Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 134 of 136
Found at i:46365114 original size:19 final size:19
Alignment explanation
Indices: 46365079--46365128 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
46365069 TCAATAAATT
*
46365079 TTTAAATTTTTTGATTAAA
1 TTTAAATTATTTGATTAAA
46365098 TTTAAATATATTT-ATT-AA
1 TTTAAAT-TATTTGATTAAA
*
46365116 TTAAAAATTATTT
1 TT-TAAATTATTT
46365129 TTTTAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.33
19 14 0.52
20 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAAATTATTTGATTAAA
Found at i:46365920 original size:7 final size:7
Alignment explanation
Indices: 46365904--46365940 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
46365894 AAATAATAAA
*
46365904 TATTTCT
1 TATTTTT
*
46365911 TATATTT
1 TATTTTT
46365918 TATTTTT
1 TATTTTT
46365925 TATTTTT
1 TATTTTT
46365932 TATTTTT
1 TATTTTT
46365939 TA
1 TA
46365941 AGAAAATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:46376637 original size:22 final size:22
Alignment explanation
Indices: 46376611--46376654 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46376601 AATTTAATCC
46376611 TTTAAAAATTATAAAATTACAT
1 TTTAAAAATTATAAAATTACAT
***
46376633 TTTAATTCTTATAAAATTACAT
1 TTTAAAAATTATAAAATTACAT
46376655 AACACAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAAAAATTATAAAATTACAT
Found at i:46376800 original size:13 final size:13
Alignment explanation
Indices: 46376782--46376807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46376772 CAAATTGAAC
46376782 AAAGTTTTGCTTG
1 AAAGTTTTGCTTG
46376795 AAAGTTTTGCTTG
1 AAAGTTTTGCTTG
46376808 TTGATAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AAAGTTTTGCTTG
Found at i:46378337 original size:10 final size:10
Alignment explanation
Indices: 46378322--46378369 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
46378312 AACATAATCC
46378322 TTTCTCTCAA
1 TTTCTCTCAA
*
46378332 TTTCTCTCTAG
1 TTTCTCTC-AA
46378343 TATTCTCTCAA
1 T-TTCTCTCAA
46378354 TTTCCTCTCAA
1 TTT-CTCTCAA
*
46378365 ATTCT
1 TTTCT
46378370 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 12 0.38
11 13 0.41
12 7 0.22
ACGTcount: A:0.19, C:0.29, G:0.02, T:0.50
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:46381822 original size:125 final size:125
Alignment explanation
Indices: 46381600--46381887 Score: 468
Period size: 125 Copynumber: 2.3 Consensus size: 125
46381590 AAACATGCGT
*
46381600 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGACAAAGCATCCTGCT
*
46381665 TAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAGC
66 TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
* *
46381725 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGACAAAGCATCCTGCT
* *
46381790 TAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGAGC
66 TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
* * * **
46381850 TACTGTAGTAAAAAACGCGTCCAAGTATGAGCGATTTC
1 TACTGTAG-CAAAAGCGCGTCCACGTGGGAGCGATTTC
46381888 CTTAAAAAAA
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
125 127 0.84
126 24 0.16
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAATACTTTTGCTGACAAAGCATCCTGCT
TAAAGCGTTTTTGACACTATTTACTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAGC
Found at i:46382076 original size:15 final size:16
Alignment explanation
Indices: 46382056--46382085 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46382046 TTTATTCTCT
46382056 AAAACCCT-AAACCTA
1 AAAACCCTGAAACCTA
46382071 AAAACCCTGAAACCT
1 AAAACCCTGAAACCT
46382086 TGACCCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAACCCTGAAACCTA
Found at i:46384063 original size:74 final size:75
Alignment explanation
Indices: 46383968--46384119 Score: 297
Period size: 74 Copynumber: 2.0 Consensus size: 75
46383958 TTTTTTATCA
46383968 TTTACTAACATAAAAATTTACAAAATTTAAAGGAGGAATAGTTAAAATTTCAATTTATGTTTGAA
1 TTTACTAACATAAAAATTTACAAAATTTAAAGGAGGAATAGTTAAAATTTCAATTTATGTTTGAA
46384033 TCTAATTTAC
66 TCTAATTTAC
46384043 TTTACTAACAT-AAAATTTACAAAATTTAAAGGAGGAATAGTTAAAATTTCAATTTATGTTTGAA
1 TTTACTAACATAAAAATTTACAAAATTTAAAGGAGGAATAGTTAAAATTTCAATTTATGTTTGAA
46384107 TCTAATTTAC
66 TCTAATTTAC
46384117 TTT
1 TTT
46384120 TGCAAATGGG
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 66 0.86
75 11 0.14
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (75 bp):
TTTACTAACATAAAAATTTACAAAATTTAAAGGAGGAATAGTTAAAATTTCAATTTATGTTTGAA
TCTAATTTAC
Found at i:46396261 original size:17 final size:17
Alignment explanation
Indices: 46396211--46396261 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
46396201 ATTATGATAT
*
46396211 TTTTAAATTTAAATT-A
1 TTTTAAATTTGAATTAA
*
46396227 TTTTAGATTTGAGA-TAA
1 TTTTAAATTTGA-ATTAA
*
46396244 TTTTAAATATGAATTAA
1 TTTTAAATTTGAATTAA
46396261 T
1 T
46396262 ATAAATTCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
TTTTAAATTTGAATTAA
Found at i:46398556 original size:18 final size:18
Alignment explanation
Indices: 46398533--46398588 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
46398523 TGGACATAAA
*
46398533 TTAAAAAGTATATATTTT
1 TTAAAAAGTATAAATTTT
* *
46398551 TTAAAAA-TAAAAATTAAT
1 TTAAAAAGTATAAATT-TT
46398569 TTAAAAATGTATAAATTTT
1 TTAAAAA-GTATAAATTTT
46398588 T
1 T
46398589 CGACAAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.20
18 15 0.50
19 2 0.07
20 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (18 bp):
TTAAAAAGTATAAATTTT
Found at i:46399396 original size:60 final size:60
Alignment explanation
Indices: 46399325--46399443 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
46399315 ATACTAAACT
* * * * *
46399325 AAACACGACAATTTATAGCATAATCCTAAATTAATAATAATTTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTAC
*
46399385 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAAATTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTA
46399444 TAAAAAAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTAATAACAAATTAAATTTAAAATAATTAC
Found at i:46399608 original size:27 final size:27
Alignment explanation
Indices: 46399578--46399631 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
46399568 AGGGGGGAGG
* * * *
46399578 CAGTGGCGCTTACCTGTCAGGCGCGAC
1 CAGTAGCGCCTACCTGACAAGCGCGAC
*
46399605 CAGTAGCGCCTATCTGACAAGCGCGAC
1 CAGTAGCGCCTACCTGACAAGCGCGAC
46399632 TGGTCTCGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (27 bp):
CAGTAGCGCCTACCTGACAAGCGCGAC
Found at i:46399764 original size:21 final size:20
Alignment explanation
Indices: 46399713--46399764 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
46399703 TTTAATAAAA
* *
46399713 ATAAAATAATAATATTTTAT
1 ATAAAAAAAAAATATTTTAT
* *
46399733 TTAAAGTAAAAAATATTTTAAT
1 ATAAA-AAAAAAATATTTT-AT
46399755 ATAAAAAAAA
1 ATAAAAAAAA
46399765 GTAATTGCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.17
21 14 0.58
22 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAAAAAAAAATATTTTAT
Found at i:46400163 original size:3 final size:3
Alignment explanation
Indices: 46400155--46400188 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46400145 ATACCATCTA
46400155 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46400189 TTAACAATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46404373 original size:51 final size:49
Alignment explanation
Indices: 46404297--46404433 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 49
46404287 CATGAGAACT
*
46404297 CATGTGTAGTACTATGTGCAGGCTACTATGAGTATAA-GATAGTTATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGTGTATAATGATA--T-TGGTCA
* *
46404348 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATATTGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGTGTA--TAATGATATTGGTCA
* * *
46404399 CATGTGCAGTACTAAGTGTAGGCTACTATGTGTAT
1 CATGTGTAGTACTATGTGCAGGCTACTATGTGTAT
46404434 CGGATAGCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
51 68 0.91
52 1 0.01
53 2 0.03
54 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (49 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGTGTATAATGATATTGGTCA
Found at i:46418792 original size:36 final size:36
Alignment explanation
Indices: 46418745--46418822 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
46418735 GGGCCGTGTA
* ***
46418745 TTTGGGTGTGATATGGAGCGCGGGTTTGGGCCTCCT
1 TTTGGGCGTGATATGGAGCGCCAATTTGGGCCTCCT
46418781 TTTGGGCGTGATATGGAGCGCCAATTTGGGCCTCCT
1 TTTGGGCGTGATATGGAGCGCCAATTTGGGCCTCCT
46418817 TTTGGG
1 TTTGGG
46418823 TGTAACTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.10, C:0.18, G:0.38, T:0.33
Consensus pattern (36 bp):
TTTGGGCGTGATATGGAGCGCCAATTTGGGCCTCCT
Found at i:46431546 original size:125 final size:127
Alignment explanation
Indices: 46431292--46431679 Score: 363
Period size: 125 Copynumber: 3.0 Consensus size: 127
46431282 GTTACAGATT
* ** * * * * *
46431292 TTTTTTCTCGATAATATCGAGTTTTATCATATGAGCTTGATATTCAAACTTGAATTATTTAAAAT
1 TTTTTTCTCGATAATTTATAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATAATTTAAAAT
* * * * * * *
46431357 TAATTGTCTTCGTCATTTTAAGTATGGGATAC-TTTTTTTTTGTCAGTTTAAGATTGAATTA
66 TAATTGTCTTCATCATTCTAAGTTTGTGATACATTTTTTTATGTCAGTTTAAGATTAAATCA
* * *
46431418 -TTTTTCTCGATAATTTATATTTTTGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAAT
1 TTTTTTCTCGATAATTTATAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATAATTTAAAAT
* **
46431482 TAATTGTCTTC-TCATTCTAAGTTTGTGATACATTTTTTTATGAT-GGTTTTGGATTAAATCA
66 TAATTGTCTTCATCATTCTAAGTTTGTGATACATTTTTTTATG-TCAGTTTAAGATTAAATCA
** * * * * *
46431543 TTTTTTCTCTCTCGATTATATCAAGTTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTTT
1 TTTTTTCTCGAT-AATT-TAT--AGTTTTGTCATATGAGTTTGATACTCAAATTTGAATAATTTA
* * * * * * * *
46431608 AAATGAACTGTTTTCATCATTCTAAGTTGGTAATACATTTTTTTATGTCGGTTTCAA-ATTGAGT
62 AAATTAATTGTCTTCATCATTCTAAGTTTGTGATACATTTTTTTATGTCAGTTT-AAGATTAAAT
46431672 CA
126 CA
46431674 TTTTTT
1 TTTTTT
46431680 TTCTCTCAAT
Statistics
Matches: 213, Mismatches: 39, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
124 17 0.08
125 85 0.40
126 10 0.05
127 3 0.01
128 3 0.01
130 48 0.23
131 47 0.22
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (127 bp):
TTTTTTCTCGATAATTTATAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATAATTTAAAAT
TAATTGTCTTCATCATTCTAAGTTTGTGATACATTTTTTTATGTCAGTTTAAGATTAAATCA
Found at i:46431661 original size:131 final size:130
Alignment explanation
Indices: 46431438--46431702 Score: 325
Period size: 131 Copynumber: 2.0 Consensus size: 130
46431428 TAATTTATAT
* * *
46431438 TTTTGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAATTGTCTTCTCATTCTAAG
1 TTTTGTCATATGAGTTCGACACTCAAATTTAAATAATTTAAAATGAACTGTCTTCTCATTCTAAG
* * *** * *
46431503 TTTGTGATACATTTTTTTATGATGGTTTTGGATTAAATCATTTTTTCTCTCTCGATTATATCAAG
66 TTGGTAATACATTTTTTTATGATGGTTTCAAATTAAATCATTTTTTCTCTCTCAATAATATCAAG
* * * * * *
46431568 TTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTTTAAATGAACTGTTTTCATCATTCTAA
1 TTTTGTCATATGAGTTCGACACTCAAATTTAAATAATTTAAAATGAACTGTCTTC-TCATTCTAA
* * *
46431633 GTTGGTAATACATTTTTTTATG-TCGGTTTCAAATTGAGTCATTTTTTTTCTCTCAATAATATCA
65 GTTGGTAATACATTTTTTTATGAT-GGTTTCAAATTAAATCATTTTTTCTCTCTCAATAATATCA
*
46431697 TG
129 AG
46431699 TTTT
1 TTTT
46431703 TTTGTCTTCA
Statistics
Matches: 113, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
130 47 0.42
131 66 0.58
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (130 bp):
TTTTGTCATATGAGTTCGACACTCAAATTTAAATAATTTAAAATGAACTGTCTTCTCATTCTAAG
TTGGTAATACATTTTTTTATGATGGTTTCAAATTAAATCATTTTTTCTCTCTCAATAATATCAAG
Found at i:46431861 original size:215 final size:219
Alignment explanation
Indices: 46431485--46431899 Score: 531
Period size: 215 Copynumber: 1.9 Consensus size: 219
46431475 TTAAAATTAA
* * *
46431485 TTGTCTTCTCATTCTAAGTTTGTGATACATTTTTTTATGATGGTTTTGGATTAAATCATTTTTTC
1 TTGTCTTCTCATTCTAAGTTTGGGATACATTTTTTTATGATAGTTTCGGATTAAATCATTTTTTC
* * * *
46431550 TCTCTCGATTATATCAAGTTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTTTAAATGAA
66 TCTCTCGATAATATCAAGTTTGGTCATATGAGTTCGATACTCAAATTTGAATCATTTAAAATGAA
* * * *
46431615 CTGTTTTCATCATTCTAAGTTGGTAATACATTTTTTTATGTCGGTTTCAAATTGAGTCATTTTTT
131 CTATTTTCATCATTCTAAGTTGGTAATACATTCTTTTATGTCAGTTTCAAATTGAATCATTTTTT
*
46431680 TTCTCTCAATAATATCATGTTTTT
196 CTCTCTCAATAATATCATGTTTTT
* *
46431704 TTGTCTTCATCATTTTAAGTTTGGGATACATTTTTTT-TG-TCAGTTTCGGATTGAATCA-TTTT
1 TTGTCTTC-TCATTCTAAGTTTGGGATACATTTTTTTATGAT-AGTTTCGGATTAAATCATTTTT
* *
46431766 T-TCT-T-GATAATATCGAA-TTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAAT
64 TCTCTCTCGATAATATC-AAGTTTGGTCATATGAGTTCGATACTCAAATTTGAATCATTTAAAAT
* ** * ***
46431827 TAACTATTTTTGTCATTCTAAGTTTGG-GATACATTCTTTTATGTCAGTTTTGGATTGAATCATT
128 GAACTATTTTCATCATTCTAAG-TTGGTAATACATTCTTTTATGTCAGTTTCAAATTGAATCATT
46431891 TTTTCTCTC
192 TTTTCTCTC
46431900 GTTAATATAA
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
215 103 0.61
216 7 0.04
217 3 0.02
218 6 0.04
219 24 0.14
220 26 0.15
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (219 bp):
TTGTCTTCTCATTCTAAGTTTGGGATACATTTTTTTATGATAGTTTCGGATTAAATCATTTTTTC
TCTCTCGATAATATCAAGTTTGGTCATATGAGTTCGATACTCAAATTTGAATCATTTAAAATGAA
CTATTTTCATCATTCTAAGTTGGTAATACATTCTTTTATGTCAGTTTCAAATTGAATCATTTTTT
CTCTCTCAATAATATCATGTTTTT
Found at i:46431989 original size:344 final size:344
Alignment explanation
Indices: 46431360--46432023 Score: 899
Period size: 344 Copynumber: 1.9 Consensus size: 344
46431350 TTAAAATTAA
* * *
46431360 TTGTCTTCGTCATTTTAAGTATGGGATACTTTTTTTTTGTCAGTTTAAGATTGAATTATTTTTCT
1 TTGTCTTCATCATTTTAAGTATGGGATACATTTTTTTTGTCAGTTTAAGATTGAATCATTTTTCT
* * * *
46431425 CGATAATTTATATTTTTGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAATTGTC
66 CGATAATATAGAATTTGGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAATTGTC
* * *
46431490 TTCTCATTCTAAGTTTGTGATACATTTTTTTATGATGGTTTTGGATTAAATCATTTTTTCTCTCT
131 TTCTCATTCTAAGTTTGGGATACATTCTTTTATGATAGTTTTGGATTAAATCATTTTTTCTCTCT
* * * * * * *
46431555 CGATTATATCAAGTTTTGTCATATGAGTTCGATACTTAAATTTGAATCATTTTAAATGAACTGTT
196 CGATTATATAAAATTTTGTCATACGAGTTCGATACTCAAATTTGAATCATTTGAAATGAACTCTC
* * *
46431620 TTCATCATTCTAAGTTGGTAATACATTTTTTTATGTCGGTTTCAAATTGAGTCATTTTTTTTCTC
261 TTCATCATTCTAAGTTGGTAATACATTTTTCTATGTCGGTTTCAAATTGAATAATTTTTTTTCTC
46431685 TCAATAATATCATGTTTTT
326 TCAATAATATCATGTTTTT
* **
46431704 TTGTCTTCATCATTTTAAGTTTGGGATACATTTTTTTTGTCAGTTTCGGATTGAATCATTTTTTC
1 TTGTCTTCATCATTTTAAGTATGGGATACATTTTTTTTGTCAGTTTAAGATTGAATCA-TTTTTC
* * * * *
46431769 TTGATAATATCGAATTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAATTAACTAT
65 TCGATAATATAGAATTTGGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAA-T-T
* * *
46431834 -TTTTGTCATTCTAAGTTTGGGATACATTCTTTTATG-TCAGTTTTGGATTGAATCA-TTTTT-T
128 GTCTTCTCATTCTAAGTTTGGGATACATTCTTTTATGAT-AGTTTTGGATTAAATCATTTTTTCT
* * *
46431895 CTCTCG-TTAATATAAAATTTTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
192 CTCTCGATT-ATATAAAATTTTGTCATACGAGTTCGATACTCAAATTTGAATCATTTGAAATGAA
* * *
46431959 TTCTCTTCATCATTCTAAGTTTGG-AATACATTTTTCTATGTTGGTTTCAAGTTGAATAATTTTT
256 CTCTCTTCATCATTCTAAG-TTGGTAATACATTTTTCTATGTCGGTTTCAAATTGAATAATTTTT
46432023 T
320 T
46432024 CCTCGATAAT
Statistics
Matches: 277, Mismatches: 37, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
343 2 0.01
344 158 0.57
345 68 0.25
346 48 0.17
347 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.50
Consensus pattern (344 bp):
TTGTCTTCATCATTTTAAGTATGGGATACATTTTTTTTGTCAGTTTAAGATTGAATCATTTTTCT
CGATAATATAGAATTTGGTCATATGAGTTTGACACTCAAATTTAAATAATTTAAAATTAATTGTC
TTCTCATTCTAAGTTTGGGATACATTCTTTTATGATAGTTTTGGATTAAATCATTTTTTCTCTCT
CGATTATATAAAATTTTGTCATACGAGTTCGATACTCAAATTTGAATCATTTGAAATGAACTCTC
TTCATCATTCTAAGTTGGTAATACATTTTTCTATGTCGGTTTCAAATTGAATAATTTTTTTTCTC
TCAATAATATCATGTTTTT
Found at i:46432086 original size:257 final size:254
Alignment explanation
Indices: 46431704--46432710 Score: 1143
Period size: 257 Copynumber: 3.9 Consensus size: 254
46431694 TCATGTTTTT
* * * *
46431704 TTGTCTTCATCATTTTAAGTTTGGGATACATTTTTTTTGTCAGTTTCGGATTGAATCATTTTTTC
1 TTGTCTTCATCATTCTAAGTTTGGAATACATTTTTTATGTCAGTTTCAGATTGAATCATTTTTTC
* * * * * * * * * *
46431769 TTGATAATATCGAATTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAATTAACTAT
66 TCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAATCATTTGAAATTAATTGT
* * * *
46431834 TTTTGTCATTCTAAGTTTGGGATACATTCTTTTATGTCAGTTTTGGATTGAATCATTTTTTCTCT
131 CTTCGTCATTCTAAGTTTGGGATACATTCTTTTATGTCGGTTTCGGATTGAATCA-TTTTTCTCT
** ** * *
46431899 CGTTAATATAAAATTTTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
195 CAATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
* ** *
46431959 TTCTCTTCATCATTCTAAGTTTGGAATACATTTTTCTATGTTGGTTTCA-AGTTGAATAATTTTT
1 TTGTCTTCATCATTCTAAGTTTGGAATACATTTTT-TATGTCAGTTTCAGA-TTGAATCATTTTT
*
46432023 TCCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATCTAAATCATTTGAAATTAAT
64 T-CTCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAATCATTTGAAATTAAT
*
46432088 TGTCTTCGTCATT-TAAGTTTGGGATACATT-TTGTTATGTCGGCTTC-GAGTTGAATCATTTTT
128 TGTCTTCGTCATTCTAAGTTTGGGATACATTCTT-TTATGTCGGTTTCGGA-TTGAATCATTTTT
* *
46432150 CTCT-ATATAATATCGAGTTTTGTCATATGAGTTTGATACTTGAATTTGAATCATTTGAAATTAT
191 CTCTCA-ATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
* * * * *
46432214 TTGTCTTCATTATTCTAAATTTGGGATACATTTTTTTATATCGGTTTC-GAATTGAATCATTTTT
1 TTGTCTTCATCATTCTAAGTTTGGAATACA-TTTTTTATGTCAGTTTCAG-ATTGAATCA-TTTT
* ** * *
46432278 CTCTCTCGATAATATCGAGTTTTGTCAAACGAGTTTGATACTTGAATTTGAATCATTTGAAATTA
63 -T-TCTCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAATCATTTGAAATTA
* * *
46432343 GTTGTCTTCGTCATTCTAAGTTTGGAATACATTCTTTTATGTCGGTTTCGGGTTGAATCATTTTT
126 ATTGTCTTCGTCATTCTAAGTTTGGGATACATTCTTTTATGTCGGTTTCGGATTGAATCATTTTT
* ** * * * *
46432408 C-CTCAATAATATTGAGTTTTGTTGTATGAGTCTGATACTCGAAATTGAATAATTTGAAAGTAA
191 CTCTCAATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
** * ** * *
46432471 TTGTCTTTGTCATTCTAAGTTTGGATTACATTTTTTGATGTCACCTTCGGATTGAATCATTATTT
1 TTGTCTTCATCATTCTAAGTTTGGAATACATTTTTT-ATGTCAGTTTCAGATTGAATCATTTTTT
* ** * * * *
46432536 CTCGACAATATTTAGTCTTGTCATACAAGTTTGATACTCGAATCTAAAT-ATTTGAAACTAATTG
65 CTCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAATCATTTGAAATTAATTG
* * * * *
46432600 TCTTCATCATTCTAAGCTTGGGATACATTTTTTTTATGTCGGTTTCGGATTGAAT--TTTTTTTT
130 TCTTCGTCATTCTAAGTTTGGGATACA-TTCTTTTATGTCGGTTTCGGATTGAATCATTTTTCTC
** * *
46432663 TTGATAATATCGAGTTTTGTCATATGAGTTTGATAATCAAATTTGAAT
194 TCAATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAAT
46432711 AATTGTCTTT
Statistics
Matches: 638, Mismatches: 94, Indels: 42
0.82 0.12 0.05
Matches are distributed among these distances:
252 5 0.01
253 76 0.12
254 66 0.10
255 141 0.22
256 76 0.12
257 226 0.35
258 45 0.07
259 3 0.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (254 bp):
TTGTCTTCATCATTCTAAGTTTGGAATACATTTTTTATGTCAGTTTCAGATTGAATCATTTTTTC
TCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCAAATCTAAATCATTTGAAATTAATTGT
CTTCGTCATTCTAAGTTTGGGATACATTCTTTTATGTCGGTTTCGGATTGAATCATTTTTCTCTC
AATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
Found at i:46432169 original size:127 final size:126
Alignment explanation
Indices: 46431704--46432710 Score: 1059
Period size: 127 Copynumber: 7.9 Consensus size: 126
46431694 TCATGTTTTT
* * *
46431704 TTGTCTTCATCATTTTAAGTTTGGGATACATTTTTTTTGTCAGTTTCGGATTGAATCATTTTT-T
1 TTGTCTTCATCATTCTAAGTTTGGGATACATTTTTTATGTCGGTTTCGGATTGAATCATTTTTCT
* * * *
46431768 CTTGATAATATCGAATTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAATTAA
66 CTT-ATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * * ** * *
46431830 CTATTTTTGTCATTCTAAGTTTGGGATACATTCTTTTATGTCAGTTTTGGATTGAATCATTTTTT
1 TTGTCTTCATCATTCTAAGTTTGGGATACATT-TTTTATGTCGGTTTCGGATTGAATCA-TTTTT
** * * *
46431895 CTCTCGT-TAATATAAAATTTTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAA
64 CTCT--TATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * * * *
46431959 TTCTCTTCATCATTCTAAGTTTGGAATACATTTTTCTATGTTGGTTTC-AAGTTGAATAATTTTT
1 TTGTCTTCATCATTCTAAGTTTGGGATACATTTTT-TATGTCGGTTTCGGA-TTGAATCATTTTT
* * *
46432023 -TCCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATCTAAATCATTTGAAATTAA
64 CT-CT-TATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* *
46432087 TTGTCTTCGTCATT-TAAGTTTGGGATACATTTTGTTATGTCGGCTTC-GAGTTGAATCATTTTT
1 TTGTCTTCATCATTCTAAGTTTGGGATACATTTT-TTATGTCGGTTTCGGA-TTGAATCATTTTT
** *
46432150 CTCTATATAATATCGAGTTTTGTCATATGAGTTTGATACTTGAATTTGAATCATTTGAAATTAT
64 CTCT-TATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * * *
46432214 TTGTCTTCATTATTCTAAATTTGGGATACATTTTTTTATATCGGTTTCGAATTGAATCATTTTTC
1 TTGTCTTCATCATTCTAAGTTTGGGATACA-TTTTTTATGTCGGTTTCGGATTGAATCATTTTTC
* * ** *
46432279 TCTCTCGATAATATCGAGTTTTGTCAAACGAGTTTGATACTTGAATTTGAATCATTTGAAATTAG
65 TCT-T--ATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
* * *
46432344 TTGTCTTCGTCATTCTAAGTTTGGAATACATTCTTTTATGTCGGTTTCGGGTTGAATCATTTTTC
1 TTGTCTTCATCATTCTAAGTTTGGGATACATT-TTTTATGTCGGTTTCGGATTGAATCATTTTTC
* * ** * * *
46432409 -CTCAATAATATTGAGTTTTGTTGTATGAGTCTGATACTCGAAA-TTGAATAATTTGAAAGTAA
65 TCT-TATAATATCGAGTTTTGTCATATGAGTTTGATACTC-AAATTTGAATCATTTGAAATTAA
** ***
46432471 TTGTCTTTGTCATTCTAAGTTT-GGATTACATTTTTTGATGTCACCTTCGGATTGAATCATTATT
1 TTGTCTTCATCATTCTAAGTTTGGGA-TACATTTTTT-ATGTCGGTTTCGGATTGAATCATT-TT
* * ** * ** * * * *
46432535 TCTC-GACAATATTTAGTCTTGTCATACAAGTTTGATACTCGAATCTAAAT-ATTTGAAACTAA
63 TCTCTTATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
*
46432597 TTGTCTTCATCATTCTAAGCTTGGGATACATTTTTTTTATGTCGGTTTCGGATTGAAT--TTTTT
1 TTGTCTTCATCATTCTAAGTTTGGGATACA--TTTTTTATGTCGGTTTCGGATTGAATCATTTTT
* * *
46432660 TTTTTGATAATATCGAGTTTTGTCATATGAGTTTGATAATCAAATTTGAAT
64 CTCTT-ATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAAT
46432711 AATTGTCTTT
Statistics
Matches: 737, Mismatches: 116, Indels: 56
0.81 0.13 0.06
Matches are distributed among these distances:
124 4 0.01
125 2 0.00
126 103 0.14
127 276 0.37
128 135 0.18
129 106 0.14
130 110 0.15
131 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (126 bp):
TTGTCTTCATCATTCTAAGTTTGGGATACATTTTTTATGTCGGTTTCGGATTGAATCATTTTTCT
CTTATAATATCGAGTTTTGTCATATGAGTTTGATACTCAAATTTGAATCATTTGAAATTAA
Found at i:46432419 original size:384 final size:381
Alignment explanation
Indices: 46431704--46432710 Score: 1260
Period size: 384 Copynumber: 2.6 Consensus size: 381
46431694 TCATGTTTTT
* * *
46431704 TTGTCTTCATCATTTTAAGTTTGGGATACATTTTTTTTGTCAGTTTCGGATTGAATCATTTTT-T
1 TTGTCTTCGTCA-TTTAAGTTTGGGATACATTTTTTATGTCAGCTTCGGATTGAATCATTTTTCT
* * * * * *
46431768 CTTGATAATATCGAATTTGGTCATATGAGTTTGATACTCAAATTTGAATTATTTAAAATTAACTA
65 CTT-ATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAA-TATTTGAAATTAATTG
* ** * * *
46431833 TTTTTGTCATTCTAAGTTTGGGATACATTCTTTTATGTCAGTTTTGGATTGAATCATTTTTTCTC
128 TCTTCATCATTCTAAGTTTGGGATACATTTTTTTATGTCGGTTTCGGATTGAATCATTTTTTCTC
* ** *
46431898 TCGTTAATATAAAATTTTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAATTCT
193 TCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAATTCT
*
46431963 CTTCATCATTCTAAGTTTGGAATACATTTTTCTATGTTGGTTTCAAGTTGAATAATTTTTTCCTC
258 CTTCATCATTCTAAGTTTGGAATACATTTTTCTATGTCGGTTTCAAGTTGAATAATTTTTTCCTC
* * * *
46432028 GATAATATCGAGTTTTGTCATATGAGTTTGATACTC-AAATCTAAATCATTTGAAATTAA
323 AATAATATCGAGTTTTGTCATATGAGTCTGATACTCGAAAT-TAAATAATTTGAAAGTAA
*
46432087 TTGTCTTCGTCATTTAAGTTTGGGATACATTTTGTTATGTCGGCTTC-GAGTTGAATCATTTTTC
1 TTGTCTTCGTCATTTAAGTTTGGGATACATTTT-TTATGTCAGCTTCGGA-TTGAATCATTTTTC
* *
46432151 TCTATATAATATCGAGTTTTGTCATATGAGTTTGATACTTGAATTTGAATCATTTGAAATTATTT
64 TCT-TATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAAT-ATTTGAAATTAATT
* * * *
46432216 GTCTTCATTATTCTAAATTTGGGATACATTTTTTTATATCGGTTTCGAATTGAATCATTTTTCTC
127 GTCTTCATCATTCTAAGTTTGGGATACATTTTTTTATGTCGGTTTCGGATTGAATCATTTTT-TC
* * *
46432281 TCTCGATAATATCGAGTTTTGTCAAACGAGTTTGATACTTGAATTTGAATCATTTGAAATTAGTT
191 TCTCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAATT
* * ** *
46432346 GTCTTCGTCATTCTAAGTTTGGAATACATTCTTT-TATGTCGGTTTCGGGTTGAATCA-TTTTTC
256 CTCTTCATCATTCTAAGTTTGGAATACATT-TTTCTATGTCGGTTTCAAGTTGAATAATTTTTTC
* ** *
46432409 CTCAATAATATTGAGTTTTGTTGTATGAGTCTGATACTCGAAATTGAATAATTTGAAAGTAA
320 CTCAATAATATCGAGTTTTGTCATATGAGTCTGATACTCGAAATTAAATAATTTGAAAGTAA
* *
46432471 TTGTCTTTGTCATTCTAAGTTT-GGATTACATTTTTTGATGTCACCTTCGGATTGAATCATTATT
1 TTGTCTTCGTCATT-TAAGTTTGGGA-TACATTTTTT-ATGTCAGCTTCGGATTGAATCATT-TT
* * ** * ** * * *
46432535 TCTC-GACAATATTTAGTCTTGTCATACAAGTTTGATACTCGAATCTAAATATTTGAAACTAATT
62 TCTCTTATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATATTTGAAATTAATT
*
46432599 GTCTTCATCATTCTAAGCTTGGGATACATTTTTTTTATGTCGGTTTCGGATTGAAT--TTTTTT-
127 GTCTTCATCATTCTAAGTTTGGGATACA-TTTTTTTATGTCGGTTTCGGATTGAATCATTTTTTC
* * * * *
46432661 TTTTGATAATATCGAGTTTTGTCATATGAGTTTGATAATCAAATTTGAAT
191 TCTCGATAATATCGAGTTTTGTCATACGAGTTTGATACTCGAATTTGAAT
46432711 AATTGTCTTT
Statistics
Matches: 540, Mismatches: 70, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
380 43 0.08
381 1 0.00
382 28 0.05
383 72 0.13
384 239 0.44
385 146 0.27
386 11 0.02
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (381 bp):
TTGTCTTCGTCATTTAAGTTTGGGATACATTTTTTATGTCAGCTTCGGATTGAATCATTTTTCTC
TTATAATATCGAGTTTTGTCATATGAGTTTGATACTCGAATTTGAATATTTGAAATTAATTGTCT
TCATCATTCTAAGTTTGGGATACATTTTTTTATGTCGGTTTCGGATTGAATCATTTTTTCTCTCG
ATAATATCGAGTTTTGTCATACGAGTTTGATACTCGAATTTGAATCATTTGAAATTAATTCTCTT
CATCATTCTAAGTTTGGAATACATTTTTCTATGTCGGTTTCAAGTTGAATAATTTTTTCCTCAAT
AATATCGAGTTTTGTCATATGAGTCTGATACTCGAAATTAAATAATTTGAAAGTAA
Found at i:46432864 original size:107 final size:106
Alignment explanation
Indices: 46432744--46433064 Score: 321
Period size: 109 Copynumber: 3.0 Consensus size: 106
46432734 GTGTTTCAGA
*
46432744 TTGAATCATTTTTTCTCTTATAATATCGAGTTTTGTTATATGAGTTTGATACTTGAATTTGAATC
1 TTGAAT-A-TTTTTCTCTTATAATATCGAGTTTTGTTATATGAGTTTGATACTCGAATTTGAATC
*
46432809 ATTTG-AATTAACTGTC-TTAGCCATTCT-ATGTTTGGAATACATATT
64 ATTTGAAATTAATTGTCTTTA-CCATTCTAAT-TTTGGAAT--A-ATT
* * * * *
46432854 TTG-ATGTTTTTC-CTCAATAATATCGAGTTTTGTCATATAAGTTTGATACTCGAATTTAAATCA
1 TTGAATATTTTTCTCT-TATAATATCGAGTTTTGTTATATGAGTTTGATACTCGAATTTGAATCA
* * *
46432917 TTTGAAATTAATTGTCTTTATCATTTTAATTTTGGGATAATT
65 TTTGAAATTAATTGTCTTTACCATTCTAATTTTGGAATAATT
* * * *
46432959 TTGAATATTTTT-TCTTGATAATATCAAGTTTTTCTTTCATATGAGTTTAATACTCAAATTTGAA
1 TTGAATATTTTTCTCTT-ATAATATCGAG-TTTT-GTT-ATATGAGTTTGATACTCGAATTTGAA
* * * * *
46433023 TCATTTGAAATTAATTGTCATCATCATTCTAAATTTGAAATA
62 TCATTTGAAATTAATTGTCTTTACCATTCTAATTTTGGAATA
46433065 TTCTGGAGTT
Statistics
Matches: 176, Mismatches: 25, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
105 6 0.03
106 22 0.12
107 57 0.32
108 23 0.13
109 65 0.37
110 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (106 bp):
TTGAATATTTTTCTCTTATAATATCGAGTTTTGTTATATGAGTTTGATACTCGAATTTGAATCAT
TTGAAATTAATTGTCTTTACCATTCTAATTTTGGAATAATT
Found at i:46435102 original size:199 final size:199
Alignment explanation
Indices: 46434753--46435938 Score: 1295
Period size: 199 Copynumber: 5.9 Consensus size: 199
46434743 AAAAAAGAAG
* * ***
46434753 AAGCTCCTTTTAGTAGTTAAGCTAGACAAGGCTTCGATTGCGGGACAAGCAAATGCTTGTACC-A
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGT-CCGA
* *** * * * *
46434817 CACATATTTGTATCTGACATTTATGCTTGAGTCCGAGTAATATAAGC-TAAAGTCAAGCTTTAGC
65 TACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAA-TCGAGCTTTAGC
* ** * * * *
46434881 CATTGGCTAATGGTGGCCCCAGAATCTTATCCAGGTGGTCTGAGGTGTGAAGAGGCTCCAAATGC
129 CATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGC
46434946 CTTAAA
194 CTTAAA
* * * *
46434952 AAGCTTCTTTTAGTAGTTAAGCCAGACAAGGCTTGGATTGCAGGATTTGCAAATGCTTGTCCAAT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
* * * *
46435017 ACATATTCATATCTGATACTCATGTTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCG
66 ACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCA
* * * *
46435082 TTGCCTAATGGTAACCCCAGAGTCTTATCTAGGTGATTTAAGGCGTGAAGAGGATCCAATTGCCT
131 TTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCT
46435147 TAAA
196 TAAA
* * * * *
46435151 AAGTTCCTTTTAGTAGTTAAGCTAGACAAGGCTTTGATTCCAGGATTTGCAAATGCTTGTCTGGA
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTC-CGA
* * * * * * * *
46435216 -ACATATCCGTATCTGAAACTCACATGCTCGAGTTCTAATAACATAAGCTCAAATTGAGCTTTAG
65 TACATATCCATATCTGACACT--CATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAG
*
46435280 CCATTTCCTAATGGTAACCCCAGAATC---T-TA-----TTTAA-GTGTGAAGAGGCTCCAATTG
128 CCATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTG
*
46435335 CCTTTAA
193 CCTTAAA
* ** * * *
46435342 AAGCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTCAATTGTGGGATTCGTAAATGCTTGCCGGAT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTT----G-T
* * * *
46435407 AGGACCAATACATATCCATGTCTGACAGTCATGTTTGAGTCCGAGTAACATAAGCTTAAATCGAG
61 ----CCGATACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAG
* *
46435472 CTTTAGCCATTGCCTAATGGTAACCCAAGAATCTTATCTGGGTGGTTTAAGGTGTGAAGAGGCTC
122 CTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTC
46435537 CAATTGCCTTAAA
187 CAATTGCCTTAAA
** * * *
46435550 AAGCTCCTTTTAGTAGTTAAGCTGGACAAGGCTTTGATTCCGGGATTTGCCAATGCTTGTCCGGT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
* * * * * *
46435615 ACATATCCATAGTTTGACACTCATGCTTGACTCTGAGTAACATAAGCTCAAATTGAGCTTTAGAC
66 ACATATCCATA-TCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCC
* *** * * * *
46435680 ATTGCTTGCCGGTAGCCCCAAAATCTTATTATAGGTGGTTTAAGGTGTGAAGAGCCTCCAATTGC
130 ATTGCCTAATGGTAACCCCAGAATCTTA-TCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGC
46435745 CTTAAA
194 CTTAAA
* * ** **
46435751 AACCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTTGATTTTGGGATTCACAAATGCTTGTCCGAT
1 AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
*
46435816 ACATATCCATATCTGACACTCATGTTTGAG-CCTGAGTAACATAAGCTTAAATCGAGCTTTAGCC
66 ACATATCCATATCTGACACTCATGCTTGAGTCC-GAGTAACATAAGCTTAAATCGAGCTTTAGCC
* ** *
46435880 ATCAG-CTAACAGTAGCCCCAGAATCTTATCATAGGTGGTTTAAGGTGTGAAGAGGCTCC
130 AT-TGCCTAATGGTAACCCCAGAATCTTATC-TAGGTGGTTTAAGGTGTGAAGAGGCTCC
46435939 TATTTTTACC
Statistics
Matches: 823, Mismatches: 134, Indels: 59
0.81 0.13 0.06
Matches are distributed among these distances:
191 72 0.09
192 5 0.01
195 1 0.00
196 1 0.00
197 2 0.00
198 63 0.08
199 252 0.31
200 179 0.22
201 166 0.20
202 1 0.00
203 1 0.00
204 1 0.00
207 5 0.01
208 74 0.09
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (199 bp):
AAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCGGGATTTGCAAATGCTTGTCCGAT
ACATATCCATATCTGACACTCATGCTTGAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCA
TTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCT
TAAA
Found at i:46435494 original size:399 final size:393
Alignment explanation
Indices: 46434923--46435934 Score: 1311
Period size: 399 Copynumber: 2.5 Consensus size: 393
46434913 AGGTGGTCTG
* * * *
46434923 AGGTGTGAAGAGGCTCCAAATGCCTTAAAAAGCTTCTTTTAGTAGTTAAGCCAGACAAGGCTTGG
1 AGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTCG
** * * *
46434988 ATTGCAGGATTTGCAAATGCTTGTCCAATACATATTCATATCTGATACTCATGTTTGAGTCCGAG
66 ATTGTGGGATTCGCAAATGCTTGTCCAATACATATCCATATCTGACACTCATGTTTGAGTCCGAG
* * *
46435053 TAACATAAGCTTAAATCGAGCTTTAGCCGTTGCCTAATGGTAACCCCAGAGTCTTATCTAGGTGA
131 TAACATAAGCTTAAATCGAGCTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGG
* *
46435118 TTTAAGGCGTGAAGAGGATCCAATTGCCTTAAAAAGTTCCTTTTAGTAGTTAAGCTAGACAAGGC
196 TTTAAGGTGTGAAGAGGATCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCTAGACAAGGC
* *
46435183 TTTGATTCCAGGATTTGCAAATGCTTGTCTGGAACATATCCGTA-TCTGAAACTCACATGCTCGA
261 TTTGATTCCAGGATTTGCAAATGCTTGTCCGGAACATATCCATAGTCTGAAACT--CATGCTCGA
* * * * *
46435247 GTTCT-AATAACATAAGCTCAAATTGAGCTTTAGCCATTTCCTAATGGTAACCCCAGAATC-T-T
324 -CTCTGAATAACATAAGCTCAAATTGAGCTTTAGACATTGCCTAACGGTAACCCCAAAATCTTAT
46435309 A-TTTA
388 AGTTTA
* *
46435314 A-GTGTGAAGAGGCTCCAATTGCCTTTAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTCA
1 AGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTCG
* * *
46435378 ATTGTGGGATTCGTAAATGCTTGCCGGATAGGACCAATACATATCCATGTCTGACAGTCATGTTT
66 ATTGTGGGATTCGCAAATGCTT----G-T----CCAATACATATCCATATCTGACACTCATGTTT
*
46435443 GAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCATTGCCTAATGGTAACCCAAGAATCTTA
122 GAGTCCGAGTAACATAAGCTTAAATCGAGCTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTA
* *
46435508 TCTGGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCT
187 TCTAGGTGGTTTAAGGTGTGAAGAGGATCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCT
* * * * * *
46435573 GGACAAGGCTTTGATTCCGGGATTTGCCAATGCTTGTCCGGTACATATCCATAGTTTGACACTCA
252 AGACAAGGCTTTGATTCCAGGATTTGCAAATGCTTGTCCGGAACATATCCATAGTCTGAAACTCA
* * * ** *
46435638 TGCTTGACTCTGAGTAACATAAGCTCAAATTGAGCTTTAGACATTGCTTGCCGGTAGCCCCAAAA
317 TGCTCGACTCTGAATAACATAAGCTCAAATTGAGCTTTAGACATTGCCTAACGGTAACCCCAAAA
46435703 TCTTATTATAGGTGGTTTA
382 TC---TTATA----GTTTA
* * *
46435722 AGGTGTGAAGAGCCTCCAATTGCCTTAAAAACCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTTG
1 AGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTCG
* * *
46435787 ATTTTGGGATTCACAAATGCTTGTCCGATACATATCCATATCTGACACTCATGTTTGAG-CCTGA
66 ATTGTGGGATTCGCAAATGCTTGTCCAATACATATCCATATCTGACACTCATGTTTGAGTCC-GA
* ** *
46435851 GTAACATAAGCTTAAATCGAGCTTTAGCCATCAG-CTAACAGTAGCCCCAGAATCTTATCATAGG
130 GTAACATAAGCTTAAATCGAGCTTTAGCCAT-TGCCTAATGGTAACCCCAGAATCTTATC-TAGG
46435915 TGGTTTAAGGTGTGAAGAGG
193 TGGTTTAAGGTGTGAAGAGG
46435935 CTCCTATTTT
Statistics
Matches: 538, Mismatches: 58, Indels: 40
0.85 0.09 0.06
Matches are distributed among these distances:
390 75 0.14
391 1 0.00
394 1 0.00
395 1 0.00
397 3 0.01
398 54 0.10
399 199 0.37
400 93 0.17
401 24 0.04
402 1 0.00
403 2 0.00
404 1 0.00
405 1 0.00
408 5 0.01
409 77 0.14
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (393 bp):
AGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCCAAACAAGGCTTCG
ATTGTGGGATTCGCAAATGCTTGTCCAATACATATCCATATCTGACACTCATGTTTGAGTCCGAG
TAACATAAGCTTAAATCGAGCTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTATCTAGGTGG
TTTAAGGTGTGAAGAGGATCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCTAGACAAGGC
TTTGATTCCAGGATTTGCAAATGCTTGTCCGGAACATATCCATAGTCTGAAACTCATGCTCGACT
CTGAATAACATAAGCTCAAATTGAGCTTTAGACATTGCCTAACGGTAACCCCAAAATCTTATAGT
TTA
Found at i:46441609 original size:22 final size:22
Alignment explanation
Indices: 46441584--46441628 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46441574 CATATGAATT
*
46441584 ATGATCATTAATTATATATATA
1 ATGACCATTAATTATATATATA
**
46441606 ATGACCATTTTTTATATATATA
1 ATGACCATTAATTATATATATA
46441628 A
1 A
46441629 ATGGAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (22 bp):
ATGACCATTAATTATATATATA
Found at i:46443378 original size:40 final size:41
Alignment explanation
Indices: 46443320--46443407 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 41
46443310 ATTATAGAAG
* *
46443320 AGAAGAAAATGAGAGCTTTAGATTGGTGTA-AGTGGTGTGAAC
1 AGAAG-AAATGAGAGCTTTAGATTAGTGTAGA-TAGTGTGAAC
46443362 A-AAGAAATGAGAGCTTTAGATTAGTGTAGATAGTGTGAAC
1 AGAAGAAATGAGAGCTTTAGATTAGTGTAGATAGTGTGAAC
46443402 AGAAGA
1 AGAAGA
46443408 TGACATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 33 0.79
41 8 0.19
42 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.31, T:0.25
Consensus pattern (41 bp):
AGAAGAAATGAGAGCTTTAGATTAGTGTAGATAGTGTGAAC
Found at i:46454148 original size:3 final size:3
Alignment explanation
Indices: 46454140--46454166 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46454130 TGACTCTTAC
46454140 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
46454167 ATCCACTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46454611 original size:6 final size:6
Alignment explanation
Indices: 46454564--46454592 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46454554 ACCAGTTTTT
46454564 AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTA
46454593 TTTTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:46454644 original size:16 final size:16
Alignment explanation
Indices: 46454607--46454646 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
46454597 TTAATAAAAT
* *
46454607 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
46454623 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
46454639 TAAAATTA
1 TAAAATTA
46454647 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:46454646 original size:22 final size:22
Alignment explanation
Indices: 46454579--46454631 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
46454569 AAATTAAAAT
* * *
46454579 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
46454601 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
46454623 TAAAATTAA
1 TAAAATTAA
46454632 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:46455065 original size:13 final size:13
Alignment explanation
Indices: 46455027--46455068 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
46455017 TTTTATCATC
46455027 AATAAAGTGAAATAA
1 AATAAAG-GAAAT-A
*
46455042 AATAAA-TAAATA
1 AATAAAGGAAATA
46455054 AATAAAGGAAATA
1 AATAAAGGAAATA
46455067 AA
1 AA
46455069 GTGATAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.29
13 11 0.46
15 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (13 bp):
AATAAAGGAAATA
Found at i:46464868 original size:3 final size:3
Alignment explanation
Indices: 46464860--46464920 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
46464850 GCCATTAGTC
46464860 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46464908 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
46464921 ATATCCCCTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46464972 original size:20 final size:21
Alignment explanation
Indices: 46464937--46464978 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
46464927 CCTCCTCCCA
46464937 TATGAGAATAAAAGGGAAAAT
1 TATGAGAATAAAAGGGAAAAT
46464958 TATGAGAAT-AAAGGGAAAAT
1 TATGAGAATAAAAGGGAAAAT
46464978 T
1 T
46464979 CATCATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (21 bp):
TATGAGAATAAAAGGGAAAAT
Found at i:46465587 original size:31 final size:31
Alignment explanation
Indices: 46465544--46465608 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
46465534 TATGTATATC
46465544 ATTAATTAAAATA-A-TGTCTTAATATATTTTA
1 ATTAATTAAAATACAGT-TCTTAATAT-TTTTA
*
46465575 ATTAA-TATAAATACAGTTTTTAATATTTTTA
1 ATTAATTA-AAATACAGTTCTTAATATTTTTA
46465606 ATT
1 ATT
46465609 TGTAATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
30 2 0.07
31 18 0.60
32 9 0.30
33 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (31 bp):
ATTAATTAAAATACAGTTCTTAATATTTTTA
Found at i:46465641 original size:35 final size:37
Alignment explanation
Indices: 46465601--46465676 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
46465591 TTTTTAATAT
* * * *
46465601 TTTTAATTTGTAATTAT-C-ATTTAACATAAATATTA
1 TTTTAATTTATAAATATACTATTGAACACAAATATTA
*
46465636 TTTTAATTTATAAATATACTATTGAATACAAATATTA
1 TTTTAATTTATAAATATACTATTGAACACAAATATTA
46465673 TTTT
1 TTTT
46465677 TGAAAATGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 15 0.44
36 1 0.03
37 18 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (37 bp):
TTTTAATTTATAAATATACTATTGAACACAAATATTA
Found at i:46470416 original size:39 final size:39
Alignment explanation
Indices: 46470367--46470448 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
46470357 AAAAGTTTGT
46470367 ATTT-TTAATTATAATTGATGTAATTACTAATTACTCAA
1 ATTTATTAATTATAATTGATGTAATTACTAATTACTCAA
46470405 ATTTATTAATTATAATTGATGTAATTACTAATTACTCAA
1 ATTTATTAATTATAATTGATGTAATTACTAATTACTCAA
46470444 ATTTA
1 ATTTA
46470449 AGTTATACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.09
39 39 0.91
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (39 bp):
ATTTATTAATTATAATTGATGTAATTACTAATTACTCAA
Found at i:46472202 original size:23 final size:23
Alignment explanation
Indices: 46472157--46472205 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
46472147 TTAAAAGTTG
*
46472157 AAATAGAAAATTAAAAATGAAAA
1 AAATAGAAAATTAAAAATAAAAA
* **
46472180 AAATTGAAAATTAAATTTAAAAA
1 AAATAGAAAATTAAAAATAAAAA
46472203 AAA
1 AAA
46472206 GACTAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (23 bp):
AAATAGAAAATTAAAAATAAAAA
Found at i:46473586 original size:147 final size:147
Alignment explanation
Indices: 46473429--46473725 Score: 585
Period size: 147 Copynumber: 2.0 Consensus size: 147
46473419 TAAAATATAT
46473429 TAACAATTAGTTTATTAACTCAAATATTATAATAAAAAAATAAATAATAATTAAAAAAAGTTGGC
1 TAACAATTAGTTTATTAACTCAAATATTATAATAAAAAAATAAATAATAATTAAAAAAAGTTGGC
46473494 ATCATAATTTAAGTTAATAATAAAATAGAATACTAAATAGAAATAAAATATTGTATATTATACCA
66 ATCATAATTTAAGTTAATAATAAAATAGAATACTAAATAGAAATAAAATATTGTATATTATACCA
*
46473559 AAAAATTAATACAACAG
131 AAAAATTAATACAAAAG
46473576 TAACAATTAGTTTATTAACTCAAATATTATAATAAAAAAATAAATAATAATTAAAAAAAGTTGGC
1 TAACAATTAGTTTATTAACTCAAATATTATAATAAAAAAATAAATAATAATTAAAAAAAGTTGGC
46473641 ATCATAATTTAAGTTAATAATAAAATAGAATACTAAATAGAAATAAAATATTGTATATTATACCA
66 ATCATAATTTAAGTTAATAATAAAATAGAATACTAAATAGAAATAAAATATTGTATATTATACCA
46473706 AAAAATTAATACAAAAG
131 AAAAATTAATACAAAAG
46473723 TAA
1 TAA
46473726 AAAAAATAAT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 149 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (147 bp):
TAACAATTAGTTTATTAACTCAAATATTATAATAAAAAAATAAATAATAATTAAAAAAAGTTGGC
ATCATAATTTAAGTTAATAATAAAATAGAATACTAAATAGAAATAAAATATTGTATATTATACCA
AAAAATTAATACAAAAG
Found at i:46474417 original size:12 final size:12
Alignment explanation
Indices: 46474402--46474431 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
46474392 TCGGTGTTCT
46474402 TGGTGGCAGCAG
1 TGGTGGCAGCAG
46474414 TGGTGGCAGCAG
1 TGGTGGCAGCAG
46474426 TGGTGG
1 TGGTGG
46474432 GTGTTACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.53, T:0.20
Consensus pattern (12 bp):
TGGTGGCAGCAG
Found at i:46479166 original size:4 final size:4
Alignment explanation
Indices: 46479157--46479235 Score: 52
Period size: 4 Copynumber: 18.2 Consensus size: 4
46479147 ACAAATAAAA
*
46479157 AAAG AAAG AAAG AAAAG AAAG CCAAAG CCAAACG AAA- ATAG AAAGG AAAG
1 AAAG AAAG AAAG -AAAG AAAG --AAAG --AAA-G AAAG AAAG AAA-G AAAG
* **
46479207 AAAG AAAA AAAG AAAG AGTG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
46479236 CGCAAGGCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
3 2 0.03
4 38 0.62
5 11 0.18
6 9 0.15
7 1 0.02
ACGTcount: A:0.68, C:0.06, G:0.23, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:46482639 original size:41 final size:41
Alignment explanation
Indices: 46482594--46482777 Score: 191
Period size: 41 Copynumber: 4.6 Consensus size: 41
46482584 CTTCGAGTCT
46482594 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
* * **
46482635 ATGAGACACTGGGTGCCAA-TT--TACTTCGG-TTTAGCCG
1 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
* * * *
46482672 ATGAGACACTGGGTGTCAAATTATTACCTCGAATT-A-TCTG
1 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC-G
* *
46482712 ATGAGACACTGGGTGTCAATTTAATACTTCGGATTAATTTG
1 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
** * *
46482753 ATGAGGTACTAGGTGCCAATTTACT
1 ATGAGACACTGGGTGTCAATTTACT
46482778 TCAGTTTAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
37 23 0.19
38 10 0.08
39 1 0.01
40 41 0.35
41 42 0.36
42 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
Found at i:46482726 original size:40 final size:40
Alignment explanation
Indices: 46482594--46482849 Score: 195
Period size: 40 Copynumber: 6.5 Consensus size: 40
46482584 CTTCGAGTCT
* * *
46482594 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT-TCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCT-G
* ** * *
46482635 ATGAGACACTGGGTG-CCAA-T-TTACTTCGGTTTAGCCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
*
46482672 ATGAGACACTGGGTGTCAAATTATTACCTCGAATTATCTG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
* * * *
46482712 ATGAGACACTGGGTGTCAATTTAATACTTCGGATTAATTTG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCTG
** * * * *
46482753 ATGAGGTACTAGGTG-CCAA-T-TTACTTC-AGTTTAGCTG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGA-ATTATCTG
* * *
46482790 ATGGGACACTGTGTGTCAAATTATTACTTCGAATTATCCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
* * *
46482830 ATGAGGCACTAGGTGCCAAA
1 ATGAGACACTGGGTGTCAAA
46482850 CTGGTGTGTT
Statistics
Matches: 164, Mismatches: 41, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
37 30 0.18
38 24 0.15
39 4 0.02
40 74 0.45
41 32 0.20
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCTG
Found at i:46482806 original size:118 final size:118
Alignment explanation
Indices: 46482594--46482844 Score: 385
Period size: 118 Copynumber: 2.1 Consensus size: 118
46482584 CTTCGAGTCT
* *
46482594 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCGATGAGACACTGGGTGCCAATTTAC
1 ATGAGACACTGGGTGTCAATTTAATACTTCGGATTAATTCGATGAGACACTAGGTGCCAATTTAC
* *
46482659 TTCGGTTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATCTG
66 TTCAGTTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATCCG
* **
46482712 ATGAGACACTGGGTGTCAATTTAATACTTCGGATTAATTTGATGAGGTACTAGGTGCCAATTTAC
1 ATGAGACACTGGGTGTCAATTTAATACTTCGGATTAATTCGATGAGACACTAGGTGCCAATTTAC
* * * *
46482777 TTCAGTTTAGCTGATGGGACACTGTGTGTCAAATTATTACTTCGAATTATCCG
66 TTCAGTTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATCCG
* *
46482830 ATGAGGCACTAGGTG
1 ATGAGACACTGGGTG
46482845 CCAAACTGGT
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 120 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (118 bp):
ATGAGACACTGGGTGTCAATTTAATACTTCGGATTAATTCGATGAGACACTAGGTGCCAATTTAC
TTCAGTTTAGCCGATGAGACACTGGGTGTCAAATTATTACCTCGAATTATCCG
Found at i:46485896 original size:12 final size:12
Alignment explanation
Indices: 46485879--46485920 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
46485869 TCGGTGTTCT
46485879 TGGTGGCAGCAG
1 TGGTGGCAGCAG
46485891 TGGTGGCAGCAG
1 TGGTGGCAGCAG
46485903 TGGTGGCAGCAG
1 TGGTGGCAGCAG
46485915 TGGTGG
1 TGGTGG
46485921 TAAAAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.14, C:0.14, G:0.52, T:0.19
Consensus pattern (12 bp):
TGGTGGCAGCAG
Found at i:46492725 original size:13 final size:13
Alignment explanation
Indices: 46492704--46492733 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46492694 GCTTGGATCA
46492704 TCATCAAATAAAT
1 TCATCAAATAAAT
*
46492717 TCATGAAATAAAT
1 TCATCAAATAAAT
46492730 TCAT
1 TCAT
46492734 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:46492998 original size:29 final size:30
Alignment explanation
Indices: 46492947--46493003 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46492937 CGTCGACTCT
46492947 AACTTTATCAAAATTACGATTTTACCCCTA
1 AACTTTATCAAAATTACGATTTTACCCCTA
* * *
46492977 AACTTTTTCATAATTAC-ATTTTTCCCC
1 AACTTTATCAAAATTACGATTTTACCCC
46493004 AAGGCCCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
AACTTTATCAAAATTACGATTTTACCCCTA
Found at i:46495135 original size:15 final size:15
Alignment explanation
Indices: 46495111--46495145 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46495101 ATTTTACATG
46495111 ATAA-TATTATGATT
1 ATAATTATTATGATT
*
46495125 ATAATTATTATTATT
1 ATAATTATTATGATT
46495140 ATAATT
1 ATAATT
46495146 GCTGCTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATAATTATTATGATT
Found at i:46503141 original size:13 final size:13
Alignment explanation
Indices: 46503123--46503154 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46503113 ATAATAATGC
*
46503123 ATTTTTTAATATT
1 ATTTTTTAAAATT
46503136 ATTTTTTAAAATT
1 ATTTTTTAAAATT
46503149 ATTTTT
1 ATTTTT
46503155 AAATCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTAAAATT
Found at i:46509053 original size:23 final size:23
Alignment explanation
Indices: 46508983--46509091 Score: 131
Period size: 23 Copynumber: 5.0 Consensus size: 23
46508973 CCTGATTAGT
46508983 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
46509004 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
46509024 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
46509047 ATACGACACATAAAGTGCCTG-G
1 ATACGACACATAAAGTGCCTGAG
*
46509069 TGTACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
46509092 TCGGCAAAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
20 9 0.12
21 23 0.31
22 1 0.01
23 42 0.56
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:46510163 original size:18 final size:18
Alignment explanation
Indices: 46510142--46510176 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46510132 TAGTTTTTTC
*
46510142 TTTCTCTCTTTTTTTCTT
1 TTTCTCTCTTTCTTTCTT
*
46510160 TTTCTTTCTTTCTTTCT
1 TTTCTCTCTTTCTTTCT
46510177 CCCCTGTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTCTCTTTCTTTCTT
Found at i:46510578 original size:40 final size:40
Alignment explanation
Indices: 46510513--46510607 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
46510503 TGTTATACTC
* * *
46510513 TATGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TATGTCCGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCT
*
46510553 TCTGTCCGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCT
1 TATGTCCGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCT
* *
46510593 TATGTCTGGTGTGTT
1 TATGTCCGGCGTGTT
46510608 CGGTTGATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.12, C:0.15, G:0.29, T:0.44
Consensus pattern (40 bp):
TATGTCCGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCT
Found at i:46511326 original size:12 final size:13
Alignment explanation
Indices: 46511301--46511329 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46511291 GATTAAAGTC
46511301 ATTTTGATTTGGT
1 ATTTTGATTTGGT
46511314 ATTTTGA-TTGGT
1 ATTTTGATTTGGT
46511326 ATTT
1 ATTT
46511330 GAGTTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (13 bp):
ATTTTGATTTGGT
Found at i:46511580 original size:12 final size:12
Alignment explanation
Indices: 46511565--46511589 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46511555 TTATATGTTT
46511565 TTTTATTTTTAA
1 TTTTATTTTTAA
46511577 TTTTATTTTTAA
1 TTTTATTTTTAA
46511589 T
1 T
46511590 AAATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:46511753 original size:18 final size:18
Alignment explanation
Indices: 46511730--46511766 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46511720 AGTGGGTATC
46511730 ACGATATCGAAGTATGGA
1 ACGATATCGAAGTATGGA
46511748 ACGATATCGAAGTATGGA
1 ACGATATCGAAGTATGGA
46511766 A
1 A
46511767 GTGTAATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
ACGATATCGAAGTATGGA
Found at i:46514255 original size:15 final size:15
Alignment explanation
Indices: 46514235--46514268 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46514225 AATAACCTTG
46514235 TTATTA-TTATTATTT
1 TTATTATTTATT-TTT
46514250 TTATTATTTATTTTT
1 TTATTATTTATTTTT
46514265 TTAT
1 TTAT
46514269 ATAATTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTATTTATTTTT
Found at i:46517433 original size:13 final size:14
Alignment explanation
Indices: 46517405--46517437 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
46517395 AATGTTGAAG
46517405 TTTGATTTTGTTTTT
1 TTTG-TTTTGTTTTT
46517420 TTTGTTTT-TTTTT
1 TTTGTTTTGTTTTT
46517433 TTTGT
1 TTTGT
46517438 GTACCAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 4 0.22
15 4 0.22
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (14 bp):
TTTGTTTTGTTTTT
Found at i:46518037 original size:38 final size:39
Alignment explanation
Indices: 46517977--46518053 Score: 138
Period size: 38 Copynumber: 2.0 Consensus size: 39
46517967 ATCCAACCCA
*
46517977 ACCCAATTACCGAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCGAACCCAATAAAAATAAAACTAAAGTCT
46518016 ACCCAATTACC-AACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCGAACCCAATAAAAATAAAACTAAAGTCT
46518054 GACTCTTAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 26 0.70
39 11 0.30
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCGAACCCAATAAAAATAAAACTAAAGTCT
Found at i:46518215 original size:37 final size:38
Alignment explanation
Indices: 46518191--46518265 Score: 105
Period size: 40 Copynumber: 1.9 Consensus size: 38
46518181 TAATTTTAAG
*
46518191 AATTATATAATATTTTTAATTATGTAGTGATTCAAAGA
1 AATTATATAATATTTTTAATTATGTAGTAATTCAAAGA
* *
46518229 CTAATTATGTAATATTTTTAATTATGTAGTGATTCAA
1 --AATTATATAATATTTTTAATTATGTAGTAATTCAA
46518266 TTCGGGTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.47
Consensus pattern (38 bp):
AATTATATAATATTTTTAATTATGTAGTAATTCAAAGA
Found at i:46519080 original size:14 final size:13
Alignment explanation
Indices: 46519049--46519096 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
46519039 ATAATAATGC
46519049 ATTTTATAAAATT
1 ATTTTATAAAATT
*
46519062 ATTTTTTAAAATT
1 ATTTTATAAAATT
*
46519075 ATTTT-T-AAATC
1 ATTTTATAAAATT
46519086 ATTTTA-AAAAT
1 ATTTTATAAAAT
46519097 AATATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 9 0.29
12 5 0.16
13 17 0.55
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:46519084 original size:11 final size:12
Alignment explanation
Indices: 46519049--46519106 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 12
46519039 ATAATAATGC
46519049 ATTTTATAAAATT
1 ATTTT-TAAAATT
46519062 ATTTTTTAAAATT
1 A-TTTTTAAAATT
*
46519075 ATTTTT-AAATC
1 ATTTTTAAAATT
* *
46519086 ATTTTAAAAATA
1 ATTTTTAAAATT
46519098 ATATTTTAA
1 AT-TTTTAA
46519107 TTAAAACTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
11 9 0.24
12 11 0.29
13 14 0.37
14 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTTTAAAATT
Found at i:46526075 original size:13 final size:13
Alignment explanation
Indices: 46526057--46526081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46526047 AATAATTCAT
46526057 TTTATAATATTAG
1 TTTATAATATTAG
46526070 TTTATAATATTA
1 TTTATAATATTA
46526082 TTTTTAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTATAATATTAG
Found at i:46526448 original size:15 final size:15
Alignment explanation
Indices: 46526430--46526467 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
46526420 ACTCAACCAT
46526430 ATATATATATATATA
1 ATATATATATATATA
46526445 ATATA-ATTATATATA
1 ATATATA-TATATATA
46526460 AT-TATATA
1 ATATATATA
46526468 AATTACATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:46526472 original size:19 final size:19
Alignment explanation
Indices: 46526433--46526468 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46526423 CAACCATATA
46526433 TATATATATATAATATAAT
1 TATATATATATAATATAAT
*
46526452 TATATATA-ATTATATAA
1 TATATATATATAATATAA
46526469 ATTACATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATATATAATATAAT
Found at i:46531718 original size:3 final size:3
Alignment explanation
Indices: 46531710--46531743 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46531700 GCCAAATCCG
46531710 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
46531744 GTGTTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46532603 original size:18 final size:19
Alignment explanation
Indices: 46532580--46532619 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
46532570 ACAAAGTAAT
*
46532580 ATATCTCCGTTTATA-AAC
1 ATATCTCCGTTCATACAAC
*
46532598 ATATCTTCGTTCATACAAC
1 ATATCTCCGTTCATACAAC
46532617 ATA
1 ATA
46532620 CACACTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATCTCCGTTCATACAAC
Found at i:46543896 original size:13 final size:13
Alignment explanation
Indices: 46543878--46543904 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46543868 ATAATTTTAC
46543878 TATTTTTATTTTT
1 TATTTTTATTTTT
46543891 TATTTTTATTTTT
1 TATTTTTATTTTT
46543904 T
1 T
46543905 GAGTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTATTTTT
Found at i:46544569 original size:13 final size:13
Alignment explanation
Indices: 46544551--46544590 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
46544541 TGACATTTCA
46544551 GAGTTTA-ATGTTT
1 GAGTTTAGA-GTTT
46544564 GAGTTTAGAGTTT
1 GAGTTTAGAGTTT
46544577 GAGATTTAGAGTTT
1 GAG-TTTAGAGTTT
46544591 AAGATTCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (13 bp):
GAGTTTAGAGTTT
Found at i:46544586 original size:14 final size:14
Alignment explanation
Indices: 46544560--46544596 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
46544550 AGAGTTTAAT
46544560 GTTTGAG-TTTAGA
1 GTTTGAGATTTAGA
46544573 GTTTGAGATTTAGA
1 GTTTGAGATTTAGA
*
46544587 GTTTAAGATT
1 GTTTGAGATT
46544597 CTGGATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (14 bp):
GTTTGAGATTTAGA
Found at i:46551920 original size:80 final size:80
Alignment explanation
Indices: 46551816--46551967 Score: 270
Period size: 80 Copynumber: 1.9 Consensus size: 80
46551806 TGTACCACAA
46551816 GTTATATACTACGTGCCTATATATAAAACACAATAAT-ACTATTTTTATTATTCTATATTTGCTG
1 GTTATATACTACGTGCCTATATATAAAACACAATAATGAC-ATTTTTATTATTCTATATTTGCTG
46551880 TTTCAAGACGGTACAT
65 TTTCAAGACGGTACAT
* *
46551896 GTTATATACTACGTGTCTATATATAAAACTCAATAATGACATTTTTATTATTCTATATTTGCTGT
1 GTTATATACTACGTGCCTATATATAAAACACAATAATGACATTTTTATTATTCTATATTTGCTGT
46551961 TTCAAGA
66 TTCAAGA
46551968 GTTGTATTGT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
80 67 0.97
81 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (80 bp):
GTTATATACTACGTGCCTATATATAAAACACAATAATGACATTTTTATTATTCTATATTTGCTGT
TTCAAGACGGTACAT
Found at i:46562940 original size:3 final size:3
Alignment explanation
Indices: 46562932--46562970 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
46562922 ATGATCATGA
* * *
46562932 CAT CAT CAT CAT CAT CTT CTT CAT CAT CAT CAT CTT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
46562971 ACTGGGTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (3 bp):
CAT
Found at i:46562957 original size:15 final size:15
Alignment explanation
Indices: 46562932--46562970 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
46562922 ATGATCATGA
*
46562932 CATCATCATCATCAT
1 CATCTTCATCATCAT
*
46562947 CTTCTTCATCATCAT
1 CATCTTCATCATCAT
46562962 CATCTTCAT
1 CATCTTCAT
46562971 ACTGGGTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (15 bp):
CATCTTCATCATCAT
Found at i:46562957 original size:18 final size:18
Alignment explanation
Indices: 46562934--46562968 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46562924 GATCATGACA
46562934 TCATCATCATCATCTTCT
1 TCATCATCATCATCTTCT
46562952 TCATCATCATCATCTTC
1 TCATCATCATCATCTTC
46562969 ATACTGGGTT
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:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (18 bp):
TCATCATCATCATCTTCT
Found at i:46564426 original size:24 final size:25
Alignment explanation
Indices: 46564399--46564448 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
46564389 AATTATTGGA
* *
46564399 ATTAAT-AAATTTTATTTAAATATT
1 ATTAATAAAATTTGAATTAAATATT
*
46564423 ATTATTAAAATTTGAATTAAATATT
1 ATTAATAAAATTTGAATTAAATATT
46564448 A
1 A
46564449 CTTTTTGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTAATAAAATTTGAATTAAATATT
Found at i:46606932 original size:20 final size:22
Alignment explanation
Indices: 46606890--46606932 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46606880 TGAAATCTAG
* *
46606890 ATAACTACACAACTACATGAAC
1 ATAACTACACAACTAAATCAAC
46606912 ATAACTACA-AA-TAAATCAAC
1 ATAACTACACAACTAAATCAAC
46606932 A
1 A
46606933 ATTGCAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAACTACACAACTAAATCAAC
Found at i:46614066 original size:19 final size:20
Alignment explanation
Indices: 46614028--46614068 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
46614018 AATGGTGCTA
*
46614028 AATTTTGATTAGTATTTAGC
1 AATTTTAATTAGTATTTAGC
*
46614048 AATTTTAATTTGT-TTTAGC
1 AATTTTAATTAGTATTTAGC
46614067 AA
1 AA
46614069 CTTGGCAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (20 bp):
AATTTTAATTAGTATTTAGC
Found at i:46619077 original size:17 final size:17
Alignment explanation
Indices: 46619055--46619091 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
46619045 TCTATTAGAC
46619055 ATTTT-AAAAATGGTTCA
1 ATTTTAAAAAATGGTT-A
46619072 ATTTTAAAAAATGGTTA
1 ATTTTAAAAAATGGTTA
46619089 ATT
1 ATT
46619092 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (17 bp):
ATTTTAAAAAATGGTTA
Found at i:46620600 original size:73 final size:70
Alignment explanation
Indices: 46620453--46620679 Score: 216
Period size: 73 Copynumber: 3.2 Consensus size: 70
46620443 AGAATAGTAA
* * ***
46620453 ATAAATAGATAAAATAAATAATAAATAACATCAAATTTAAACGTTTAAAAAGTAAA-AGA-AA-A
1 ATAAATAGATAAAA-CAAT-ATAAATAACATTAAATTTAAGTATTTAAAAAGTAAAGA-ATAATA
*
46620515 AA-CAA--
63 AATAAATG
* *
46620520 ATAAATAGATAAAACACATATAAATAACATTCAATTTAAGTATTTAAAATGTAATAGAATAATAA
1 ATAAATAGATAAAACA-ATATAAATAACATTAAATTTAAGTATTTAAAAAGTAA-AGAATAATAA
*
46620585 GTAAATAG
64 ATAAAT-G
* * *
46620593 ATAAATAGATAAAGCTAATATAAATAAGATTAAATTTAGGTATTTAAAAAGTAAAGAATAATAAA
1 ATAAATAGATAAAAC-AATATAAATAACATTAAATTTAAGTATTTAAAAAGTAAAGAATAATAAA
46620658 TAAATG
65 TAAATG
* *
46620664 A-ATATATATAAAACAA
1 ATAAATAGATAAAACAA
46620680 ATATGGATAG
Statistics
Matches: 132, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
66 30 0.23
67 18 0.14
68 3 0.02
69 4 0.03
70 12 0.09
71 2 0.02
72 15 0.11
73 47 0.36
74 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.27
Consensus pattern (70 bp):
ATAAATAGATAAAACAATATAAATAACATTAAATTTAAGTATTTAAAAAGTAAAGAATAATAAAT
AAATG
Found at i:46634509 original size:16 final size:17
Alignment explanation
Indices: 46634476--46634513 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
46634466 TTTAGTTTAA
*
46634476 TTAATATAATTGATATT
1 TTAATAAAATTGATATT
46634493 TTAATAAAATT-ATATT
1 TTAATAAAATTGATATT
46634509 TTAAT
1 TTAAT
46634514 TTTCAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAATAAAATTGATATT
Found at i:46635359 original size:23 final size:24
Alignment explanation
Indices: 46635315--46635362 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
46635305 AAACAATGAG
46635315 AATAAAAGATTATGATAATTTAAAA
1 AATAAAAGA-TATGATAATTTAAAA
**
46635340 AATAAAAGA-ATGATTGTTTAAAA
1 AATAAAAGATATGATAATTTAAAA
46635363 CTTTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
25 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.31
Consensus pattern (24 bp):
AATAAAAGATATGATAATTTAAAA
Found at i:46636366 original size:36 final size:36
Alignment explanation
Indices: 46636314--46636388 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
46636304 ACTTGAAAGA
46636314 TGCAGCCATTGAAGCTGAAGTTCTAGTATGTGGTGG
1 TGCAGCCATTGAAGCTGAAGTTCTAGTATGTGGTGG
46636350 TGCAGCCAATTG-AGCTGAAGTTCTAGTATGTGGTGG
1 TGCAGCC-ATTGAAGCTGAAGTTCTAGTATGTGGTGG
46636386 TGC
1 TGC
46636389 TCCTAAAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 34 0.89
37 4 0.11
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (36 bp):
TGCAGCCATTGAAGCTGAAGTTCTAGTATGTGGTGG
Found at i:46657871 original size:35 final size:35
Alignment explanation
Indices: 46657832--46657900 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
46657822 ATAAAAAATT
* *
46657832 ATATTTTATATTTTTTAA-TTCAATTTAAATTTAAA
1 ATATTTT-TATTATTTAAGTTAAATTTAAATTTAAA
*
46657867 ATATTTTTATTATTTAAGTTAAATTTCAATTTAA
1 ATATTTTTATTATTTAAGTTAAATTTAAATTTAA
46657901 TCAAACCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (35 bp):
ATATTTTTATTATTTAAGTTAAATTTAAATTTAAA
Found at i:46666401 original size:18 final size:18
Alignment explanation
Indices: 46666374--46666414 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
46666364 TTTATCATTC
* *
46666374 ACTTTTTTTTTTAGTTTT
1 ACTTTATTTTTAAGTTTT
*
46666392 ACTTTATTTTTAATTTTT
1 ACTTTATTTTTAAGTTTT
46666410 ACTTT
1 ACTTT
46666415 TAAAAGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (18 bp):
ACTTTATTTTTAAGTTTT
Found at i:46679484 original size:29 final size:29
Alignment explanation
Indices: 46679425--46679489 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
46679415 AGAAATCTGG
* * **
46679425 TTAAATTAGTTCCTTTACTATTAAATGGA
1 TTAAATTAGTTCATGTACTATTAAAAAGA
* *
46679454 TTAACTTAGTTCATGTATTATTAAAAAGA
1 TTAAATTAGTTCATGTACTATTAAAAAGA
46679483 TTCAAAT
1 TT-AAAT
46679490 AAAGTTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (29 bp):
TTAAATTAGTTCATGTACTATTAAAAAGA
Found at i:46684466 original size:5 final size:5
Alignment explanation
Indices: 46684456--46684481 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46684446 ATCCAATTTT
46684456 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
46684482 TTTACTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:46689397 original size:28 final size:29
Alignment explanation
Indices: 46689337--46689397 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
46689327 AAAAACCCTT
*
46689337 TTTTTTCAATATTTACCGAAATGGGCCGG
1 TTTTTTCAATATTTACCGAAATGGGCCGA
* *
46689366 TTTTTT-AATTATTTACCGGAATGGTCC-A
1 TTTTTTCAA-TATTTACCGAAATGGGCCGA
46689394 TTTT
1 TTTT
46689398 CCACGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (29 bp):
TTTTTTCAATATTTACCGAAATGGGCCGA
Found at i:46702047 original size:31 final size:31
Alignment explanation
Indices: 46702012--46702077 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
46702002 TATTCATATT
* *
46702012 GTTATTTTCAGTTGGGCCATTTGACTAATGG
1 GTTATTTCCAGTTGGGACATTTGACTAATGG
* *
46702043 GTTATTTCCATTTGGGACATTTGATTAATGG
1 GTTATTTCCAGTTGGGACATTTGACTAATGG
46702074 GTTA
1 GTTA
46702078 AGCCCACTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (31 bp):
GTTATTTCCAGTTGGGACATTTGACTAATGG
Found at i:46702694 original size:6 final size:6
Alignment explanation
Indices: 46702683--46702713 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
46702673 AAATTTCGGG
46702683 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
46702714 ACTTTGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:46718503 original size:3 final size:3
Alignment explanation
Indices: 46718495--46718529 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46718485 CATTGACGTA
46718495 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
46718530 ACTGACCTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46718751 original size:21 final size:22
Alignment explanation
Indices: 46718725--46718767 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
46718715 TTAAAGCTTA
46718725 AACTGAAACC-AAAGGATTGAC
1 AACTGAAACCAAAAGGATTGAC
*
46718746 AACTGAAACCAAAAGGTTTGAC
1 AACTGAAACCAAAAGGATTGAC
46718768 CTTTAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (22 bp):
AACTGAAACCAAAAGGATTGAC
Found at i:46723931 original size:7 final size:7
Alignment explanation
Indices: 46723919--46723946 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
46723909 CAAACAAACA
46723919 ATAATAT
1 ATAATAT
46723926 ATAATAT
1 ATAATAT
46723933 ATAATAT
1 ATAATAT
46723940 ATAATAT
1 ATAATAT
46723947 TAGGTAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:46729296 original size:2 final size:2
Alignment explanation
Indices: 46729289--46729315 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46729279 ATTTATACAT
46729289 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
46729316 TTGCAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46731140 original size:19 final size:19
Alignment explanation
Indices: 46731116--46731152 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46731106 CACACTAACA
46731116 TAATTAAAAATTATTATTT
1 TAATTAAAAATTATTATTT
* *
46731135 TAATTAAATATTTTTATT
1 TAATTAAAAATTATTATT
46731153 AAATAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTAAAAATTATTATTT
Found at i:46743569 original size:79 final size:80
Alignment explanation
Indices: 46743481--46743628 Score: 235
Period size: 79 Copynumber: 1.9 Consensus size: 80
46743471 TTGATCCGCG
* * *
46743481 CATTAAAATCATGCTTTAATTTTGTTATAATATTATTGTTTTCGTGTGCTTTAAAAATATAAATT
1 CATTAAAATCATGCTTTAATTATGTTATAATATTATTATTTTCGTATGCTTTAAAAATATAAATT
46743546 TCAAATCGATCTGCA
66 TCAAATCGATCTGCA
* * *
46743561 CATT-AAATCGTGTTTTAATTATGTTATAATATTATTATTTTTGTATGCTTTAAAAATATAAATT
1 CATTAAAATCATGCTTTAATTATGTTATAATATTATTATTTTCGTATGCTTTAAAAATATAAATT
46743625 TCAA
66 TCAA
46743629 CAATAATGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 58 0.94
80 4 0.06
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (80 bp):
CATTAAAATCATGCTTTAATTATGTTATAATATTATTATTTTCGTATGCTTTAAAAATATAAATT
TCAAATCGATCTGCA
Found at i:46745038 original size:18 final size:19
Alignment explanation
Indices: 46745011--46745046 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46745001 TCGAATTAAG
*
46745011 AAATACTTTTAT-TATTTT
1 AAATAATTTTATATATTTT
46745029 AAATAATTTTATATATTT
1 AAATAATTTTATATATTT
46745047 GCATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
AAATAATTTTATATATTTT
Found at i:46751165 original size:22 final size:21
Alignment explanation
Indices: 46751125--46751166 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
46751115 TCAACGTTTC
46751125 TTTAATAATTTTATTATATAT
1 TTTAATAATTTTATTATATAT
46751146 TTTAATCATATTTT-TTATATA
1 TTTAAT-A-ATTTTATTATATA
46751167 ATGTTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAATAATTTTATTATATAT
Found at i:46752243 original size:21 final size:20
Alignment explanation
Indices: 46752107--46752245 Score: 76
Period size: 19 Copynumber: 7.0 Consensus size: 20
46752097 TAAAGAAAGG
46752107 TTGTAAAAAAA-TATTAAAA
1 TTGTAAAAAAATTATTAAAA
* ** *
46752126 AT-TATAAAAAA-GCTGAAAA
1 TTGTA-AAAAAATTATTAAAA
* *
46752145 TTATAAAAAAAATTAAATAAAA
1 TTGT-AAAAAAATT-ATTAAAA
* *
46752167 TAGT-ACAAAA-TATTAAAA
1 TTGTAAAAAAATTATTAAAA
* *
46752185 TTTGT-AAATAATTATCAAATA
1 -TTGTAAAAAAATTATTAAA-A
*
46752206 TTGTAAAAATATT-TTAAAA
1 TTGTAAAAAAATTATTAAAA
46752225 TTGTAAAAAAAGTTATTAAAA
1 TTGTAAAAAAA-TTATTAAAA
46752246 ATTATGAAGT
Statistics
Matches: 88, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
18 8 0.09
19 32 0.36
20 28 0.32
21 14 0.16
22 6 0.07
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (20 bp):
TTGTAAAAAAATTATTAAAA
Found at i:46761714 original size:26 final size:27
Alignment explanation
Indices: 46761670--46761723 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
46761660 CCAAAATAAA
*
46761670 AGAAATAAGAATTATTAA-TATATTAC
1 AGAAATAAAAATTATTAATTATATTAC
*
46761696 AGAAATAAAAATGTA-TAATTTTATTAC
1 AGAAATAAAAAT-TATTAATTATATTAC
46761723 A
1 A
46761724 TTTATAACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (27 bp):
AGAAATAAAAATTATTAATTATATTAC
Found at i:46769390 original size:31 final size:31
Alignment explanation
Indices: 46769355--46769421 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
46769345 GAAAACACTA
*
46769355 AAGTTCAAGCTCCAATG-GGAGAACAATTGTC
1 AAGTTCAAGCCCCAATGTGG-GAACAATTGTC
* * *
46769386 AAGTTCAGGCCCCAGTGTTGGAACAATTGTC
1 AAGTTCAAGCCCCAATGTGGGAACAATTGTC
46769417 AAGTT
1 AAGTT
46769422 TTGGGACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (31 bp):
AAGTTCAAGCCCCAATGTGGGAACAATTGTC
Found at i:46777688 original size:28 final size:28
Alignment explanation
Indices: 46777656--46777709 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
46777646 CATAAATAAA
*
46777656 TAAATCCGAAA-CTCAAAATCTAAAATCT
1 TAAATCCGAAATC-CAAAAACTAAAATCT
*
46777684 TAAATTCGAAATCCAAAAACTAAAAT
1 TAAATCCGAAATCCAAAAACTAAAAT
46777710 TCGAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.24
Consensus pattern (28 bp):
TAAATCCGAAATCCAAAAACTAAAATCT
Found at i:46777695 original size:21 final size:21
Alignment explanation
Indices: 46777671--46777715 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
46777661 CCGAAACTCA
* * *
46777671 AAATCTAAAATCTTAAATTCG
1 AAATCCAAAAACTAAAATTCG
46777692 AAATCCAAAAACTAAAATTCG
1 AAATCCAAAAACTAAAATTCG
46777713 AAA
1 AAA
46777716 AAATAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATCCAAAAACTAAAATTCG
Found at i:46781770 original size:130 final size:130
Alignment explanation
Indices: 46781549--46781833 Score: 448
Period size: 130 Copynumber: 2.2 Consensus size: 130
46781539 ATTCTAATGC
* * *
46781549 TATGTTTAAGAACGTGAACTTGAAA-ATTTGAATTTAGGTTTCAATTACTCTATAAATCGTGAGG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAATTTAGATTTCAATTACTCTATAAATCGTCAGG
*
46781613 AGAATGAAATTTATACTTAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTAG
66 AGAATGAAATTTATACTCAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTAG
* *
46781678 TATGATTAAGAACGTGAATTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATC-TCCAG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAATTTAGATTTCAATTACTCTATAAATCGT-CAG
* * *
46781742 GAGAATGAAATTTCTACTCGAAATTAGTTGAGTTTCAGTATGATTATATATTTCGAATTCAATTA
65 GAGAATGAAATTTATACTCAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTA
46781807 G
130 G
* *
46781808 CATGATTAAGAACATGAACTTGAAAG
1 TATGATTAAGAACGTGAACTTGAAAG
46781834 CTAATGTTTA
Statistics
Matches: 142, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
129 24 0.17
130 118 0.83
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (130 bp):
TATGATTAAGAACGTGAACTTGAAAGATTTGAATTTAGATTTCAATTACTCTATAAATCGTCAGG
AGAATGAAATTTATACTCAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTAG
Found at i:46782110 original size:130 final size:129
Alignment explanation
Indices: 46781836--46782137 Score: 369
Period size: 130 Copynumber: 2.3 Consensus size: 129
46781826 CTTGAAAGCT
* * * * * *
46781836 AATGTTTACTTAAATTA-TTCAAGTTTCTGTTTGATTATATATTTCGAATTTATATAGTATGATT
1 AATGTATACTTAAATTAGTT-GAGTTTCAGTATGATTATATATTCCGAATTCATATAGTATGATT
* **
46781900 AAGAACAGGAACTTGAAAGCTTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAGGGGAGTAA
65 AAGAACAGGAACTTGAAAGCTTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAGGAGAAAAA
*** * *
46781965 AACACATATTTAAATTAGTTGAGTTTCAGCATGATTATATATTCCGAATTCAGT-TAGTATGATT
1 AATGTATACTTAAATTAGTTGAGTTTCAGTATGATTATATATTCCGAATTCA-TATAGTATGATT
* * *
46782029 AAGAACATGAA-TTTAAAGACATTTGAGTTTAGATTTCAATTACTGTATAAATCGTGAGGAGAAA
65 AAGAACAGGAACTTGAAAG-C-TTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAGGAGAAA
46782093 AA
128 AA
*
46782095 AATGTATACTTAAATTAGTTGAGATTT-AGTGTGATTATATATT
1 AATGTATACTTAAATTAGTTGAG-TTTCAGTATGATTATATATT
46782138 TAAAAGATAT
Statistics
Matches: 145, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
128 6 0.04
129 59 0.41
130 77 0.53
131 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (129 bp):
AATGTATACTTAAATTAGTTGAGTTTCAGTATGATTATATATTCCGAATTCATATAGTATGATTA
AGAACAGGAACTTGAAAGCTTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAGGAGAAAAA
Found at i:46782452 original size:35 final size:35
Alignment explanation
Indices: 46782406--46782477 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
46782396 AAAATGGGAA
46782406 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
1 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
46782441 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
1 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
46782476 GA
1 GA
46782478 CTGTTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.15, C:0.14, G:0.24, T:0.47
Consensus pattern (35 bp):
GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
Found at i:46794171 original size:4 final size:4
Alignment explanation
Indices: 46794162--46794215 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
46794152 CATTCAAGTG
46794162 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
46794210 CATA CA
1 CATA CA
46794216 CACACATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:46807309 original size:163 final size:163
Alignment explanation
Indices: 46807039--46807367 Score: 649
Period size: 163 Copynumber: 2.0 Consensus size: 163
46807029 GCCACAAAGC
*
46807039 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATGCAATTCCATGTAATCATAATAAT
1 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAATTCCATGTAATCATAATAAT
46807104 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
66 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
46807169 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
131 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
46807202 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAATTCCATGTAATCATAATAAT
1 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAATTCCATGTAATCATAATAAT
46807267 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
66 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
46807332 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
131 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
46807365 CTG
1 CTG
46807368 AATCAATATT
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 165 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (163 bp):
CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAATTCCATGTAATCATAATAAT
CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
Found at i:46817017 original size:15 final size:15
Alignment explanation
Indices: 46816986--46817016 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
46816976 CAATATCATA
46816986 TACGAATTTTAATTT
1 TACGAATTTTAATTT
46817001 TACGCAATTTTAATTT
1 TACG-AATTTTAATTT
46817017 AATTTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (15 bp):
TACGAATTTTAATTT
Found at i:46819381 original size:16 final size:16
Alignment explanation
Indices: 46819360--46819390 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46819350 TTTTTAAGTT
46819360 ATTTTAAATCAAATAA
1 ATTTTAAATCAAATAA
*
46819376 ATTTTAGATCAAATA
1 ATTTTAAATCAAATA
46819391 TTATCTATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTTTAAATCAAATAA
Found at i:46824417 original size:31 final size:31
Alignment explanation
Indices: 46824381--46824448 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
46824371 TTAACCCCCC
* * **
46824381 GAACTTGGCAATTGTTCACATATTAGGGCTT
1 GAACTTGACAATTGTTCACACATTAGAACTT
46824412 GAACTTGACAATTGTTCACACATTAGAACTT
1 GAACTTGACAATTGTTCACACATTAGAACTT
46824443 GAACTT
1 GAACTT
46824449 TAGGGTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (31 bp):
GAACTTGACAATTGTTCACACATTAGAACTT
Found at i:46827410 original size:14 final size:14
Alignment explanation
Indices: 46827387--46827419 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46827377 TAAAAAAATT
*
46827387 ATAA-AATATATAA
1 ATAATAATATAAAA
46827400 ATAATAATATAAAA
1 ATAATAATATAAAA
46827414 ATAATA
1 ATAATA
46827420 TTTAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATATAAAA
Found at i:46827859 original size:188 final size:178
Alignment explanation
Indices: 46827576--46827906 Score: 450
Period size: 188 Copynumber: 1.8 Consensus size: 178
46827566 TATAAGTTAC
* * * * *
46827576 ATTTGAGTTGTCACTTAACACTAAAAATTTAATGGCTAAACTAATGAAAGGACATGATTGATGCG
1 ATTTGAGTTGTCACTTAACACTAAAAAATTAATAGCTAAACTAATGAAAGGACATAATTGATACC
* * *
46827641 TTACTTGTTATACTCCTAGGTATTACTTGCATCACAATGAAAGAGCCTACGTTGTTATTGACATT
66 TTACTTGTTATACTCCTAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTTGTTATTGACATT
46827706 TAGTAGGCAACGCAATGATACCATTGTCGCAAATCTACCATGGACACG
131 TAGTAGGCAACGCAATGATACCATTGTCGCAAATCTACCATGGACACG
46827754 ATTTGAGTTGTCACTTAACACTCAAAAAAATT-ATAGCTAAACTAATGAAAGGACATAATTGATA
1 ATTTGAGTTGTCACTTAACACT--AAAAAATTAATAGCTAAACTAATGAAAGGACATAATTGATA
*
46827818 CAATACTTACGAGACTTGTTATAC-CTTTAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTT
64 C----CTT-----ACTTGTTATACTC-CTAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTT
*
46827882 GTTGTTGACATTTAGTAGGCAACGC
119 GTTATTGACATTTAGTAGGCAACGC
46827907 CACAATGCAA
Statistics
Matches: 131, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
178 22 0.17
179 30 0.23
180 7 0.05
183 2 0.02
187 1 0.01
188 69 0.53
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (178 bp):
ATTTGAGTTGTCACTTAACACTAAAAAATTAATAGCTAAACTAATGAAAGGACATAATTGATACC
TTACTTGTTATACTCCTAGGCATTACTTGCACCACAAAGAAAGAGCCTACGTTGTTATTGACATT
TAGTAGGCAACGCAATGATACCATTGTCGCAAATCTACCATGGACACG
Found at i:46828937 original size:15 final size:15
Alignment explanation
Indices: 46828896--46828943 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
46828886 AAATATATGA
46828896 AAAAAACATAAAA-AT
1 AAAAAAC-TAAAACAT
* *
46828911 AACCAAATTAAAACAT
1 AA-AAAACTAAAACAT
46828927 AAAAAACTAAAACAT
1 AAAAAACTAAAACAT
46828942 AA
1 AA
46828944 TACAAGGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 20 0.74
16 7 0.26
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAACTAAAACAT
Found at i:46829127 original size:3 final size:3
Alignment explanation
Indices: 46829119--46829144 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46829109 ATTTATCTCT
46829119 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
46829145 ATATATATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:46832402 original size:98 final size:99
Alignment explanation
Indices: 46832288--46832481 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 99
46832278 ATTTTGATTT
46832288 AATCATATATATTTAAAGAAATAAATACATCAATTTATTTTTACAATATATAAACATAAAATGAT
1 AATCATATATATTTAAAGAAATAAATACATCAATTTATTTTTACAATATATAAACATAAAATGAT
46832353 GTTATATCAATAATTATGTTAATAATTTATATGA
66 GTTATATCAATAATTATGTTAATAATTTATATGA
46832387 AATCATA-ATATTTAAAGAAATAAATACATCAATTTATTTTTACAATATATAAACATAAAATGAT
1 AATCATATATATTTAAAGAAATAAATACATCAATTTATTTTTACAATATATAAACATAAAATGAT
46832451 GTTATATCAATAATTATGTTAATAATTTATA
66 GTTATATCAATAATTATGTTAATAATTTATA
46832482 AGAATTAAAT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 88 0.93
99 7 0.07
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (99 bp):
AATCATATATATTTAAAGAAATAAATACATCAATTTATTTTTACAATATATAAACATAAAATGAT
GTTATATCAATAATTATGTTAATAATTTATATGA
Found at i:46856645 original size:17 final size:18
Alignment explanation
Indices: 46856618--46856657 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46856608 ACAATATCGA
*
46856618 TAAAA-TTAAAA-CATTT
1 TAAAATTTAAAATCAATT
46856634 TAAAATTTAAAATCAATT
1 TAAAATTTAAAATCAATT
46856652 TAAAAT
1 TAAAAT
46856658 ATCAATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 10 0.48
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAAATCAATT
Found at i:46865999 original size:7 final size:6
Alignment explanation
Indices: 46865975--46866026 Score: 77
Period size: 6 Copynumber: 8.2 Consensus size: 6
46865965 TGTTGTTGAT
46865975 AATGGG AATGGG AATGGG AAATGGG AAATGGG AAATGGG AATGGG AATGGG
1 AATGGG AATGGG AATGGG -AATGGG -AATGGG -AATGGG AATGGG AATGGG
46866026 A
1 A
46866027 GGAGGGAACG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 25 0.56
7 20 0.44
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.15
Consensus pattern (6 bp):
AATGGG
Found at i:46866182 original size:60 final size:60
Alignment explanation
Indices: 46866030--46866383 Score: 585
Period size: 60 Copynumber: 6.0 Consensus size: 60
46866020 AATGGGAGGA
* * *
46866030 GGGAA-CGGTGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCGCGGTGG-AATG
1 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
* * *
46866088 GGAAAT-G--GGAA-TGGGTATTGCATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
1 GGGAATCGATGGAAGAGGGGA--G-ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
46866147 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
1 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
46866207 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
1 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
46866267 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
1 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
46866327 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAA
1 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAA
46866384 TAATTCTAAT
Statistics
Matches: 279, Mismatches: 8, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
55 4 0.01
56 4 0.01
57 1 0.00
58 37 0.13
59 8 0.03
60 216 0.77
61 1 0.00
62 4 0.01
63 4 0.01
ACGTcount: A:0.32, C:0.05, G:0.52, T:0.11
Consensus pattern (60 bp):
GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAAAG
Found at i:46866492 original size:21 final size:22
Alignment explanation
Indices: 46866440--46866492 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
46866430 ACCATTGTTT
*
46866440 CTAATCTCA-CAGCTACAGTAT
1 CTAATCTCACCAGCTACAGTAA
*
46866461 CCAATCTCACCA-CTACAGTAA
1 CTAATCTCACCAGCTACAGTAA
46866482 CTAATCTCACC
1 CTAATCTCACC
46866493 GCCACCGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (22 bp):
CTAATCTCACCAGCTACAGTAA
Found at i:46869622 original size:20 final size:20
Alignment explanation
Indices: 46869597--46869636 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46869587 AATATTTTCC
*
46869597 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46869617 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
46869637 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Done.