAT
*
52634281 TATTCGAGT
1 TATTCGAAT
*
52634290 TATTTGAAT
1 TATTCGAAT
52634299 T
1 T
52634300 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:52634366 original size:9 final size:9
Alignment explanation
Indices: 52634352--52634384 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
52634342 ATTCGAGTTG
52634352 ACTCGAATA
1 ACTCGAATA
*
52634361 ACTCGATTA
1 ACTCGAATA
52634370 ACTCGAATA
1 ACTCGAATA
52634379 ACTCGA
1 ACTCGA
52634385 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:52634375 original size:18 final size:18
Alignment explanation
Indices: 52634352--52634386 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
52634342 ATTCGAGTTG
52634352 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
52634370 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
52634387 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:52634690 original size:25 final size:26
Alignment explanation
Indices: 52634634--52634691 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
52634624 ATTTTTCTCC
* *
52634634 TAAA-TTTCAAATTTATTTAGTTAAT
1 TAAATTTTCAAATTTATTGAATTAAT
52634659 TAAATTTTC-AATTTATTGAATT-AT
1 TAAATTTTCAAATTTATTGAATTAAT
52634683 TAATATTTT
1 TAA-ATTTT
52634692 ATGCAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (26 bp):
TAAATTTTCAAATTTATTGAATTAAT
Found at i:52640792 original size:131 final size:131
Alignment explanation
Indices: 52640633--52640895 Score: 526
Period size: 131 Copynumber: 2.0 Consensus size: 131
52640623 CAACTTCAAG
52640633 TTGTTCAAAAAATGTTACCATCTTTTGAGACTAGAGATAGTTAGTTTTGTCGAGAGGAGCGAGCT
1 TTGTTCAAAAAATGTTACCATCTTTTGAGACTAGAGATAGTTAGTTTTGTCGAGAGGAGCGAGCT
52640698 TGGAAAGATCAGGAATGAATTTGTTCATTATGGTGGACATGTTTTGAATAGTAGTATGAATTTAC
66 TGGAAAGATCAGGAATGAATTTGTTCATTATGGTGGACATGTTTTGAATAGTAGTATGAATTTAC
52640763 T
131 T
52640764 TTGTTCAAAAAATGTTACCATCTTTTGAGACTAGAGATAGTTAGTTTTGTCGAGAGGAGCGAGCT
1 TTGTTCAAAAAATGTTACCATCTTTTGAGACTAGAGATAGTTAGTTTTGTCGAGAGGAGCGAGCT
52640829 TGGAAAGATCAGGAATGAATTTGTTCATTATGGTGGACATGTTTTGAATAGTAGTATGAATTTAC
66 TGGAAAGATCAGGAATGAATTTGTTCATTATGGTGGACATGTTTTGAATAGTAGTATGAATTTAC
52640894 T
131 T
52640895 T
1 T
52640896 CTAAATTGTT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (131 bp):
TTGTTCAAAAAATGTTACCATCTTTTGAGACTAGAGATAGTTAGTTTTGTCGAGAGGAGCGAGCT
TGGAAAGATCAGGAATGAATTTGTTCATTATGGTGGACATGTTTTGAATAGTAGTATGAATTTAC
T
Found at i:52641485 original size:14 final size:14
Alignment explanation
Indices: 52641439--52641489 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
52641429 TCAAAAAATT
*
52641439 CAACGGTCATATTA
1 CAACAGTCATATTA
*
52641453 CAACAGTC-TGATTC
1 CAACAGTCAT-ATTA
52641467 CAACAGTCATATTA
1 CAACAGTCATATTA
*
52641481 TAACAGTCA
1 CAACAGTCA
52641490 AATTCCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.03
14 29 0.94
15 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (14 bp):
CAACAGTCATATTA
Found at i:52641494 original size:28 final size:28
Alignment explanation
Indices: 52641434--52641496 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
52641424 ATGATTCAAA
*
52641434 AAATT-CAACGGTCATATTACAACAGTC
1 AAATTCCAACAGTCATATTACAACAGTC
** *
52641461 TGATTCCAACAGTCATATTATAACAGTC
1 AAATTCCAACAGTCATATTACAACAGTC
52641489 AAATTCCA
1 AAATTCCA
52641497 GCAACTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (28 bp):
AAATTCCAACAGTCATATTACAACAGTC
Found at i:52647976 original size:41 final size:41
Alignment explanation
Indices: 52647847--52648131 Score: 292
Period size: 41 Copynumber: 7.0 Consensus size: 41
52647837 GTAAAACACA
* * * * *
52647847 GAGCAATAGCGGCGTTTTTGTTAACA-TGCCACTAAAA-ACG
1 GAGCAATAGCGGCGCTTTTGGTAAAACT-CCGCTAAAAGTCG
* * * * * *
52647887 GAGCAATAGCGACGTTTTTTGTTAAAACACCGCTAAAA-ACA
1 GAGCAATAGCGGCG-CTTTTGGTAAAACTCCGCTAAAAGTCG
* * *
52647928 GATCAATAGCGGCACTTTTGGTAAAACTCTGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACTCCGCTAAAAGTCG
52647969 GAGCAATAGCGGCGCTTTTGGTAAAA-TGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACT-CCGCTAAAAGTCG
* * *
52648010 GAGCAATAGCGGCGCTTCTGATAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACTCCGCTAAAAGTCG
* * * * *
52648051 GAGTAGTAGTGGCGCTTCTGATAAAACGT-CGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAAC-TCCGCTAAAAGTCG
*
52648092 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAACTCCGCTAAAAGTC
52648132 ATATAATCCC
Statistics
Matches: 208, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
40 33 0.16
41 175 0.84
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACTCCGCTAAAAGTCG
Found at i:52648035 original size:82 final size:82
Alignment explanation
Indices: 52647847--52648131 Score: 322
Period size: 82 Copynumber: 3.5 Consensus size: 82
52647837 GTAAAACACA
* * * * * * * * *
52647847 GAGCAATAGCGGCGTTTTTGTTAACATGCCACTAAAA-ACGGAGCAATAGCGACGTTTTTTGTTA
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCG-CTTTTGATA
* * *
52647911 AAACACCGCTAAAA-ACA
65 AAACGCCGCTAAAAGTCG
* * * * *
52647928 GATCAATAGCGGCACTTTTGGTAAAACTCTGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAA
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGATAA
*
52647993 AATGCCGCTAAAAGTCG
66 AACGCCGCTAAAAGTCG
* * * * * *
52648010 GAGCAATAGCGGCGCTTCTGATAAAACGCCGCTAAAAGTCGGAGTAGTAGTGGCGCTTCTGATAA
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGATAA
*
52648075 AACGTCGCTAAAAGTCG
66 AACGCCGCTAAAAGTCG
52648092 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
52648132 ATATAATCCC
Statistics
Matches: 170, Mismatches: 32, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
81 47 0.28
82 123 0.72
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (82 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGATAA
AACGCCGCTAAAAGTCG
Found at i:52648104 original size:123 final size:123
Alignment explanation
Indices: 52647847--52648131 Score: 353
Period size: 123 Copynumber: 2.3 Consensus size: 123
52647837 GTAAAACACA
* * * * * * * *
52647847 GAGCAATAGCGGCGTTTTTGTTAACATGCCACTAAAA-ACGGAGCAATAGCGACGTTTTTTGTTA
1 GAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTCGGAGCAATAGCGACGTCTTCTGATA
* *
52647911 AAACACCGCTAAAAACAGATCAATAGCGGCACTTTTGGTAAAACTCTGCTAAAAGTCG
66 AAACACCGCTAAAAACAGATCAATAGCGGCACTTCTGATAAAACTCTGCTAAAAGTCG
*
52647969 GAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTCGGAGCAATAGCGGCG-CTTCTGATA
1 GAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTCGGAGCAATAGCGACGTCTTCTGATA
* * * * * *
52648033 AAACGCCGCTAAAAGTCGGAGT-AGTAGTGGCGCTTCTGATAAAACGTC-GCTAAAAGTCG
66 AAACACCGCTAAAA-ACAGA-TCAATAGCGGCACTTCTGATAAAAC-TCTGCTAAAAGTCG
*
52648092 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTC
52648132 ATATAATCCC
Statistics
Matches: 141, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
122 52 0.37
123 86 0.61
124 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (123 bp):
GAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTCGGAGCAATAGCGACGTCTTCTGATA
AAACACCGCTAAAAACAGATCAATAGCGGCACTTCTGATAAAACTCTGCTAAAAGTCG
Found at i:52648431 original size:15 final size:15
Alignment explanation
Indices: 52648387--52648437 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
52648377 CGGTTTAATA
*
52648387 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
52648401 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
52648416 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
52648431 TTAATGG
1 TTTATGG
52648438 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:52649028 original size:7 final size:7
Alignment explanation
Indices: 52649018--52649088 Score: 58
Period size: 7 Copynumber: 10.3 Consensus size: 7
52649008 CATTAAACCG
52649018 AAATAAA
1 AAATAAA
52649025 AAAT--A
1 AAATAAA
*
52649030 AACTCAAA
1 AAAT-AAA
52649038 AAAT-AA
1 AAATAAA
52649044 AAATAAAA
1 AAAT-AAA
*
52649052 AAATTAA
1 AAATAAA
* *
52649059 AATTTAA
1 AAATAAA
52649066 AAATAAA
1 AAATAAA
*
52649073 AATTAAA
1 AAATAAA
52649080 AAATAAA
1 AAATAAA
52649087 AA
1 AA
52649089 CTTAAAAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
5 4 0.08
6 6 0.12
7 31 0.61
8 10 0.20
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATAAA
Found at i:52649052 original size:14 final size:14
Alignment explanation
Indices: 52649021--52649096 Score: 91
Period size: 14 Copynumber: 5.4 Consensus size: 14
52649011 TAAACCGAAA
*
52649021 TAAAAAAT-AAACT
1 TAAAAAATAAAAAT
*
52649034 CAAAAAATAAAAAT
1 TAAAAAATAAAAAT
* *
52649048 AAAAAAATTAAAAT
1 TAAAAAATAAAAAT
*
52649062 TTAAAAATAAAAAT
1 TAAAAAATAAAAAT
52649076 TAAAAAATAAAAACT
1 TAAAAAATAAAAA-T
52649091 TAAAAA
1 TAAAAA
52649097 TTTAAAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
13 7 0.13
14 39 0.74
15 7 0.13
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAAATAAAAAT
Found at i:52649066 original size:22 final size:21
Alignment explanation
Indices: 52649041--52649108 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 21
52649031 ACTCAAAAAA
52649041 TAAAAATAAAAAAATTAAAATT
1 TAAAAAT-AAAAAATTAAAATT
**
52649063 TAAAAAT-AAAAATTAAAAAA
1 TAAAAATAAAAAATTAAAATT
*
52649083 TAAAAACTTAAAAATTTAAAATT
1 TAAAAA--TAAAAAATTAAAATT
52649106 TAA
1 TAA
52649109 TATTTTAGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
20 17 0.45
22 8 0.21
23 13 0.34
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAATAAAAAATTAAAATT
Found at i:52649094 original size:8 final size:7
Alignment explanation
Indices: 52649035--52649105 Score: 72
Period size: 7 Copynumber: 10.0 Consensus size: 7
52649025 AAATAAACTC
*
52649035 AAAAAAT
1 AAAAATT
*
52649042 AAAAATAA
1 AAAAAT-T
52649050 AAAAATT
1 AAAAATT
*
52649057 AAAATTT
1 AAAAATT
52649064 AAAAA-T
1 AAAAATT
52649070 AAAAATT
1 AAAAATT
*
52649077 AAAAAAT
1 AAAAATT
52649084 AAAAACTT
1 AAAAA-TT
52649092 AAAAATT
1 AAAAATT
*
52649099 TAAAATT
1 AAAAATT
52649106 TAATATTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
6 6 0.11
7 35 0.66
8 12 0.23
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:52649192 original size:18 final size:16
Alignment explanation
Indices: 52649171--52649208 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
52649161 TCCAAAAGAG
52649171 AAAAATAAAAAATATGTT
1 AAAAATAAAAAA-AT-TT
52649189 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
52649205 AAAA
1 AAAA
52649209 TTAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:52655533 original size:19 final size:19
Alignment explanation
Indices: 52655511--52655551 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
52655501 TTTATTGATA
52655511 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
52655529 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
52655548 TTTT
1 TTTT
52655552 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:52661968 original size:68 final size:67
Alignment explanation
Indices: 52661896--52662045 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
52661886 CATCATGTGT
* * * *
52661896 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
52661958 ATGTAG
62 ATGTAG
** * *
52661964 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
52662029 AG
66 AG
52662031 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
52662046 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:52662001 original size:64 final size:64
Alignment explanation
Indices: 52661920--52662103 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
52661910 AGACATTATG
* *
52661920 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
52661984 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
52662049 AA
63 AA
* * * *
52662051 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
52662104 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:52664010 original size:50 final size:50
Alignment explanation
Indices: 52663949--52664183 Score: 303
Period size: 50 Copynumber: 4.7 Consensus size: 50
52663939 AGGTCACGTA
52663949 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGTATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGTATG
* * * * * *
52663999 TGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAGCTTCGATC-AAGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCGTA-TG
* * * * * *
52664049 TGCAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCATGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGTATG
*
52664099 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGTATG
* *
52664149 TGTAGTACTAAGTGCAGGCTACTATGAGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
52664184 GAGCTTCGGT
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 5 0.03
50 147 0.94
51 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGTATG
Found at i:52669890 original size:2 final size:2
Alignment explanation
Indices: 52669877--52669918 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
52669867 AATACTTCTT
* * *
52669877 TC TC TT TC TC TC TC TC TC TC TT TC TC TC TC TC TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
52669919 AAAATGTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (2 bp):
TC
Found at i:52669890 original size:10 final size:10
Alignment explanation
Indices: 52669872--52669918 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
52669862 GGAAGAATAC
*
52669872 TTCTTTCTCT
1 TTCTCTCTCT
52669882 TTCTCTCTC-
1 TTCTCTCTCT
52669891 -TCTCTCT-T
1 TTCTCTCTCT
52669899 TCTCTCTCTCT
1 T-TCTCTCTCT
52669910 TTCTCTCTC
1 TTCTCTCTC
52669919 AAAATGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
8 7 0.22
10 23 0.72
11 2 0.06
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (10 bp):
TTCTCTCTCT
Found at i:52669902 original size:12 final size:12
Alignment explanation
Indices: 52669873--52669918 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
52669863 GAAGAATACT
52669873 TCTTTCTCT-T-
1 TCTTTCTCTCTC
*
52669883 TCTCTCTCTCTC
1 TCTTTCTCTCTC
52669895 TCTTTCTCTCTC
1 TCTTTCTCTCTC
52669907 TCTTTCTCTCTC
1 TCTTTCTCTCTC
52669919 AAAATGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 8 0.25
11 1 0.03
12 23 0.72
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTTCTCTCTC
Found at i:52669918 original size:16 final size:16
Alignment explanation
Indices: 52669877--52669909 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52669867 AATACTTCTT
52669877 TCTCTTTCTCTCTCTC
1 TCTCTTTCTCTCTCTC
52669893 TCTCTTTCTCTCTCTC
1 TCTCTTTCTCTCTCTC
52669909 T
1 T
52669910 TTCTCTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTCTTTCTCTCTCTC
Found at i:52687668 original size:25 final size:23
Alignment explanation
Indices: 52687631--52687676 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
52687621 TTTGTTTTAA
*
52687631 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
52687654 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
52687677 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:52691310 original size:180 final size:180
Alignment explanation
Indices: 52690988--52691353 Score: 651
Period size: 180 Copynumber: 2.0 Consensus size: 180
52690978 GGACCAATTG
*
52690988 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACTATTAT
1 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
* * *
52691053 ACCGTTAATGGCAATTAACACTCAATGACTAAAATGTTACAACACGATAACGTAAGTGACTAAAA
66 ACCGTTAATGACAATTAACACTCAATGACTAAAATATTACAACACGATAACGTAAATGACTAAAA
* * *
52691118 TATTATATGAGAGAAACAAAAGTGATTATTTTGATAGTTTACCCATGTAA
131 TATAACATGAGAGAAACAAAAATGATTATTTTGATAGTTTACCCATGTAA
52691168 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
1 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
*
52691233 ACCGTTAATGACAATTAACACTCAATGACTAAAATATTACAACACGATAACGTAAATGATTAAAA
66 ACCGTTAATGACAATTAACACTCAATGACTAAAATATTACAACACGATAACGTAAATGACTAAAA
*
52691298 TGTAACATGAGAGAAACAAAAATGATTATTTTGATAGTTTACCCATGTAA
131 TATAACATGAGAGAAACAAAAATGATTATTTTGATAGTTTACCCATGTAA
52691348 TATAAT
1 TATAAT
52691354 ACACTATACT
Statistics
Matches: 177, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (180 bp):
TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
ACCGTTAATGACAATTAACACTCAATGACTAAAATATTACAACACGATAACGTAAATGACTAAAA
TATAACATGAGAGAAACAAAAATGATTATTTTGATAGTTTACCCATGTAA
Found at i:52700552 original size:46 final size:44
Alignment explanation
Indices: 52700452--52700559 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
52700442 TGTCTTTGAC
** * * * *
52700452 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTACAAAGCCATATATAAT
*
52700496 ATGGACTTACATGGCTCAATCCTGTCTACAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTACAAAGCCATA--TATAAT
52700542 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
52700560 TTTCTGTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTACAAAGCCATATATAAT
Found at i:52707911 original size:46 final size:44
Alignment explanation
Indices: 52707808--52707915 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
52707798 TGTCTTTGAC
** * * **
52707808 ATGGACTTACATGAATTATTCCTGTCTCCAATTCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
52707852 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
52707898 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
52707916 TTTCTGTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:52709854 original size:14 final size:14
Alignment explanation
Indices: 52709835--52709861 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52709825 TAAATACTTG
52709835 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
52709849 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
52709862 GCTTGAGTTA
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:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:52714977 original size:43 final size:43
Alignment explanation
Indices: 52714930--52715064 Score: 118
Period size: 43 Copynumber: 3.1 Consensus size: 43
52714920 TTTTCCCTCT
52714930 TTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTC
1 TTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTC
* * * ** * *
52714973 TTCCCCTCTGTCCGTTTTCTTTCTCTT-CTTTC--AA-TC-GTTCCTC
1 TT-CCCACT-T-C-TTTT-ATTCTTTTGCTGCCGAAATTCTCTTACTC
52715016 TTTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTC
1 -TTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTC
52715060 TTCCC
1 TTCCC
52715065 CTCTGTCCGT
Statistics
Matches: 67, Mismatches: 14, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
39 6 0.09
40 7 0.10
41 1 0.01
42 3 0.04
43 19 0.28
44 14 0.21
45 3 0.04
46 1 0.01
47 7 0.10
48 6 0.09
ACGTcount: A:0.10, C:0.33, G:0.07, T:0.50
Consensus pattern (43 bp):
TTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTC
Found at i:52714993 original size:44 final size:44
Alignment explanation
Indices: 52714945--52715081 Score: 129
Period size: 44 Copynumber: 3.1 Consensus size: 44
52714935 ACTTCTTTTA
52714945 TTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTT
1 TTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTT
* *** * * * * **
52714989 TTCTTTCT-CTTCTTTCAA-TC-GTTCCTCTTTCCCACT-TCTTTT
1 TTCTTT-TGCTGC-CGAAATTCTCTTACTCTTCCCCTCTGTCCGTT
52715031 ATTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTT
1 -TTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTT
52715076 TTCTTT
1 TTCTTT
52715082 CTCTTCTTTC
Statistics
Matches: 66, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
42 7 0.11
43 23 0.35
44 29 0.44
45 7 0.11
ACGTcount: A:0.09, C:0.33, G:0.08, T:0.50
Consensus pattern (44 bp):
TTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTT
Found at i:52715027 original size:87 final size:87
Alignment explanation
Indices: 52714925--52715101 Score: 354
Period size: 87 Copynumber: 2.0 Consensus size: 87
52714915 ATTCTTTTTC
52714925 CCTCTTTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTTT
1 CCTCTTTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTTT
52714990 TCTTTCTCTTCTTTCAATCGTT
66 TCTTTCTCTTCTTTCAATCGTT
52715012 CCTCTTTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTTT
1 CCTCTTTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTTT
52715077 TCTTTCTCTTCTTTCAATCGTT
66 TCTTTCTCTTCTTTCAATCGTT
52715099 CCT
1 CCT
52715102 ATTGTTTATC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.09, C:0.34, G:0.07, T:0.50
Consensus pattern (87 bp):
CCTCTTTCCCACTTCTTTTATTCTTTTGCTGCCGAAATTCTCTTACTCTTCCCCTCTGTCCGTTT
TCTTTCTCTTCTTTCAATCGTT
Found at i:52720362 original size:55 final size:55
Alignment explanation
Indices: 52720258--52720392 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 55
52720248 ATGTAGGCCC
* * * * * *
52720258 ACGCCCATGTT-AGTTTAACAGGTTCGACCACGGTTTCTTGGCACTGGCGTGTCGA
1 ACGCCCACGTTGA-TTTGACAGGTTCGACCACGGGTTCTAGACACGGGCGTGTCGA
* * *
52720313 ATGCCCGCGTTGATTTGACAGGTTCGGCCACGGGTTCTAGACACGGGCGTGTCGA
1 ACGCCCACGTTGATTTGACAGGTTCGACCACGGGTTCTAGACACGGGCGTGTCGA
* * *
52720368 ACGCCCATGTTGTTTTGGCAGGTTC
1 ACGCCCACGTTGATTTGACAGGTTC
52720393 ACCCATGGCC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
55 64 0.98
56 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.28
Consensus pattern (55 bp):
ACGCCCACGTTGATTTGACAGGTTCGACCACGGGTTCTAGACACGGGCGTGTCGA
Found at i:52722310 original size:46 final size:45
Alignment explanation
Indices: 52722209--52722302 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 45
52722199 TGTAACCCGC
* * *
52722209 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TCGCAA
* *
52722255 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTCGCAA
52722299 CCAT
1 CCAT
52722303 TCTAGTGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 7 0.16
46 36 0.84
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTCGCAA
Found at i:52729771 original size:46 final size:46
Alignment explanation
Indices: 52729670--52729757 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
52729660 TGTAACCCGC
* * *
52729670 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCCCAT
* *
52729716 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC
52729758 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCCCAT
Found at i:52750675 original size:142 final size:141
Alignment explanation
Indices: 52750419--52750876 Score: 510
Period size: 142 Copynumber: 3.2 Consensus size: 141
52750409 TTAGGGGCTG
* * *
52750419 CGATTTTTCACCTGCAAGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTAACTGTGTTAG
1 CGATTTTTCACCTGTAAGCCTTAATATGATAGCTGAGAGTTTGTAACTCTCGCTAACTGTGTTAG
* * * * * *
52750484 AGGATGTGGTTTTTTACCTACAAGCCTTAATATGACAGTTAGGAGTTTGTAACTTTCACTAATTG
66 AGGCTGTGGTTTTTCACCTGCAAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCACTAACTG
52750549 TGTTGGAAGCT
131 TGTTGGAAGCT
* * * *
52750560 ACGATTTTTCACCTGTGACCCTTAATATGATAGCTG-GAAGTTTGTAACTCTCG-TCAACTATAT
1 -CGATTTTTCACCTGTAAGCCTTAATATGATAGCTGAG-AGTTTGTAACTCTCGCT-AACTGTGT
* * * **
52750623 TAGAGGCTGTGGTTTTTCACTTGCGAGCCCTAATATGACAGTTGGGAGTTTGTAACTATCGGTAA
63 TAGAGGCTGTGGTTTTTCACCTGCAAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCACTAA
* *
52750688 CTATGTTGGAGGCT
128 CTGTGTTGGAAGCT
* * * * *
52750702 GCGATTTTTCACTTATAAGCCTTAATATGATAGCTGAGAGTTTGGAACTCTTGCTAACTGTGTTG
1 -CGATTTTTCACCTGTAAGCCTTAATATGATAGCTGAGAGTTTGTAACTCTCGCTAACTGTGTTA
* * ** * * * *
52750767 GAGGCTGCGGTCTTTCACCTGCAAGATTTAATATGATAGTTGGGAGTTTCTAGCTCT-AGCTAAC
65 GAGGCTGTGGTTTTTCACCTGCAAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCA-CTAAC
52750831 TGTGTTGGAAGCT
129 TGTGTTGGAAGCT
* *
52750844 -GTAGTTTTTCACCTGTGAGCTTTAATATGATAG
1 CG-A-TTTTTCACCTGTAAGCCTTAATATGATAG
52750877 TTGGGTGACT
Statistics
Matches: 260, Mismatches: 49, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
140 1 0.00
141 3 0.01
142 254 0.98
143 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (141 bp):
CGATTTTTCACCTGTAAGCCTTAATATGATAGCTGAGAGTTTGTAACTCTCGCTAACTGTGTTAG
AGGCTGTGGTTTTTCACCTGCAAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCACTAACTG
TGTTGGAAGCT
Found at i:52750853 original size:213 final size:213
Alignment explanation
Indices: 52750422--52750881 Score: 503
Period size: 213 Copynumber: 2.2 Consensus size: 213
52750412 GGGGCTGCGA
* * * *
52750422 TTTTTCACCTGCAAGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTAACTGTGTTAGAGG
1 TTTTTCACCTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGCTAACTATGTTAGAGG
* * * * * *
52750487 ATGTGGTTTTTTACCTACAAGCCTTAATATGACAGTTAGGAGTTTGTAACTTTCACTAATTGTGT
66 ATGCGATTTTTCACCTACAAGCCTTAATATGACAGTGAGGAGTTTGGAACTTTCACTAACTGTGT
* ** * * *
52750552 TGGAAGCTACGATTTTTCACCTGTGACCCTTAATATGATAGCTGGAAGTTTGTAACTCTCGTCAA
131 TGGAAGCTACGATCTTTCACCTGCAACACTTAATATGATAGCTGGAAGTTTCTAACTCTAGTCAA
* *
52750617 CTATATTAGAGGCTGTGG
196 CTATATTAGAAGCTGTAG
* * * *
52750635 TTTTTCACTTGCGAGCCCTAATATGACAGTTGGGAGTTTGTAACTATCGGTAACTATGTTGGAGG
1 TTTTTCACCTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGCTAACTATGTTAGAGG
* * * * *
52750700 CTGCGATTTTTCACTTATAAGCCTTAATATGATAGCTGA-GAGTTTGGAACTCTT-GCTAACTGT
66 ATGCGATTTTTCACCTACAAGCCTTAATATGACAG-TGAGGAGTTTGGAACT-TTCACTAACTGT
* * * * * * * *
52750763 GTTGGAGGCTGCGGTCTTTCACCTGCAAGATTTAATATGATAGTTGGGAGTTTCTAGCTCTAG-C
129 GTTGGAAGCTACGATCTTTCACCTGCAACACTTAATATGATAGCTGGAAGTTTCTAACTCTAGTC
* * *
52750827 TAACTGTGTTGGAAGCTGTAG
194 -AACTATATTAGAAGCTGTAG
* * *
52750848 TTTTTCACCTGTGAGCTTTAATATGATAGTTGGG
1 TTTTTCACCTGCGAGCCTTAATATGACAGTTGGG
52750882 TGACTAGGGG
Statistics
Matches: 201, Mismatches: 43, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
212 1 0.00
213 196 0.98
214 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (213 bp):
TTTTTCACCTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGCTAACTATGTTAGAGG
ATGCGATTTTTCACCTACAAGCCTTAATATGACAGTGAGGAGTTTGGAACTTTCACTAACTGTGT
TGGAAGCTACGATCTTTCACCTGCAACACTTAATATGATAGCTGGAAGTTTCTAACTCTAGTCAA
CTATATTAGAAGCTGTAG
Found at i:52750880 original size:71 final size:71
Alignment explanation
Indices: 52750422--52750881 Score: 445
Period size: 71 Copynumber: 6.5 Consensus size: 71
52750412 GGGGCTGCGA
* * *
52750422 TTTTTCACCTGCAAGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTAACTGTGTTAGAGG
1 TTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGG
*
52750487 ATGTGG
66 CTGTGG
* * * * * * * *
52750493 TTTTTTACCTACAAGCCTTAATATGACAGTTAGGAGTTTGTAACTTTCACTAATTGTGTTGGAAG
1 TTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGG
** *
52750558 CTACGA
66 CTGTGG
** * * * * * *
52750564 TTTTTCACCTGTGACCCTTAATATGATAGCTGGAAGTTTGTAACTCTCG-TCAACTATATTAGAG
1 TTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCT-AACTGTGTTGGAG
52750628 GCTGTGG
65 GCTGTGG
* * * * * * *
52750635 TTTTTCACTTGCGAGCCCTAATATGACAGTTGGGAGTTTGTAACTATCGGTAACTATGTTGGAGG
1 TTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGG
* *
52750700 CTGCGA
66 CTGTGG
* ** * * * *
52750706 TTTTTCACTTATAAGCCTTAATATGATAGCTGAGAGTTTGGAACTCTTGCTAACTGTGTTGGAGG
1 TTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGG
*
52750771 CTGCGG
66 CTGTGG
* ** * * * *
52750777 TCTTTCACCTGCAAGATTTAATATGATAGTTGGGAGTTTCTAGCTCTAGCTAACTGTGTTGGAAG
1 TTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGG
*
52750842 CTGTAG
66 CTGTGG
** *
52750848 TTTTTCACCTGTGAGCTTTAATATGATAGTTGGG
1 TTTTTCACCTGCAAGCCTTAATATGATAGTTGGG
52750882 TGACTAGGGG
Statistics
Matches: 311, Mismatches: 76, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
70 1 0.00
71 309 0.99
72 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGG
CTGTGG
Found at i:52755600 original size:12 final size:12
Alignment explanation
Indices: 52755570--52755609 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
52755560 TACTCTCAAG
*
52755570 TTTTATTTTGTTA
1 TTTTATTTT-TTC
52755583 TTTTATTTTTTC
1 TTTTATTTTTTC
*
52755595 TTTTATTTTTAC
1 TTTTATTTTTTC
52755607 TTT
1 TTT
52755610 CGAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTC
Found at i:52758678 original size:48 final size:48
Alignment explanation
Indices: 52758616--52758896 Score: 508
Period size: 48 Copynumber: 5.9 Consensus size: 48
52758606 TATATATGTG
52758616 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
52758664 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
52758712 TGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
52758760 CGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
52758808 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
52758856 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
52758897 GTGTGTATAT
Statistics
Matches: 224, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 224 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:52759087 original size:37 final size:37
Alignment explanation
Indices: 52759037--52759139 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
52759027 GGAAATATAT
52759037 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52759074 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52759111 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
52759140 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52760755 original size:17 final size:17
Alignment explanation
Indices: 52760733--52760766 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52760723 TTAATTTCCC
*
52760733 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
52760750 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
52760767 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:52761086 original size:26 final size:27
Alignment explanation
Indices: 52761057--52761112 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
52761047 TTTAAACTCC
*
52761057 TTTACATATTATTTATTTTAAA-TATT
1 TTTACATATTATTTACTTTAAACTATT
* *
52761083 TTTATATTTTATTTACTTTAAACTATT
1 TTTACATATTATTTACTTTAAACTATT
52761110 TTT
1 TTT
52761113 TTTATATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTACATATTATTTACTTTAAACTATT
Found at i:52761403 original size:25 final size:24
Alignment explanation
Indices: 52761365--52761427 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
52761355 ATATTATTTT
52761365 ATTGTTTTGAATATTAATGATTTTTAA
1 ATTGTTTT--ATATTAATGA-TTTTAA
* *
52761392 ATTGTTTTATATTATTTATTTTAA
1 ATTGTTTTATATTAATGATTTTAA
52761416 ATTGCTTTTATA
1 ATTG-TTTTATA
52761428 GTATCTCTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.30
25 15 0.45
27 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
ATTGTTTTATATTAATGATTTTAA
Found at i:52761441 original size:25 final size:24
Alignment explanation
Indices: 52761389--52761441 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
52761379 TAATGATTTT
* * *
52761389 TAAATTGTTTTATATTATTTATTT
1 TAAATTGTTTTATAGTATCTATTC
*
52761413 TAAATTGCTTTTATAGTATCTCTTC
1 TAAATTG-TTTTATAGTATCTATTC
52761438 TAAA
1 TAAA
52761442 CCTTTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (24 bp):
TAAATTGTTTTATAGTATCTATTC
Found at i:52764697 original size:25 final size:25
Alignment explanation
Indices: 52764668--52764718 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
52764658 CAAGGGAAAA
**
52764668 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
52764693 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
52764718 T
1 T
52764719 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:52769365 original size:25 final size:25
Alignment explanation
Indices: 52769336--52769386 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
52769326 CAAGGGAAAA
**
52769336 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
52769361 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
52769386 T
1 T
52769387 TTATACGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:52781755 original size:25 final size:27
Alignment explanation
Indices: 52781707--52781758 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52781697 TAAATAAAAA
* *
52781707 ATTTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAAACATAATAAATCAAATAT
52781734 ATTTAAAAAACATAA-AAA-CAAATAT
1 ATTTAAAAAACATAATAAATCAAATAT
52781759 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 3 0.13
27 13 0.57
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (27 bp):
ATTTAAAAAACATAATAAATCAAATAT
Found at i:52781770 original size:22 final size:22
Alignment explanation
Indices: 52781736--52781787 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
52781726 TCAAATATAT
52781736 TTAAAA-AACATAAAAACAAATA
1 TTAAAACAACATAAAAA-AAATA
*
52781758 TTAAAACAA-ATAAAAATAATA
1 TTAAAACAACATAAAAAAAATA
*
52781779 CTAAAACAA
1 TTAAAACAA
52781788 TTTTTAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 13 0.48
23 2 0.07
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (22 bp):
TTAAAACAACATAAAAAAAATA
Found at i:52781772 original size:21 final size:20
Alignment explanation
Indices: 52781740--52781787 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
52781730 ATATATTTAA
* *
52781740 AAAACATAAAAACA-AATATT
1 AAAACA-AAAAAAATAATACT
52781760 AAAACAAATAAAAATAATACT
1 AAAACAAA-AAAAATAATACT
52781781 AAAACAA
1 AAAACAA
52781788 TTTTTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAAAAAAAATAATACT
Found at i:52784061 original size:52 final size:52
Alignment explanation
Indices: 52783999--52784102 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
52783989 TCTAGGACTT
52783999 TGAGTAAATGGAGATTGACATTCAACACCAACATTTTGAGGAAATCTAAAAA
1 TGAGTAAATGGAGATTGACATTCAACACCAACATTTTGAGGAAATCTAAAAA
52784051 TGAGTAAATGGAGATTGACATTCAACACCAACATTTTGAGGAAATCTAAAAA
1 TGAGTAAATGGAGATTGACATTCAACACCAACATTTTGAGGAAATCTAAAAA
52784103 ATATTCATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.25
Consensus pattern (52 bp):
TGAGTAAATGGAGATTGACATTCAACACCAACATTTTGAGGAAATCTAAAAA
Found at i:52793031 original size:29 final size:29
Alignment explanation
Indices: 52792972--52793031 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
52792962 ACACATTAGG
*
52792972 ATAAATAAAAATATTTAAATATCTTAAAA
1 ATAAATAAAAATATTTAAATATCTAAAAA
*
52793001 ATAAATAAGTAATATTT-AATAT-TAAATAA
1 ATAAATAA-AAATATTTAAATATCTAAA-AA
52793030 AT
1 AT
52793032 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
30 7 0.26
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (29 bp):
ATAAATAAAAATATTTAAATATCTAAAAA
Found at i:52803095 original size:14 final size:14
Alignment explanation
Indices: 52803060--52803124 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
52803050 CTGCACAATT
* *
52803060 AATAACATGATTAT
1 AATAACATGAATAA
*
52803074 AATGACATGAATAA
1 AATAACATGAATAA
52803088 AATAACAT-AACTAA
1 AATAACATGAA-TAA
52803102 AATAGTACATGACATAA
1 AATA--ACATGA-ATAA
52803119 ATATAA
1 A-ATAA
52803125 TTTTATTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 2 0.05
14 25 0.61
16 5 0.12
17 5 0.12
18 4 0.10
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.26
Consensus pattern (14 bp):
AATAACATGAATAA
Found at i:52808299 original size:20 final size:19
Alignment explanation
Indices: 52808276--52808317 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
52808266 AGATTATATA
52808276 TATTAT-ATTATATAATTGAT
1 TATTATAATTAT-TAATTG-T
52808296 TATTATAATTATTAATTGT
1 TATTATAATTATTAATTGT
52808315 TAT
1 TAT
52808318 GGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATAATTATTAATTGT
Found at i:52809501 original size:40 final size:40
Alignment explanation
Indices: 52809431--52809517 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
52809421 AATTTATGGG
* * *
52809431 TTACTAAATATTGTTTTGAATACCGAATTGAACTGTGAAA
1 TTACTGAATATTGTTATGAATACCGAATTGAACTGTAAAA
* * *
52809471 TTACTGAATATTGTTAT-ATATACTGTATTGAATTGTAAAA
1 TTACTGAATATTGTTATGA-ATACCGAATTGAACTGTAAAA
*
52809511 TTTCTGA
1 TTACTGA
52809518 TGAAAAGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.43
Consensus pattern (40 bp):
TTACTGAATATTGTTATGAATACCGAATTGAACTGTAAAA
Done.