Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 142 of 199
Found at i:47203146 original size:104 final size:104
Alignment explanation
Indices: 47202966--47203177 Score: 372
Period size: 104 Copynumber: 2.0 Consensus size: 104
47202956 GTTGCTGTGT
* *
47202966 GTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
47203031 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
* *
47203070 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAA
47203134 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
47203174 GTGC
1 GTGC
47203178 GATATCCATT
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 102 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (104 bp):
GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:47203197 original size:72 final size:73
Alignment explanation
Indices: 47203096--47203249 Score: 265
Period size: 73 Copynumber: 2.1 Consensus size: 73
47203086 TCATTGGTGG
*
47203096 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCC
47203160 CGAGGGGT
66 CGAGGGGT
***
47203168 TGCTAAGTGCGATATCCATTGTATATTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCC
47203233 CGAGGGGT
66 CGAGGGGT
47203241 TGCTAAGTG
1 TGCTAAGTG
47203250 ATGATTCCCC
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 32 0.42
73 45 0.58
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (73 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCC
CGAGGGGT
Found at i:47210625 original size:104 final size:104
Alignment explanation
Indices: 47210445--47210668 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
47210435 TGTATATAAA
** * *
47210445 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47210510 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
47210549 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47210613 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
47210653 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
47210669 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47210720 original size:71 final size:72
Alignment explanation
Indices: 47210587--47210738 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
47210577 TCATTGGTGG
* *
47210587 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47210652 GAGGGGT
66 GAGGGGT
***
47210659 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47210723 GAGGGGT
66 GAGGGGT
47210730 TGCTAAGTG
1 TGCTAAGTG
47210739 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:47216626 original size:14 final size:13
Alignment explanation
Indices: 47216600--47216652 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
47216590 GTTTATTTGA
47216600 AATATAATAATAT
1 AATATAATAATAT
47216613 AATATAATTAATAT
1 AATATAA-TAATAT
* *
47216627 AAT-TTACAATAT
1 AATATAATAATAT
*
47216639 AATAAAATAATAT
1 AATATAATAATAT
47216652 A
1 A
47216653 CTTAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 8 0.24
13 16 0.48
14 9 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:47226955 original size:19 final size:19
Alignment explanation
Indices: 47226911--47226960 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
47226901 AAAAATATAA
*
47226911 ATTTTGGAATTTTTATAAATG
1 ATTTT-GAA-TTTTAAAAATG
*
47226932 A-TTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATG
47226950 ATTTTG-ATTTT
1 ATTTTGAATTTT
47226961 TTTATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 15 0.58
19 7 0.27
20 3 0.12
21 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATG
Found at i:47233562 original size:11 final size:11
Alignment explanation
Indices: 47233546--47233589 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
47233536 AACACCGAAT
47233546 TTTTTGGGTAA
1 TTTTTGGGTAA
47233557 TTTTTGGGTAA
1 TTTTTGGGTAA
*
47233568 --TTCGGGTAA
1 TTTTTGGGTAA
*
47233577 TTTGTGGGTAA
1 TTTTTGGGTAA
47233588 TT
1 TT
47233590 CGGTTAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 8 0.29
11 20 0.71
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (11 bp):
TTTTTGGGTAA
Found at i:47233576 original size:9 final size:9
Alignment explanation
Indices: 47233562--47233642 Score: 83
Period size: 9 Copynumber: 8.9 Consensus size: 9
47233552 GGTAATTTTT
47233562 GGGTAATTC
1 GGGTAATTC
*
47233571 GGGTAATTTGT
1 GGGTAA-TT-C
47233582 GGGTAATTC
1 GGGTAATTC
*
47233591 GGTTAATTC
1 GGGTAATTC
*
47233600 GGTTAATTC
1 GGGTAATTC
*
47233609 GGTTAATTC
1 GGGTAATTC
**
47233618 GATTAA-TC
1 GGGTAATTC
47233626 GGGTAATTC
1 GGGTAATTC
47233635 GGGTAATT
1 GGGTAATT
47233643 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
8 6 0.10
9 47 0.75
10 4 0.06
11 6 0.10
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (9 bp):
GGGTAATTC
Found at i:47233576 original size:20 final size:20
Alignment explanation
Indices: 47233551--47233598 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
47233541 CGAATTTTTT
*
47233551 GGGTAATTTTTGGGTAATTC
1 GGGTAATTTGTGGGTAATTC
47233571 GGGTAATTTGTGGGTAATTC
1 GGGTAATTTGTGGGTAATTC
*
47233591 GGTTAATT
1 GGGTAATT
47233599 CGGTTAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (20 bp):
GGGTAATTTGTGGGTAATTC
Found at i:47233641 original size:26 final size:27
Alignment explanation
Indices: 47233565--47233642 Score: 95
Period size: 26 Copynumber: 2.9 Consensus size: 27
47233555 AATTTTTGGG
* *
47233565 TAATTCGGGTAATTTGTGGGTAATTCGGT
1 TAATTCGGGTAA-TT-CGGGTAATTCGAT
* *
47233594 TAATTCGGTTAATTCGGTTAATTCGAT
1 TAATTCGGGTAATTCGGGTAATTCGAT
47233621 TAA-TCGGGTAATTCGGGTAATT
1 TAATTCGGGTAATTCGGGTAATT
47233643 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
26 17 0.40
27 13 0.30
28 2 0.05
29 11 0.26
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (27 bp):
TAATTCGGGTAATTCGGGTAATTCGAT
Found at i:47236921 original size:22 final size:23
Alignment explanation
Indices: 47236891--47236963 Score: 98
Period size: 22 Copynumber: 3.3 Consensus size: 23
47236881 TAATTCTCTT
47236891 TCAAATTTCCTCTCAATTTACTC
1 TCAAATTTCCTCTCAATTTACTC
*
47236914 T-AAATTTCCTCTCAATTTGCTC
1 TCAAATTTCCTCTCAATTTACTC
*
47236936 TCAAATTTCTTC-CAAATTT-CTC
1 TCAAATTTCCTCTC-AATTTACTC
47236958 TCAAAT
1 TCAAAT
47236964 CCATATTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
22 31 0.67
23 15 0.33
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.44
Consensus pattern (23 bp):
TCAAATTTCCTCTCAATTTACTC
Found at i:47236962 original size:11 final size:12
Alignment explanation
Indices: 47236891--47236963 Score: 84
Period size: 11 Copynumber: 6.5 Consensus size: 12
47236881 TAATTCTCTT
47236891 TCAAATTTCCTC
1 TCAAATTTCCTC
*
47236903 TC-AATTTACTC
1 TCAAATTTCCTC
47236914 T-AAATTTCCTC
1 TCAAATTTCCTC
*
47236925 TC-AATTTGCTC
1 TCAAATTTCCTC
*
47236936 TCAAATTTCTTC
1 TCAAATTTCCTC
47236948 -CAAATTT-CTC
1 TCAAATTTCCTC
47236958 TCAAAT
1 TCAAAT
47236964 CCATATTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
10 2 0.04
11 40 0.78
12 9 0.18
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.44
Consensus pattern (12 bp):
TCAAATTTCCTC
Found at i:47239045 original size:906 final size:906
Alignment explanation
Indices: 47237294--47239104 Score: 3496
Period size: 906 Copynumber: 2.0 Consensus size: 906
47237284 TCGGGTATTG
47237294 GAATGCAATATCTGGAATATGCATGGTCCTCCATCACCGTTGGTAGAGAACTACCTGCGGGAAGC
1 GAATGCAATATCTGGAATATGCATGGTCCTCCATCACCGTTGGTAGAGAACTACCTGCGGGAAGC
47237359 GGGTTTTTGGCACATGGCGACGGTAGGCCGGGGATGCAAGGTGGACCCGAAACTAATCAGTGTGT
66 GGGTTTTTGGCACATGGCGACGGTAGGCCGGGGATGCAAGGTGGACCCGAAACTAATCAGTGTGT
47237424 TGATCAAGAGGTGGAGACCCGAGACGCACACATTCCATTTTCCATGTGGAGAGTGCACTATCACT
131 TGATCAAGAGGTGGAGACCCGAGACGCACACATTCCATTTTCCATGTGGAGAGTGCACTATCACT
*
47237489 CTAGAAGATGTCAGTCTGCAATTGGGATTACCGGTGGATGGGTACCCAGTCACCGGGTCTGCCCA
196 CTAGAAGATGTCAGTCTGCAATTGGGATTACCGGTGGACGGGTACCCAGTCACCGGGTCTGCCCA
47237554 ATCTAGCGATTGGGGGGCGGTGTGCTACGAGCTTTTGGACGCTATTCCGGAGAAAATGGAGGGAG
261 ATCTAGCGATTGGGGGGCGGTGTGCTACGAGCTTTTGGACGCTATTCCGGAGAAAATGGAGGGAG
*
47237619 GTAAGATCGAGATGAGCTGGTTACGTGACACATTCCTTGATCCGGATTGAAGATTCAACCGAAAT
326 GTAAGATCGAGATGAGCTGGGTACGTGACACATTCCTTGATCCGGATTGAAGATTCAACCGAAAT
*
47237684 TGAAAGAATCTAATATGCTCGAGCATACATTCTTCAATTAATTGGAGGTTATCTGATGCCTGACA
391 TGAAAGAATCTAATATGCTCGAGCATACATTCTTCAATTAATTAGAGGTTATCTGATGCCTGACA
47237749 TGTCACGGAGCCGCGTACATCTAAGATGGCTGCTGAAACTCATTGATTTTAGAGGAGTCGGTGAA
456 TGTCACGGAGCCGCGTACATCTAAGATGGCTGCTGAAACTCATTGATTTTAGAGGAGTCGGTGAA
* *
47237814 TTGAGTTGGGGGTCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCGGGGTGACACGACCGAG
521 TTGAGTTGGGGGTCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCAGGGTGACACGACCGAA
47237879 GAGAGCAAAAATCAGAGGTTGCCTGTCACTACTGCAGTCATGGGCACGGTTTTGCTTTCCATTTC
586 GAGAGCAAAAATCAGAGGTTGCCTGTCACTACTGCAGTCATGGGCACGGTTTTGCTTTCCATTTC
47237944 TACGTCCTCGAGTGGACCACCCATATACATTCTCACTCATAACGAGGTAAAATTTATATTAGATT
651 TACGTCCTCGAGTGGACCACCCATATACATTCTCACTCATAACGAGGTAAAATTTATATTAGATT
47238009 TTACAATTATTATGTAGATTTTTAAAAATAAAAGTATGCTAAAAATTTATTTAATTAGGTGGAAC
716 TTACAATTATTATGTAGATTTTTAAAAATAAAAGTATGCTAAAAATTTATTTAATTAGGTGGAAC
47238074 CATCCGGCAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACGGCTTCTATTGGACCAACG
781 CATCCGGCAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACGGCTTCTATTGGACCAACG
*
47238139 GTCGGAAGCACAAGTAAGTATTAAATAAAATAGATATTTCTATACATTCGCTAGTCGATTA
846 GTCAGAAGCACAAGTAAGTATTAAATAAAATAGATATTTCTATACATTCGCTAGTCGATTA
*
47238200 GAATGCAATATCTGGAATATGCATGGTCCTCCATCACCGTTGGTAGAGAACTACCTGCGGGAAGT
1 GAATGCAATATCTGGAATATGCATGGTCCTCCATCACCGTTGGTAGAGAACTACCTGCGGGAAGC
47238265 GGGTTTTTGGCACATGGCGACGGTAGGCCGGGGATGCAAGGTGGACCCGAAACTAATCAGTGTGT
66 GGGTTTTTGGCACATGGCGACGGTAGGCCGGGGATGCAAGGTGGACCCGAAACTAATCAGTGTGT
47238330 TGATCAAGAGGTGGAGACCCGAGACGCACACATTCCATTTTCCATGTGGAGAGTGCACTATCACT
131 TGATCAAGAGGTGGAGACCCGAGACGCACACATTCCATTTTCCATGTGGAGAGTGCACTATCACT
*
47238395 CTAGAAGATGTCAGTCTGTAATTGGGATTACCGGTGGACGGGTACCCAGTCACCGGGTCTGCCCA
196 CTAGAAGATGTCAGTCTGCAATTGGGATTACCGGTGGACGGGTACCCAGTCACCGGGTCTGCCCA
47238460 ATCTAGCGATTGGGGGGCGGTGTGCTACGAGCTTTTGGACGCTATTCCGGAGAAAATGGAGGGAG
261 ATCTAGCGATTGGGGGGCGGTGTGCTACGAGCTTTTGGACGCTATTCCGGAGAAAATGGAGGGAG
47238525 GTAAGATCGAGATGAGCTGGGTACGTGACACATTCCTTGATCCGGATTGAAGATTCAACCGAAAT
326 GTAAGATCGAGATGAGCTGGGTACGTGACACATTCCTTGATCCGGATTGAAGATTCAACCGAAAT
*
47238590 TGAAAGAATCTAATATGCTTGAGCATACATTCTTCAATTAATTAGAGGTTATCTGATGCCTGACA
391 TGAAAGAATCTAATATGCTCGAGCATACATTCTTCAATTAATTAGAGGTTATCTGATGCCTGACA
47238655 TGTCACGGAGCCGCGTACATCTAAGATGGCTGCTGAAACTCATTGATTTTAGAGGAGTCGGTGAA
456 TGTCACGGAGCCGCGTACATCTAAGATGGCTGCTGAAACTCATTGATTTTAGAGGAGTCGGTGAA
* * *
47238720 TTGAGTTGGGGGTTTTCCATCTTGGCAACGTTATATCGGGAGATGTGCAGGGTGACACGACTGAA
521 TTGAGTTGGGGGTCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCAGGGTGACACGACCGAA
**
47238785 GAGAGCAAAAATTGGAGGTTGCCTGTCACTACTGCAGTCATGGGCACGGTTTTGCTTTCCATTTC
586 GAGAGCAAAAATCAGAGGTTGCCTGTCACTACTGCAGTCATGGGCACGGTTTTGCTTTCCATTTC
47238850 TACGTCCTCGAGTGGACCACCCATATACATTCTCACTCATAACGAGGTAAAATTTATATTAGATT
651 TACGTCCTCGAGTGGACCACCCATATACATTCTCACTCATAACGAGGTAAAATTTATATTAGATT
47238915 TTACAATTATTATGTAGATTTTTAAAAATAAAAGTATGCTAAAAATTTATTTAATTAGGTGGAAC
716 TTACAATTATTATGTAGATTTTTAAAAATAAAAGTATGCTAAAAATTTATTTAATTAGGTGGAAC
47238980 CATCCGGCAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACGGCTTCTATTGGACCAACG
781 CATCCGGCAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACGGCTTCTATTGGACCAACG
47239045 GTCAGAAGCACAAGTAAGTATTAAATAAAATAGATATTTCTATACATTCGCTAGTCGATT
846 GTCAGAAGCACAAGTAAGTATTAAATAAAATAGATATTTCTATACATTCGCTAGTCGATT
47239105 GGTATTTAGT
Statistics
Matches: 891, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
906 891 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (906 bp):
GAATGCAATATCTGGAATATGCATGGTCCTCCATCACCGTTGGTAGAGAACTACCTGCGGGAAGC
GGGTTTTTGGCACATGGCGACGGTAGGCCGGGGATGCAAGGTGGACCCGAAACTAATCAGTGTGT
TGATCAAGAGGTGGAGACCCGAGACGCACACATTCCATTTTCCATGTGGAGAGTGCACTATCACT
CTAGAAGATGTCAGTCTGCAATTGGGATTACCGGTGGACGGGTACCCAGTCACCGGGTCTGCCCA
ATCTAGCGATTGGGGGGCGGTGTGCTACGAGCTTTTGGACGCTATTCCGGAGAAAATGGAGGGAG
GTAAGATCGAGATGAGCTGGGTACGTGACACATTCCTTGATCCGGATTGAAGATTCAACCGAAAT
TGAAAGAATCTAATATGCTCGAGCATACATTCTTCAATTAATTAGAGGTTATCTGATGCCTGACA
TGTCACGGAGCCGCGTACATCTAAGATGGCTGCTGAAACTCATTGATTTTAGAGGAGTCGGTGAA
TTGAGTTGGGGGTCTGCCATCTTGGCAACGTTATATCGGGAGATGTGCAGGGTGACACGACCGAA
GAGAGCAAAAATCAGAGGTTGCCTGTCACTACTGCAGTCATGGGCACGGTTTTGCTTTCCATTTC
TACGTCCTCGAGTGGACCACCCATATACATTCTCACTCATAACGAGGTAAAATTTATATTAGATT
TTACAATTATTATGTAGATTTTTAAAAATAAAAGTATGCTAAAAATTTATTTAATTAGGTGGAAC
CATCCGGCAAGTCATGCTCGATTACCTACCTCTCTTGAAGATATACGGCTTCTATTGGACCAACG
GTCAGAAGCACAAGTAAGTATTAAATAAAATAGATATTTCTATACATTCGCTAGTCGATTA
Found at i:47240320 original size:25 final size:25
Alignment explanation
Indices: 47240286--47240368 Score: 148
Period size: 25 Copynumber: 3.3 Consensus size: 25
47240276 TATTTTGATA
47240286 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
47240311 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
47240336 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
*
47240361 TTTTTTGA
1 TTATTTGA
47240369 GTTATTTTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:47240438 original size:95 final size:94
Alignment explanation
Indices: 47240231--47240439 Score: 234
Period size: 95 Copynumber: 2.2 Consensus size: 94
47240221 AAATATTTTG
* *
47240231 AATATTTTGATATTATTTT-ATGTAATAAAATATAATTTTTTTAGTTATTTTGATATTATTTGAT
1 AATATTTTGA-AGTATTTTGATGTAATAAAATAAAATTTTTTTAGTTATTTTGATATTATTTGAT
* * *
47240295 GTAATAAAATAGAAGTTTATTTGATGTAAT
65 GTAATAAAATAGAAGATTAATTAATGTAAT
* * *
47240325 AA-A-ATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTG
1 AATATTTTGAAGTAT-TTTGATGTAATAAAATA-AAATTTTTTT-AGTTATTTTGATATTATTTG
47240388 ATGTAATAAAAT-G-AGATTAATTAATTTGTACA-
63 ATGTAATAAAATAGAAGATTAATTAA--TGTA-AT
47240420 AATATTTTGAA-TATTTTGAT
1 AATATTTTGAAGTATTTTGAT
47240440 ATTATTTGAG
Statistics
Matches: 95, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
91 3 0.03
92 6 0.06
93 22 0.23
94 12 0.13
95 44 0.46
96 4 0.04
97 4 0.04
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (94 bp):
AATATTTTGAAGTATTTTGATGTAATAAAATAAAATTTTTTTAGTTATTTTGATATTATTTGATG
TAATAAAATAGAAGATTAATTAATGTAAT
Found at i:47255746 original size:121 final size:121
Alignment explanation
Indices: 47255532--47255775 Score: 452
Period size: 121 Copynumber: 2.0 Consensus size: 121
47255522 AATTTATAAT
*
47255532 ATCATAGCGAATAATTTATACCACTTCTACCAATAAAACTAATTCAAATTGACAAACGAAATAAC
1 ATCATAGCGAATAATTTATACCACTTCTACCAATAAAACTAATTCAAATTGACAAACAAAATAAC
* *
47255597 ACAGATATAGACTAAATACCCATGTTGGTCACTTGTCGTCGTTCACTCTTAGATGG
66 ACAGATATAGACTAAATACCCATGTTGGTCACTTGTCGTCATCCACTCTTAGATGG
47255653 ATCATAGCGAATAATTTATACCACTTCTACCAATAAAACTAATTCAAATTGACAAACAAAATAAC
1 ATCATAGCGAATAATTTATACCACTTCTACCAATAAAACTAATTCAAATTGACAAACAAAATAAC
*
47255718 ACAGATATAGACTAAATACCCATGTTGGTCACTTGTCGTCATCCGCTCTTAGATGG
66 ACAGATATAGACTAAATACCCATGTTGGTCACTTGTCGTCATCCACTCTTAGATGG
47255774 AT
1 AT
47255776 ATTGCCTGTA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (121 bp):
ATCATAGCGAATAATTTATACCACTTCTACCAATAAAACTAATTCAAATTGACAAACAAAATAAC
ACAGATATAGACTAAATACCCATGTTGGTCACTTGTCGTCATCCACTCTTAGATGG
Found at i:47258166 original size:125 final size:125
Alignment explanation
Indices: 47257790--47258167 Score: 517
Period size: 125 Copynumber: 3.0 Consensus size: 125
47257780 CCCAAACATG
** *
47257790 CTACTGTAGCAAAAGCGCGTCCACGTGGATGTGATTTCACAAATTCTTCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
* *
47257855 TAGAAGCGATTTTGTACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * *
47257915 CAACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAACATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * * *
47257979 CTTGAAGCGTTTTTTATACTATTTGCTCAAAAACGTCAACTTGAAATAATTT-TTTCAGGAC
65 GTAGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * *
47258040 CTACTGTAGCAAAAGCGCATCCACGTGGGCACAATTTAACAAATTCTTCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
* *
47258105 TAAAAGTGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
47258165 CTA
1 CTA
47258168 AAAACCCTAA
Statistics
Matches: 214, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
124 40 0.19
125 135 0.63
126 39 0.18
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:47258710 original size:146 final size:145
Alignment explanation
Indices: 47258551--47258858 Score: 431
Period size: 147 Copynumber: 2.1 Consensus size: 145
47258541 TAAAATCAAA
* * * *
47258551 TTTTTCTTTAAAAAACCACTACTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTGGACAAG
1 TTTTT-TTAAAAAAACCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAG
*
47258616 ATCAAAACTTTGTTTTAAAAAATTTAAAATTTTCCTTAAAAATGACT-AAAAAT-ATTTTTATTT
65 ATCAAAACTTTGTTTT-AAAAATTTAAAATTTTCCTTAAAAATAACTAAAAAATAATTTTTATTT
*
47258679 TAAAAATCTAAAATTTCTC
129 TAAAAATCT-AAA-CTCTC
* * *
47258698 TTTTTTTAAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTTGAAATAGTTGAAAAAG
1 TTTTTTT-AAAAAAACCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAG
* * * *
47258763 ATCAGAATTTTGTTTTAAAAATTTAAAATTTTCCTTTAATATAACTAAAAAATAGATTTTTATTT
65 ATCAAAACTTTGTTTTAAAAATTTAAAATTTTCCTTAAAAATAACTAAAAAATA-ATTTTTATTT
47258828 TAAAAATCTAAACTCTC
129 TAAAAATCTAAACTCTC
47258845 TTTTTTTAAAAAAA
1 TTTTTTTAAAAAAA
47258859 AATCAAAATT
Statistics
Matches: 144, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
146 36 0.25
147 86 0.60
148 3 0.02
149 19 0.13
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (145 bp):
TTTTTTTAAAAAAACCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGA
TCAAAACTTTGTTTTAAAAATTTAAAATTTTCCTTAAAAATAACTAAAAAATAATTTTTATTTTA
AAAATCTAAACTCTC
Found at i:47262536 original size:51 final size:46
Alignment explanation
Indices: 47262473--47263111 Score: 799
Period size: 46 Copynumber: 13.5 Consensus size: 46
47262463 CTTGCGTATG
* *
47262473 ATCACTTATCACTTT-TC-CCTGATTAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
47262517 ATCACTTATCAC-TTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTTGTCAC---T---TGATCAGATAAGTGTAGCTGAAGCT
*
47262568 ATCACTTATCACTTTCCACTTGTCAC-TGATCAGATAAGTGTAGCCGAAGCT
1 ATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
* *
47262619 ATCACTCATCACTTT-CCACTTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
*
47262664 ATCACTTATCACTTTCCACTTGTCAC-TGATCAGATAAGTGTAGCCGAAGCT
1 ATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
* *
47262715 ATCACTCATCACTTT-CCACTTGATCAGATAAGTGTAGCTGAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
* *
47262760 ATCACTTATCACTTTCCACTTGTCAC-TGATCAGATAAGTATAGCCGAAGCT
1 ATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
*
47262811 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
* *
47262857 ATCACTTAACACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
* *
47262903 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
* *
47262949 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
*
47262995 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
* * * *
47263041 ACCACTTATCACTTTGTTACTTGATTAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
*
47263087 ATTACTTATCACTTTGTCACTTGAT
1 ATCACTTATCACTTTGTCACTTGAT
47263112 TAGAAGTACT
Statistics
Matches: 534, Mismatches: 29, Indels: 62
0.85 0.05 0.10
Matches are distributed among these distances:
43 2 0.00
44 20 0.04
45 82 0.15
46 267 0.50
47 2 0.00
49 3 0.01
51 145 0.27
52 6 0.01
58 7 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
Found at i:47268707 original size:24 final size:25
Alignment explanation
Indices: 47268680--47268730 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
47268670 AAATTTTTTT
47268680 ATAGAAAATTTAATTAAAAAAT-TA
1 ATAGAAAATTTAATTAAAAAATATA
* *
47268704 ATAGAAAATTTATTTAAATAATATA
1 ATAGAAAATTTAATTAAAAAATATA
47268729 AT
1 AT
47268731 TTCATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
ATAGAAAATTTAATTAAAAAATATA
Found at i:47269028 original size:22 final size:22
Alignment explanation
Indices: 47269003--47269045 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47268993 TTTGCATTAT
*
47269003 TTAATTAAAATTAAAATTAATC
1 TTAAATAAAATTAAAATTAATC
* *
47269025 TTAAATATAATTAAATTTAAT
1 TTAAATAAAATTAAAATTAAT
47269046 TAAAATCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAATAAAATTAAAATTAATC
Found at i:47289351 original size:66 final size:68
Alignment explanation
Indices: 47289206--47289358 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 68
47289196 TAGCCAAACA
* * * ** *
47289206 ATGGTCTTACACATGTAATCCTCATGTTTAATGTCTTGGTGAACTCCATATGTTGCCATAGCTGA
1 ATGGTCTTACACATGTAACCCTCATGTTAAATGTCCTGAAGAACTCCATATGTTGCCATAGCCGA
47289271 GAT
66 GAT
* * *
47289274 ATAGACTTACACATGTAACCCT-ATGTTAAATGTCCTGAAGGACTCCAT-TGTTGCCATAGCCGA
1 ATGGTCTTACACATGTAACCCTCATGTTAAATGTCCTGAAGAACTCCATATGTTGCCATAGCCGA
*
47289337 GCT
66 GAT
* * *
47289340 GTGGTGTTACACCTGTAAC
1 ATGGTCTTACACATGTAAC
47289359 TTTTTTCGAG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
66 30 0.43
67 21 0.30
68 19 0.27
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (68 bp):
ATGGTCTTACACATGTAACCCTCATGTTAAATGTCCTGAAGAACTCCATATGTTGCCATAGCCGA
GAT
Found at i:47290544 original size:25 final size:26
Alignment explanation
Indices: 47290491--47290543 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
47290481 TTTGATCTAC
*
47290491 TTAAGAGTATTCTTTGAGTTTTCTTT
1 TTAAGAATATTCTTTGAGTTTTCTTT
47290517 TTAAGAAT-TTCTATTGAGTTTTCTTT
1 TTAAGAATATTCT-TTGAGTTTTCTTT
47290543 T
1 T
47290544 AGAAGAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (26 bp):
TTAAGAATATTCTTTGAGTTTTCTTT
Found at i:47290961 original size:19 final size:20
Alignment explanation
Indices: 47290939--47290984 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
47290929 AAAAAAGTGG
*
47290939 AAAAATTAAA-AA-ATATGAA
1 AAAAATTAAAGAAGAAAT-AA
47290958 AAAAA-TAAAGAAGAAATAA
1 AAAAATTAAAGAAGAAATAA
47290977 AAAAATTA
1 AAAAATTA
47290985 TATGGGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (20 bp):
AAAAATTAAAGAAGAAATAA
Found at i:47294544 original size:24 final size:25
Alignment explanation
Indices: 47294499--47294545 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
47294489 GAGTTAATAA
* *
47294499 AATTTTCTTTGAGTTTTTTTTTAAG
1 AATTTTCTTTAAGTTTTCTTTTAAG
47294524 AATTTT-TTTAAGTTTTCTTTTA
1 AATTTTCTTTAAGTTTTCTTTTA
47294546 GAAGAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (25 bp):
AATTTTCTTTAAGTTTTCTTTTAAG
Found at i:47310567 original size:27 final size:27
Alignment explanation
Indices: 47310529--47310587 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
47310519 ACCCTCAGAG
47310529 CCCACGCCTCCGGTGTAACCAACTAAA
1 CCCACGCCTCCGGTGTAACCAACTAAA
* *
47310556 CCCACGCCTCCGGTTTAACCCACTAAA
1 CCCACGCCTCCGGTGTAACCAACTAAA
47310583 CCCAC
1 CCCAC
47310588 TAAAAATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (27 bp):
CCCACGCCTCCGGTGTAACCAACTAAA
Found at i:47311197 original size:14 final size:14
Alignment explanation
Indices: 47311178--47311219 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
47311168 ACATATCAAG
47311178 ATATCAATCTCATC
1 ATATCAATCTCATC
* *
47311192 ATATCAATATCGTC
1 ATATCAATCTCATC
47311206 ATATCAATCATCAT
1 ATATCAATC-TCAT
47311220 AATAATCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (14 bp):
ATATCAATCTCATC
Found at i:47311286 original size:17 final size:18
Alignment explanation
Indices: 47311264--47311297 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47311254 TGAACATGTC
*
47311264 GATGCATATTTT-TAAAT
1 GATGCACATTTTATAAAT
47311281 GATGCACATTTTATAAA
1 GATGCACATTTTATAAA
47311298 ATTTCCTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (18 bp):
GATGCACATTTTATAAAT
Found at i:47317864 original size:23 final size:24
Alignment explanation
Indices: 47317838--47317896 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
47317828 TTAACTTGAT
47317838 CGAACATGTTCATGAACAT-TAAA
1 CGAACATGTTCATGAACATATAAA
* *
47317861 CGAACATGTTTATGAACATATAAT
1 CGAACATGTTCATGAACATATAAA
*
47317885 TGAACATGTTCA
1 CGAACATGTTCA
47317897 CGGACAATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (24 bp):
CGAACATGTTCATGAACATATAAA
Found at i:47318479 original size:14 final size:14
Alignment explanation
Indices: 47318462--47318494 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
47318452 ATATGGTTCA
47318462 CACATAGGGGTTTG
1 CACATAGGGGTTTG
47318476 CACATAGGGGTTTG
1 CACATAGGGGTTTG
47318490 CACAT
1 CACAT
47318495 GTAGGGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (14 bp):
CACATAGGGGTTTG
Found at i:47318566 original size:27 final size:27
Alignment explanation
Indices: 47318528--47318580 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
47318518 CTCACACCTA
*
47318528 GGGTTCACATACCGAGTGTTTGCACAG
1 GGGTTCACATACCGAGTGTTCGCACAG
* *
47318555 GGGTTCGCATACCTAGTGTTCGCACA
1 GGGTTCACATACCGAGTGTTCGCACA
47318581 CCTAAGGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (27 bp):
GGGTTCACATACCGAGTGTTCGCACAG
Found at i:47318930 original size:22 final size:22
Alignment explanation
Indices: 47318847--47318930 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
47318837 CGCATGGTAT
**
47318847 AACATATAGAATCACATATATA
1 AACATATAGGTTCACATATATA
* * *
47318869 AACATTTAGGTTGACATATATT
1 AACATATAGGTTCACATATATA
*
47318891 AACATATATGG-TCACATATATC
1 AACATATA-GGTTCACATATATA
*
47318913 AACATATAGGTTCTCATA
1 AACATATAGGTTCACATA
47318931 CTTTAGAACT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 2 0.04
22 47 0.92
23 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (22 bp):
AACATATAGGTTCACATATATA
Found at i:47322246 original size:23 final size:23
Alignment explanation
Indices: 47322216--47322268 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
47322206 AGGCGGGAGA
47322216 TGTG-TGGTAGGAGAAGCTTGAT
1 TGTGCTGGTAGGAGAAGCTTGAT
*
47322238 TGTGCTGGTAGGGGAAGCTTGAT
1 TGTGCTGGTAGGAGAAGCTTGAT
47322261 TGTGCTGG
1 TGTGCTGG
47322269 GATGCTCGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.17, C:0.08, G:0.43, T:0.32
Consensus pattern (23 bp):
TGTGCTGGTAGGAGAAGCTTGAT
Found at i:47331991 original size:63 final size:63
Alignment explanation
Indices: 47331924--47332094 Score: 177
Period size: 63 Copynumber: 2.7 Consensus size: 63
47331914 ACACAAGCTG
* * ** *
47331924 GTGTCCCTGGCTCGTGTGACTCTT-AAGCATAAACAGTGAGTTACACAGCCTGGACACACGTCC
1 GTGTCCCTGGCTCGTGTGACT-TTAAATCACAAACAGTGAGTTACACAGCCTAAACACACGTAC
* * * ** * *
47331987 GTGTCCTTGGC-CTATGTGACTTTAAATCACAAACAGTGTGTTACATGGCCTAAAGACACGTAT
1 GTGTCCCTGGCTC-GTGTGACTTTAAATCACAAACAGTGAGTTACACAGCCTAAACACACGTAC
*
47332050 GTGTTCCTGG-TCCGTGTGACTTTAAATCACAAACAGTGAGTTACA
1 GTGTCCCTGGCT-CGTGTGACTTTAAATCACAAACAGTGAGTTACA
47332095 TGGCTTAGCA
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
62 3 0.03
63 84 0.95
64 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (63 bp):
GTGTCCCTGGCTCGTGTGACTTTAAATCACAAACAGTGAGTTACACAGCCTAAACACACGTAC
Found at i:47334945 original size:50 final size:50
Alignment explanation
Indices: 47334883--47335114 Score: 329
Period size: 50 Copynumber: 4.6 Consensus size: 50
47334873 CAATTTCATA
* ** * * * *
47334883 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
***
47334933 TCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
47334983 TCCCAGACATGGTCTTACATGGGACCTTTCATCTCGGTGCCAACGCAATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
47335033 TCCCAAACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
47335083 TCCCAGACATGGTCTTACATGAGACCTCTCAT
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT
47335115 ATCTATTTCA
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 161 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:47337103 original size:18 final size:18
Alignment explanation
Indices: 47337080--47337129 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
47337070 TTCTTTATAT
47337080 ATAAAGAAAAAGGTAAAA
1 ATAAAGAAAAAGGTAAAA
*
47337098 ATAAAGAAAAAAGCTAAAA
1 ATAAAG-AAAAAGGTAAAA
47337117 ATAAAGAAAAAGG
1 ATAAAGAAAAAGG
47337130 CAAATAGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.10
Consensus pattern (18 bp):
ATAAAGAAAAAGGTAAAA
Found at i:47337370 original size:27 final size:26
Alignment explanation
Indices: 47337329--47337383 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
47337319 TATTAAAACT
*
47337329 AAAATATAAAAAATATATATGTAATAA
1 AAAATATAAAAAATATATAT-AAATAA
47337356 AAAATA-AAAATAATATATATAAATAA
1 AAAATATAAAA-AATATATATAAATAA
47337382 AA
1 AA
47337384 TGTCCAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATATAAAAAATATATATAAATAA
Found at i:47349592 original size:25 final size:25
Alignment explanation
Indices: 47349494--47349579 Score: 136
Period size: 25 Copynumber: 3.4 Consensus size: 25
47349484 ACATATTTTC
* * *
47349494 TCAAAATTTTACCAAGGGCAAATTCG
1 TCAAAATTTTACC-TGGGTAAAATCG
47349520 TCAAAATTTTACCTGGGTAAAATCG
1 TCAAAATTTTACCTGGGTAAAATCG
47349545 TCAAAATTTTACCTGGGTAAAATCG
1 TCAAAATTTTACCTGGGTAAAATCG
47349570 TCAAAATTTT
1 TCAAAATTTT
47349580 TCTAGGGAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 44 0.77
26 13 0.23
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (25 bp):
TCAAAATTTTACCTGGGTAAAATCG
Found at i:47349592 original size:50 final size:51
Alignment explanation
Indices: 47349494--47349592 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
47349484 ACATATTTTC
* *
47349494 TCAAAATTTTACCAAGGGCAAATTCGTCAAAATTTTACCTGGGTAAAATCG
1 TCAAAATTTTACCAAGGGCAAAATCGTCAAAATTTTACCTGGGAAAAATCG
* * *
47349545 TCAAAATTTTACC-TGGGTAAAATCGTCAAAATTTT-TCTAGGGAAAAAT
1 TCAAAATTTTACCAAGGGCAAAATCGTCAAAATTTTACCT-GGGAAAAAT
47349593 TAGGATGGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.05
50 27 0.64
51 13 0.31
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (51 bp):
TCAAAATTTTACCAAGGGCAAAATCGTCAAAATTTTACCTGGGAAAAATCG
Found at i:47353976 original size:12 final size:12
Alignment explanation
Indices: 47353957--47354031 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
47353947 GGGAAAAGAG
*
47353957 AGAAAAATCAAA
1 AGAAAAATAAAA
*
47353969 ATAAAAATAAAA
1 AGAAAAATAAAA
*
47353981 AGAAAAAAAGAAA
1 AGAAAAATA-AAA
* *
47353994 AGCAAAATCAAGA
1 AGAAAAAT-AAAA
**
47354007 TCAAAACA-AAAA
1 AGAAAA-ATAAAA
47354019 AGAAAAATAAAA
1 AGAAAAATAAAA
47354031 A
1 A
47354032 ATTAAGGTCA
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
11 1 0.02
12 29 0.63
13 14 0.30
14 2 0.04
ACGTcount: A:0.77, C:0.07, G:0.08, T:0.08
Consensus pattern (12 bp):
AGAAAAATAAAA
Found at i:47354000 original size:31 final size:30
Alignment explanation
Indices: 47353960--47354024 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
47353950 AAAAGAGAGA
*
47353960 AAAATCAAAATAAAAATAAAAAGAAAAAAAG
1 AAAAGCAAAATAAAAATAAAAA-AAAAAAAG
* * * *
47353991 AAAAGCAAAATCAAGATCAAAACAAAAAAG
1 AAAAGCAAAATAAAAATAAAAAAAAAAAAG
47354021 AAAA
1 AAAA
47354025 ATAAAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (30 bp):
AAAAGCAAAATAAAAATAAAAAAAAAAAAG
Found at i:47354087 original size:22 final size:22
Alignment explanation
Indices: 47354047--47354088 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
47354037 GGTCAAAATG
*
47354047 AAAATGAAAAAGGAGAAATGAA
1 AAAATGAAAAAGGAAAAATGAA
* *
47354069 AAAATGAAAGAGTAAAAATG
1 AAAATGAAAAAGGAAAAATG
47354089 GAGAGGCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAATGAAAAAGGAAAAATGAA
Found at i:47355434 original size:87 final size:87
Alignment explanation
Indices: 47355298--47355628 Score: 518
Period size: 87 Copynumber: 3.8 Consensus size: 87
47355288 AACAGATCAA
*
47355298 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGGTGGTTAAAGATAACAGATCTTG
1 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
*
47355363 CCTTCCTGCGTTAACAGCGAAG
66 CCTTCCTGCGTTAACAGTGAAG
* * *
47355385 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAACTGGTTAAAGATAGCAGATCTTG
1 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
* *
47355450 CCTTCTTGCGTCAACAGTGAAG
66 CCTTCCTGCGTTAACAGTGAAG
* * * *
47355472 CAGACCGAAAACAAAACCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAATAGATCTTG
1 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
47355537 CCTTCCTGCGTTAACAGTGAAG
66 CCTTCCTGCGTTAACAGTGAAG
* * * * *
47355559 CAGATCAAAAACAAATCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATATCATATCTTG
1 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
47355624 CCTTC
66 CCTTC
47355629 TTAAGCACTA
Statistics
Matches: 220, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 220 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (87 bp):
CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
CCTTCCTGCGTTAACAGTGAAG
Found at i:47355538 original size:44 final size:43
Alignment explanation
Indices: 47355489--47355626 Score: 108
Period size: 44 Copynumber: 3.2 Consensus size: 43
47355479 AAAACAAAAC
47355489 CTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAATAGAT
1 CTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAATA-AT
* * * *
47355533 CTTGCCTTCC-T-GCGTTAACAGTGAAGCAGATCAAA-A-ACA-AAT
1 CTTGCC-TCCATCG-GTT-ACAGTGGAGCTGGTTAAAGATA-ATAAT
**
47355575 CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGAT-ATCATAT
1 -CTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAAT-A-AT
47355620 CTTGCCT
1 CTTGCCT
47355627 TCTTAAGCAC
Statistics
Matches: 72, Mismatches: 10, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
42 18 0.25
43 14 0.19
44 21 0.29
45 19 0.26
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
CTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAATAAT
Found at i:47355927 original size:44 final size:44
Alignment explanation
Indices: 47355745--47356000 Score: 163
Period size: 44 Copynumber: 5.9 Consensus size: 44
47355735 GTTGGAAATT
* * *
47355745 ACAAGTCTTATCTCCCT-AAGTAGTAGTGGAGCAGACAGAAGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
* * *
47355788 ATCAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-T-TA-AA
1 A-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
* ** * * * *
47355829 ACAATAGATCTTATCTCTCT-AAGCAGTAATGGAGCAGA-T--CGCA
1 AC-A-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
* ** *
47355872 TCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTG-AGAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AA
* ** * *
47355916 ACAAGTCTTATCCCCCTGAAGTCACAATGGGGCAGACTGAAGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
* * * *
47355960 GCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
47356001 TTTGGTAATC
Statistics
Matches: 157, Mismatches: 44, Indels: 23
0.70 0.20 0.10
Matches are distributed among these distances:
40 12 0.08
41 18 0.11
42 3 0.02
43 29 0.18
44 93 0.59
45 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (44 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
Found at i:47356859 original size:13 final size:14
Alignment explanation
Indices: 47356841--47356873 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
47356831 ACTCATCGTT
47356841 TTTTATTTTTT-TG
1 TTTTATTTTTTCTG
47356854 TTTTATTTTTTCTG
1 TTTTATTTTTTCTG
47356868 TTTTAT
1 TTTTAT
47356874 GAATCTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTATTTTTTCTG
Found at i:47359208 original size:24 final size:24
Alignment explanation
Indices: 47359162--47359211 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
47359152 GTGTGCTGGA
*
47359162 ATTTTTAAATTTATCAAATAATAT
1 ATTTTTAAATTTATCAAAAAATAT
*
47359186 ATTTTTATAATTT-TTAAAAAATAT
1 ATTTTTA-AATTTATCAAAAAATAT
47359210 AT
1 AT
47359212 ATGATCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTTTAAATTTATCAAAAAATAT
Found at i:47361259 original size:17 final size:19
Alignment explanation
Indices: 47361235--47361280 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
47361225 TTAATAATTA
47361235 TAATATTTA-AAATAAAA-
1 TAATATTTATAAATAAAAG
* *
47361252 TCATATTTATATATAAAAG
1 TAATATTTATAAATAAAAG
47361271 TAATATTTAT
1 TAATATTTAT
47361281 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TAATATTTATAAATAAAAG
Found at i:47361278 original size:19 final size:18
Alignment explanation
Indices: 47361234--47361280 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
47361224 ATTAATAATT
47361234 ATAATATTTA-AAATAAA
1 ATAATATTTATAAATAAA
* *
47361251 ATCATATTTATATATAAA
1 ATAATATTTATAAATAAA
47361269 AGTAATATTTAT
1 A-TAATATTTAT
47361281 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.36
18 7 0.28
19 9 0.36
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATATTTATAAATAAA
Found at i:47370041 original size:14 final size:14
Alignment explanation
Indices: 47370022--47370050 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47370012 TCGATGTTGC
47370022 TTTTAAATCAGTGT
1 TTTTAAATCAGTGT
47370036 TTTTAAATCAGTGT
1 TTTTAAATCAGTGT
47370050 T
1 T
47370051 GCTTCATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (14 bp):
TTTTAAATCAGTGT
Found at i:47372118 original size:29 final size:30
Alignment explanation
Indices: 47372067--47372137 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
47372057 AGCCGAAGCT
*
47372067 ATCCCTTTTCATTACTTGATGGTCGTAACC
1 ATCCATTTTCATTACTTGATGGTCGTAACC
* *
47372097 ATCCATTTTCATT-GTTGATGGTCGTCACC
1 ATCCATTTTCATTACTTGATGGTCGTAACC
*
47372126 ATCCGTTTTCAT
1 ATCCATTTTCAT
47372138 AATTTGATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 25 0.68
30 12 0.32
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.42
Consensus pattern (30 bp):
ATCCATTTTCATTACTTGATGGTCGTAACC
Found at i:47380188 original size:795 final size:792
Alignment explanation
Indices: 47378640--47380221 Score: 2549
Period size: 795 Copynumber: 2.0 Consensus size: 792
47378630 TTGTGCTATC
* *
47378640 ACACCCCTAAACTTGAGTTTTTACTTGTCCTCAAGTAGAATAGAAACTAGTAAGGCTACAAAAAT
1 ACACCCCCAAACTTGAGTTTTTACTTGTCCTCAAGTAGAATAGAAACTAGCAAGGCTACAAAAAT
* * *
47378705 TTTACTAAGGCAAATGATCATTCTAGCAACTTGAACCCTCTAAATTCCCAATGGATGCATCACAT
66 TTTACTAAGGCAAATGATCATTCTAGAAACTTGAACCCTCTAAATTCCCAATAGATGAATCACAT
*
47378770 TCAGATGAAAGAATATTGGACCGACAATTCATAAGCATGAATGAAAAAGGTTGCAACTTCATCAA
131 TCAGATGAAAGAATATTGCACCGACAATTCATAAGCATGAATGAAAAAGGTTGCAACTTCATCAA
* * *
47378835 TGCTAGAATAATGCTTCATACCCCAAGTTCTATCTACCATTATAACATTTATTGTACAATACTAA
196 TGCCAGAATAATGCTTCAAACCCCAAGTTCTATCTACCATTACAACATTTATTGTACAATACTAA
* *
47378900 GTATTTATATATTATATATTTTTTTTTCAGAATAAGGGATATCGTTTCATTATTGTACCCTTATT
261 GTATTTATATATTATATATTTTTTTTTCAGAATAAGGGATATCGTTGCATTACTGTACCCTTATT
* * * *
47378965 ACTGAGAAGTAACGATGGGGTACAACAAACCCCTAGGGAGTACGTAATTGCGCTGACATACACTG
326 ACTAAGAAGTAACGATGGGGTACAACAAACCCCTAGGGAGTACGTAATTCCGCTGACACACACTC
* * *
47379030 ATGCAGCGACAACCTTTGGCAAGATTGATTTTTCTAACGCTTGTATTGGAGTGCTCCCTTTTTAA
391 ATGCAGCGACAACCATTGGCAAGATTAATTTTTCTAACGCTTGTATTGGAGTGCTCCATTTTTAA
*
47379095 CATTCCATAATACACCTACTTTGGAGTGTTTCTAATTTATAACTATATATACATATATAAGCAGC
456 CATTCCATAATACACCTACTTTGGAGTGTCTCTAATTTATAACTATATATACATATATAAGCAGC
* *
47379160 TGTAAAAAGTAGATTCATTCAAGATTTAAGGAATGATATTAGTCATCCACTACTAATGTAACCTA
521 TGTAAAAAGTAGATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCACTACTAATGCAACCTA
* * * * * *
47379225 ATCCATTCATCAAATAATTGAATCTACAACCTTCTGTCAAATTTAACCAGCTCATTCATTAATAA
586 ATCCATTCATCAAAGAATTAAAGCTACAACCTTCTGTCAAAATTAACCAACTCAATCATTAATAA
* * *
47379290 TTCACATGATTCAAGAATTAAGCATCGAATGTAACATAAATTTTCTAACAATTTTCATTAACTAT
651 TTCACATGATTCAAGAATTAAGCATCGAATGTAACAAAAAATTTCAAACAATTTTCATTAACTAT
47379355 AATTAAACCTTGCATGCTTCATTACTGAAAGAAAAAAAA-TTGAAATGTGGGTGCATTTCCAAGC
716 AATTAAACCTTGCATGCTTCATTACTGAAAGAAAAAAAATTTGAAATGTGGGTGCATTTCCAAGC
47379419 CCCATGCACATT
781 CCCATGCACATT
*
47379431 ACACCCCCAAACTTGAGTTTTTACTTGTTCTCAAGTA-AATCAGAAACTAGCAAGGCTACAAAAA
1 ACACCCCCAAACTTGAGTTTTTACTTGTCCTCAAGTAGAAT-AGAAACTAGCAAGGCTACAAAAA
* *
47379495 TTTTACTAAGGCAAATGATCATTCTTGAAACTTGAACCCTCTAAATTGCCAATAGATGAATCACA
65 TTTTACTAAGGCAAATGATCATTCTAGAAACTTGAACCCTCTAAATTCCCAATAGATGAATCACA
* * * *
47379560 TTTAGATGAAAGAATATTGCATCGACAATTCATAAGCATGAATGAATACGGTTGCAACTTCATCA
130 TTCAGATGAAAGAATATTGCACCGACAATTCATAAGCATGAATGAAAAAGGTTGCAACTTCATCA
* * ** * *
47379625 ATGCCAGCATCATGCTTCAAACCTTAAGTTTTATCTACCATTACATCATTTATTGTACAATACTA
195 ATGCCAGAATAATGCTTCAAACCCCAAGTTCTATCTACCATTACAACATTTATTGTACAATACTA
*
47379690 AGTATTTATATATTATATATACGTTTTTTTTTCAGAATAAGGGATATCGTTGCATTACTGTACCG
260 AGTATTTATATA-T-TATATA--TTTTTTTTTCAGAATAAGGGATATCGTTGCATTACTGTACCC
* * *
47379755 TTGTTACTAAGAAGTAACGATGGGGTGCAACAAGCCCCTAGGGAGTACGTAATTCCGCTGACACA
321 TTATTACTAAGAAGTAACGATGGGGTACAACAAACCCCTAGGGAGTACGTAATTCCGCTGACACA
* * *
47379820 CACTCATGCAGTGACAACCATTGGCCAGATTAATTTTTCTAACGCTTGTATTGGAGTGTTCCATT
386 CACTCATGCAGCGACAACCATTGGCAAGATTAATTTTTCTAACGCTTGTATTGGAGTGCTCCATT
*
47379885 TTTAACATTCCATACTACACCCT-CTTTGGAGTGTCTCTAATTTATAACTATATATACATATATA
451 TTTAACATTCCATAATACA-CCTACTTTGGAGTGTCTCTAATTTATAACTATATATACATATATA
*
47379949 AGCAGCTGTAAAAAGTAGATTCATTCAAGATTTAAGGAATGATAGTAGTTATCCACTACTAATGC
515 AGCAGCTGTAAAAAGTAGATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCACTACTAATGC
* * *
47380014 AACCTAATCCATTCGTTAAAGAATTAAAGCTACAACCTTCTGTCAAAATTATCCAACTCAATCAT
580 AACCTAATCCATTCATCAAAGAATTAAAGCTACAACCTTCTGTCAAAATTAACCAACTCAATCAT
* *
47380079 TGATAATTCACATGATTCAAGAATTAAGCATCGAATGTAACAAAAAAATTTCAAATAATTTTCAT
645 TAATAATTCACATGATTCAAGAATTAAGCATCGAATGTAAC-AAAAAATTTCAAACAATTTTCAT
*
47380144 TAACTATAATTAAACCTTTCATGCTTCATTACTGAAAGAAAAAAAATTTGAAATGTGGGTGCATT
709 TAACTATAATTAAACCTTGCATGCTTCATTACTGAAAGAAAAAAAATTTGAAATGTGGGTGCATT
*
47380209 TCCAAGTCCCATG
774 TCCAAGCCCCATG
47380222 TGCATTCCCC
Statistics
Matches: 724, Mismatches: 59, Indels: 10
0.91 0.07 0.01
Matches are distributed among these distances:
790 3 0.00
791 245 0.34
792 1 0.00
793 6 0.01
795 372 0.51
796 67 0.09
797 30 0.04
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (792 bp):
ACACCCCCAAACTTGAGTTTTTACTTGTCCTCAAGTAGAATAGAAACTAGCAAGGCTACAAAAAT
TTTACTAAGGCAAATGATCATTCTAGAAACTTGAACCCTCTAAATTCCCAATAGATGAATCACAT
TCAGATGAAAGAATATTGCACCGACAATTCATAAGCATGAATGAAAAAGGTTGCAACTTCATCAA
TGCCAGAATAATGCTTCAAACCCCAAGTTCTATCTACCATTACAACATTTATTGTACAATACTAA
GTATTTATATATTATATATTTTTTTTTCAGAATAAGGGATATCGTTGCATTACTGTACCCTTATT
ACTAAGAAGTAACGATGGGGTACAACAAACCCCTAGGGAGTACGTAATTCCGCTGACACACACTC
ATGCAGCGACAACCATTGGCAAGATTAATTTTTCTAACGCTTGTATTGGAGTGCTCCATTTTTAA
CATTCCATAATACACCTACTTTGGAGTGTCTCTAATTTATAACTATATATACATATATAAGCAGC
TGTAAAAAGTAGATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCACTACTAATGCAACCTA
ATCCATTCATCAAAGAATTAAAGCTACAACCTTCTGTCAAAATTAACCAACTCAATCATTAATAA
TTCACATGATTCAAGAATTAAGCATCGAATGTAACAAAAAATTTCAAACAATTTTCATTAACTAT
AATTAAACCTTGCATGCTTCATTACTGAAAGAAAAAAAATTTGAAATGTGGGTGCATTTCCAAGC
CCCATGCACATT
Found at i:47380736 original size:18 final size:18
Alignment explanation
Indices: 47380713--47380749 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47380703 ACAAAATTTT
* *
47380713 CTTTTTCTTTTTTAGCAA
1 CTTTTTCTTCTTCAGCAA
47380731 CTTTTTCTTCTTCAGCAA
1 CTTTTTCTTCTTCAGCAA
47380749 C
1 C
47380750 AACTTCCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.54
Consensus pattern (18 bp):
CTTTTTCTTCTTCAGCAA
Found at i:47383148 original size:50 final size:50
Alignment explanation
Indices: 47383000--47383155 Score: 215
Period size: 50 Copynumber: 3.1 Consensus size: 50
47382990 TATAGAGATT
* *
47383000 ATGAGAGG-TCCCACGTAAGACCATGTCTAGGACATGGCGTTGGTACCAAG
1 ATGAGAGGTTCCC-CGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAG
* *
47383050 ATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCGTTGGTACCGAG
1 ATGAGAGGTTCCCCGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAG
* * * * *
47383100 ATGAGAGGTTCCCCGTAAGACTATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTTCCCCGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAG
47383150 ATGAGA
1 ATGAGA
47383156 ACTCTCATGT
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 91 0.97
51 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTTCCCCGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAG
Found at i:47383461 original size:12 final size:12
Alignment explanation
Indices: 47383444--47383471 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47383434 ACGAGTTATT
47383444 TAAGTAAACAAG
1 TAAGTAAACAAG
47383456 TAAGTAAACAAG
1 TAAGTAAACAAG
47383468 TAAG
1 TAAG
47383472 AGAGTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:47391062 original size:20 final size:20
Alignment explanation
Indices: 47391037--47391075 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47391027 TATCATGTTC
47391037 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
47391057 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
47391076 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:47408008 original size:42 final size:42
Alignment explanation
Indices: 47407898--47408009 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
47407888 TGTGATTTTT
* ** *
47407898 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATAACA
* * *
47407940 TGTAAGACCCTGTCTGGAACAGTGGCATCGATATATTATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGATAACA
* *
47407983 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACAGTGGCAT
47408010 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 33 0.57
43 25 0.43
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATAACA
Found at i:47408782 original size:34 final size:34
Alignment explanation
Indices: 47408690--47408788 Score: 119
Period size: 35 Copynumber: 2.9 Consensus size: 34
47408680 TATTAAAGTA
* * *
47408690 TGGTTGTTTTGCATATTACAATGATATCCAAATG
1 TGGTTGTTTTGCATGTTACAATGTTGTCCAAATG
* *
47408724 TGGTTGTTTTTACATGTTATAATGTTGTCCAAATG
1 TGGTTG-TTTTGCATGTTACAATGTTGTCCAAATG
*
47408759 TGGTTGCTTTGCATGTATA-AATGTTGTCCA
1 TGGTTGTTTTGCATGT-TACAATGTTGTCCA
47408789 TTTTTTGTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 25 0.45
35 31 0.55
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (34 bp):
TGGTTGTTTTGCATGTTACAATGTTGTCCAAATG
Found at i:47408858 original size:69 final size:69
Alignment explanation
Indices: 47408776--47408906 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 69
47408766 TTTGCATGTA
* * * * * **
47408776 TAAATGTTGTCCATTTTTTGTAGAAATCTATGTTGTCGGAATGTTATTAATGCTGTCCAAATTAG
1 TAAATGCTGTCCATTTTTGGAACAAATCAATGTTGTCCAAATGTTATTAATGCTGTCCAAATTAG
47408841 TGCT
66 TGCT
* * *
47408845 TAAATGCTGTCCATTTTTGGAACAAGTCAATGTTGTCCAAATGTTTTTACTGCTGTCCAAAT
1 TAAATGCTGTCCATTTTTGGAACAAATCAATGTTGTCCAAATGTTATTAATGCTGTCCAAAT
47408907 ATTTATGAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (69 bp):
TAAATGCTGTCCATTTTTGGAACAAATCAATGTTGTCCAAATGTTATTAATGCTGTCCAAATTAG
TGCT
Found at i:47424528 original size:28 final size:28
Alignment explanation
Indices: 47424495--47424594 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
47424485 TACTGTATTG
47424495 AGGCCCACACTATTACTGTATTGGGCTA
1 AGGCCCACACTATTACTGTATTGGGCTA
* * *
47424523 ACGCCCACTCTATTACTATATTGGGCTA
1 AGGCCCACACTATTACTGTATTGGGCTA
** * * **
47424551 AGGCTTACATTTTTACTGTATCAGGCT-
1 AGGCCCACACTATTACTGTATTGGGCTA
47424578 AGGCCCACACTA-TACTG
1 AGGCCCACACTATTACTG
47424595 ATACTGAATA
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
26 5 0.09
27 8 0.14
28 43 0.77
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (28 bp):
AGGCCCACACTATTACTGTATTGGGCTA
Found at i:47431900 original size:27 final size:27
Alignment explanation
Indices: 47431861--47431975 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
47431851 AGCGGTCAAT
*
47431861 AAATGACCAAAATACTCCT-ATAGGGTA
1 AAATGACCGAAATAC-CCTCATAGGGTA
*
47431888 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
**
47431915 AAATGATAGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
* * *
47431942 AAATAACCTAAATACCC-CTATAAGGTA
1 AAATGACCGAAATACCCTC-ATAGGGTA
47431969 AAATGAC
1 AAATGAC
47431976 TGTTATACCT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.05
27 73 0.95
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCATAGGGTA
Found at i:47432347 original size:28 final size:28
Alignment explanation
Indices: 47432303--47432412 Score: 132
Period size: 28 Copynumber: 4.0 Consensus size: 28
47432293 CACTGTACTG
47432303 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
47432331 TTAATGTATTGGGCTAAGGCCCACTCTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* ** * *
47432359 TTACTATATTGGGCTAAGGTTCACGCTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
47432387 TTACTGTATCGAGCT-AGGCCCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
47432413 GTACTGATAC
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 8 0.12
28 60 0.88
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:47432424 original size:32 final size:34
Alignment explanation
Indices: 47432388--47432452 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 34
47432378 TTCACGCTGT
* * *
47432388 TACTGTATCGAGCTAG-GCCCACACTG-TACTGA
1 TACTGAATAGAGCTAGAGCCCAAACTGTTACTGA
*
47432420 TACTGAATAGGGCTAGAGCCCAAACTGTTACTG
1 TACTGAATAGAGCTAGAGCCCAAACTGTTACTG
47432453 CATGTTGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 13 0.48
33 9 0.33
34 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (34 bp):
TACTGAATAGAGCTAGAGCCCAAACTGTTACTGA
Found at i:47436078 original size:68 final size:69
Alignment explanation
Indices: 47435925--47436111 Score: 286
Period size: 68 Copynumber: 2.7 Consensus size: 69
47435915 TTTTTTAGCA
* * *
47435925 TATTAATGTTGTCCAAATTAGTGCTTAAATACTGTCCATTTTTTGTACAAACCTATGCTGTCTGA
1 TATTAATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAACCTATGCTGTCCGA
47435990 ATGT
66 ATGT
* * * *
47435994 TATTAATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA-TTTTGGTACAAATCTATGTTGTCCGT
1 TATTAATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAACCTATGCTGTCCGA
*
47436058 TTGT
66 ATGT
*
47436062 TATTAATGTTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTGGTACAA
1 TATTAATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAA
47436112 GTCAATACTA
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
68 60 0.56
69 47 0.44
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (69 bp):
TATTAATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGGTACAAACCTATGCTGTCCGA
ATGT
Found at i:47442628 original size:16 final size:16
Alignment explanation
Indices: 47442603--47442639 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
47442593 TGATAAAAAT
47442603 TAAT-ATATAAATTATA
1 TAATAATAT-AATTATA
47442619 -AATAATATAATTATA
1 TAATAATATAATTATA
47442634 TAATAA
1 TAATAA
47442640 AGTTTATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATATAATTATA
Found at i:47443669 original size:13 final size:13
Alignment explanation
Indices: 47443651--47443676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47443641 ATAGGGTACG
47443651 AGGCATTACTAGA
1 AGGCATTACTAGA
47443664 AGGCATTACTAGA
1 AGGCATTACTAGA
47443677 TAGACTTGGT
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:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
AGGCATTACTAGA
Found at i:47444139 original size:524 final size:524
Alignment explanation
Indices: 47443151--47444189 Score: 1848
Period size: 524 Copynumber: 2.0 Consensus size: 524
47443141 AATCTTTATG
* *
47443151 GATAGACTTGGTGAATCGTAAATGGACCAGACCAATGTGATTTTAGCTTACCTGGAAAGAACTTC
1 GATAGACTTGGTGAATCGTAAATGGACCAGACCAACGTGATTTTAGCTTACCTAGAAAGAACTTC
* *
47443216 ATTCTGGAATTGAACAACAAGACTTGCTGATCTGCTTCAAATTCTCGAACTCGAATGTGGTTGTC
66 AATCTGGAATTGAACAACAAGACTTGCTGACCTGCTTCAAATTCTCGAACTCGAATGTGGTTGTC
*
47443281 ATGTCATTTCTTGAGTCTTTCTTTAAGTAATTTGGCATTTTCATATGAGAACATTCGGAACTCTT
131 ATGCCATTTCTTGAGTCTTTCTTTAAGTAATTTGGCATTTTCATATGAGAACATTCGGAACTCTT
*
47443346 CTAACTCATTGAGTTGGAACATCCGTTTTTCTTTCGCAAGCTTAGGATCCAAATTAAGTTGTTGA
196 CTAACTCATTGAGTTGGAACATCCATTTTTCTTTCGCAAGCTTAGGATCCAAATTAAGTTGTTGA
* *
47443411 AGAGTCTAGTAAGCTTTGTGCTCTAACTCAAATGGTAGATGGCAGGCTTTCCCAAAAACCAACCT
261 AGAGCCTAGTAAGCTTTGTGCTCTAACTCAAATGGTAGATGGCAAGCTTTCCCAAAAACCAACCT
*
47443476 ATAGGGTAACATCCCTAATAGTGTCTTGTATGCTGTTCTGTAAGCCCATAAAGCATCATCTAATC
326 ATAGGGTAACATCCCTAACAGTGTCTTGTATGCTGTTCTGTAAGCCCATAAAGCATCATCTAATC
* * *
47443541 TTATGGACCAATCTTGTAACACCCCAAACCCGGTCTAAACGTTATGACCTAATCTGGCGCTGTCA
391 TTATAGACCAATCTTGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCTGGCGATGTCA
* * *
47443606 TATTGTAACAC-CTCTCACTCGTATTCGACGCCGGAATAGGGTACGAGGCATTACTAGAAGGCAT
456 CATTGTAACACTC-CTCACTCGTATTCGACGCCGAAATAGGGTACGACGCATTACTAGAAGGCAT
47443670 TACTA
520 TACTA
**
47443675 GATAGACTTGGTGAATCGTAAATGGACTGGACCAACGTGATTTTAGCTTACCTAGAAAGAACTTC
1 GATAGACTTGGTGAATCGTAAATGGACCAGACCAACGTGATTTTAGCTTACCTAGAAAGAACTTC
47443740 AATCTGGAATTGAACAACAAGACTTGCTGACCTGCTTCAAATTCTCGAACTCGAATGTGGTTGTC
66 AATCTGGAATTGAACAACAAGACTTGCTGACCTGCTTCAAATTCTCGAACTCGAATGTGGTTGTC
*
47443805 ATGCCATTTCTTGAGTCTTTCTTTAAGTAATTTGGCTTTTTCATAAT-AGAACATTCGGAACTCT
131 ATGCCATTTCTTGAGTCTTTCTTTAAGTAATTTGGCATTTTCAT-ATGAGAACATTCGGAACTCT
*
47443869 TCTAACTCATTGAGTTGGAACATCCATTTTTCTTTCGCGAGCTTAGGATCCAAATTAAGTTGTTG
195 TCTAACTCATTGAGTTGGAACATCCATTTTTCTTTCGCAAGCTTAGGATCCAAATTAAGTTGTTG
47443934 AAGAGCCTAGTAAGCTTTGTGCTCTAACTCAAATGGTAGATGGCAAGCTTTCCCAAAAACCAACC
260 AAGAGCCTAGTAAGCTTTGTGCTCTAACTCAAATGGTAGATGGCAAGCTTTCCCAAAAACCAACC
* *
47443999 TATAGGGTGACATCCCTAACAGTGTCTTGTATGTTGTTCTGTAAGCCCATAAAGCATCATCTAAT
325 TATAGGGTAACATCCCTAACAGTGTCTTGTATGCTGTTCTGTAAGCCCATAAAGCATCATCTAAT
*
47444064 CTTATAGACCAATCTTGTAACACCTCAAACCCGGTCTAAACGTTATGACCGAATCTGGCGATGTC
390 CTTATAGACCAATCTTGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCTGGCGATGTC
47444129 ACATTGTAACACTCCTCACTCGTATTCGACGCCGAAATAGGGTACGACGCATTACTAGAAG
455 ACATTGTAACACTCCTCACTCGTATTCGACGCCGAAATAGGGTACGACGCATTACTAGAAG
47444190 ACATACATTT
Statistics
Matches: 491, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
524 488 0.99
525 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (524 bp):
GATAGACTTGGTGAATCGTAAATGGACCAGACCAACGTGATTTTAGCTTACCTAGAAAGAACTTC
AATCTGGAATTGAACAACAAGACTTGCTGACCTGCTTCAAATTCTCGAACTCGAATGTGGTTGTC
ATGCCATTTCTTGAGTCTTTCTTTAAGTAATTTGGCATTTTCATATGAGAACATTCGGAACTCTT
CTAACTCATTGAGTTGGAACATCCATTTTTCTTTCGCAAGCTTAGGATCCAAATTAAGTTGTTGA
AGAGCCTAGTAAGCTTTGTGCTCTAACTCAAATGGTAGATGGCAAGCTTTCCCAAAAACCAACCT
ATAGGGTAACATCCCTAACAGTGTCTTGTATGCTGTTCTGTAAGCCCATAAAGCATCATCTAATC
TTATAGACCAATCTTGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCTGGCGATGTCA
CATTGTAACACTCCTCACTCGTATTCGACGCCGAAATAGGGTACGACGCATTACTAGAAGGCATT
ACTA
Found at i:47453139 original size:22 final size:24
Alignment explanation
Indices: 47453102--47453147 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
47453092 AATCTGTCAA
47453102 AAATAGTTAAAATTAATCAAAATT
1 AAATAGTTAAAATTAATCAAAATT
*
47453126 AAATA-TT-AAATTAATTAAAATT
1 AAATAGTTAAAATTAATCAAAATT
47453148 CATCATGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 2 0.10
24 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAGTTAAAATTAATCAAAATT
Found at i:47453961 original size:27 final size:28
Alignment explanation
Indices: 47453923--47453980 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
47453913 GCAAAGCTTG
*
47453923 ATGTAGTAAAACTACTGAATAAC-AATA
1 ATGTAATAAAACTACTGAATAACAAATA
* *
47453950 ATGTAATAAAACTGCTGCATAACAAATA
1 ATGTAATAAAACTACTGAATAACAAATA
47453978 ATG
1 ATG
47453981 CGGTATAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (28 bp):
ATGTAATAAAACTACTGAATAACAAATA
Found at i:47459413 original size:25 final size:24
Alignment explanation
Indices: 47459385--47459436 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
47459375 TAATCACTTT
*
47459385 AATATTAAATTTAATCTAATATATA
1 AATATTAAATTAAATCTAATAT-TA
* *
47459410 AATATTAGATTAAATTTAATATTA
1 AATATTAAATTAAATCTAATATTA
47459434 AAT
1 AAT
47459437 CTTATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATTAAATTAAATCTAATATTA
Found at i:47461250 original size:20 final size:21
Alignment explanation
Indices: 47461210--47461251 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
47461200 ATGCTTTCTG
47461210 TGTGAACAACCTAATGACTAA
1 TGTGAACAACCTAATGACTAA
47461231 TGTGAAC-ACCTAGATG-CTAA
1 TGTGAACAACCTA-ATGACTAA
47461251 T
1 T
47461252 TTTTAGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (21 bp):
TGTGAACAACCTAATGACTAA
Found at i:47470682 original size:22 final size:22
Alignment explanation
Indices: 47470657--47470699 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47470647 CAAATTGGTG
*
47470657 ATGATTATTTATT-GTCACGAAC
1 ATGATT-TTTATTAGTAACGAAC
47470679 ATGATTTTTATTAGTAACGAA
1 ATGATTTTTATTAGTAACGAA
47470700 TTATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (22 bp):
ATGATTTTTATTAGTAACGAAC
Found at i:47474918 original size:36 final size:36
Alignment explanation
Indices: 47474818--47474923 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 36
47474808 GGAGGAGCGC
* * * *
47474818 ATCAGTCAGAATAGATCCGAAAGGCTACTGAACAGA
1 ATCAGTCAGAATAGATCCAAAAGGCTGCTAAACTGA
*
47474854 ATCAGTCAGAATAGATCCAAAAGACTGCTAAACTGA
1 ATCAGTCAGAATAGATCCAAAAGGCTGCTAAACTGA
* *
47474890 ATCAGTCAGAATAGATCTAAAAGGCTGCTTAACT
1 ATCAGTCAGAATAGATCCAAAAGGCTGCTAAACT
47474924 AAATAGAGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCAAAAGGCTGCTAAACTGA
Found at i:47476582 original size:56 final size:55
Alignment explanation
Indices: 47476517--47476647 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 55
47476507 CGAACTGGTC
* * * *
47476517 TTGCAACCTAAGGCAGACCATGTTTGTGTTTTCTAATAAGTATGTGCGAA-TCGGTT
1 TTGCGACCTAAGGCAGACCATGTTCGAGTTTT-TAAAAAGTATGTGC-AAGTCGGTT
* * *
47476573 TTGCGACCTAAGGCGGACCTTGTTCGAGTTTTTAAAAAGTATGTGCAAGTTGGTT
1 TTGCGACCTAAGGCAGACCATGTTCGAGTTTTTAAAAAGTATGTGCAAGTCGGTT
* *
47476628 TCGCGACCTAAGGCAAACCA
1 TTGCGACCTAAGGCAGACCA
47476648 AGACATGAGT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 2 0.03
55 34 0.54
56 27 0.43
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (55 bp):
TTGCGACCTAAGGCAGACCATGTTCGAGTTTTTAAAAAGTATGTGCAAGTCGGTT
Found at i:47476628 original size:55 final size:56
Alignment explanation
Indices: 47476506--47476647 Score: 162
Period size: 56 Copynumber: 2.6 Consensus size: 56
47476496 ATTTTGATAA
* * * * * *
47476506 GCGAACTGGTCTTGCAACCTAAGGCAGACCATGTTTGTGTTTTCTAATAAGTATGT
1 GCGAATTGGTTTTGCGACCTAAGGCAGACCATGTTCGAGTTTTCTAAAAAGTATGT
* * *
47476562 GCGAATCGGTTTTGCGACCTAAGGCGGACCTTGTTCGAGTTTT-TAAAAAGTATGT
1 GCGAATTGGTTTTGCGACCTAAGGCAGACCATGTTCGAGTTTTCTAAAAAGTATGT
* *
47476617 GC-AAGTTGGTTTCGCGACCTAAGGCAAACCA
1 GCGAA-TTGGTTTTGCGACCTAAGGCAGACCA
47476648 AGACATGAGT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.03
55 34 0.48
56 35 0.49
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (56 bp):
GCGAATTGGTTTTGCGACCTAAGGCAGACCATGTTCGAGTTTTCTAAAAAGTATGT
Found at i:47479535 original size:129 final size:128
Alignment explanation
Indices: 47479298--47479539 Score: 292
Period size: 129 Copynumber: 1.9 Consensus size: 128
47479288 ATTCAACAGA
* * * * *
47479298 AATTAGCCTTATTGATCCTAACTTTAATATTTTCATCCCTACATTTTCCTCAAATTCTGATGTAC
1 AATTAGCCTCATTGATCCTAACTTCAATATTTGCATCACTACATTTTCCTCAAATTCTGATGCAC
* *
47479363 AACTCACATTTTCCTTGGGTGGAAGCCTCTACGACGACACAACAAGCTCTATCACTTTCCCCG
66 AACTCACATCTTCCTTGGGTGGAAGCCCCTACGACGACACAACAAGCTCTATCACTTTCCCCG
* * * *
47479426 AATTGAGCCTCATTGGTCCTAGCTTCAATGTTTGCATCACTAC-TATTTCCTCTAAGTT-TGATG
1 AATT-AGCCTCATTGATCCTAACTTCAATATTTGCATCACTACAT-TTTCCTC-AAATTCTGATG
* * * *
47479489 CATAACTCACCTCTTCCTTGGGTGGAAGCCCCT-CTGATGACTCAACAAGCT
63 CACAACTCACATCTTCCTTGGGTGGAAGCCCCTAC-GACGACACAACAAGCT
47479540 TCGTTGTTAC
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
128 6 0.06
129 85 0.89
130 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.34
Consensus pattern (128 bp):
AATTAGCCTCATTGATCCTAACTTCAATATTTGCATCACTACATTTTCCTCAAATTCTGATGCAC
AACTCACATCTTCCTTGGGTGGAAGCCCCTACGACGACACAACAAGCTCTATCACTTTCCCCG
Found at i:47481684 original size:4 final size:4
Alignment explanation
Indices: 47481675--47481701 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47481665 ATTCAATTTC
47481675 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
47481702 TCCATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:47482352 original size:17 final size:17
Alignment explanation
Indices: 47482314--47482352 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
47482304 TTAAAAAATT
47482314 ATTT-TTAATTATAAAA
1 ATTTATTAATTATAAAA
*
47482330 A-CTATTAATTATAAAA
1 ATTTATTAATTATAAAA
47482346 ATTTATT
1 ATTTATT
47482353 GAAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.74
17 4 0.21
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTATTAATTATAAAA
Found at i:47482903 original size:15 final size:14
Alignment explanation
Indices: 47482883--47482912 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
47482873 TTTATGATGG
47482883 TATATATATACTAAA
1 TATATATATA-TAAA
47482898 TATATATATATAAA
1 TATATATATATAAA
47482912 T
1 T
47482913 TATTGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATATAAA
Found at i:47484397 original size:75 final size:75
Alignment explanation
Indices: 47484243--47484413 Score: 200
Period size: 75 Copynumber: 2.3 Consensus size: 75
47484233 TCGGTTTATT
* * * * *
47484243 CGACTAGCGCTAGGCGCAAACACCGTTGGTTCATCCAACTAGAGTTGGGCTCACTTTTATTATCG
1 CGACTAGCGCTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTAGGCTCACTTTCAATATCG
* *
47484308 TCAGTATCTT
66 TCAGTAACTC
* * ** * *
47484318 CGACTAGCACTGGGCACAAACATTGTTGGTTTATCCAACTAGAGCTAGGCTCACTTTCAATATTG
1 CGACTAGCGCTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTAGGCTCACTTTCAATATCG
*
47484383 TCGGTTAAC-C
66 TCAG-TAACTC
47484393 CGACTAGCGCTGGGCGCAAAC
1 CGACTAGCGCTGGGCGCAAAC
47484414 TCCTCTGCGG
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
75 76 0.96
76 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (75 bp):
CGACTAGCGCTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTAGGCTCACTTTCAATATCG
TCAGTAACTC
Found at i:47487263 original size:21 final size:20
Alignment explanation
Indices: 47487226--47487264 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47487216 TATTTTTAAA
*
47487226 ATTTTTAAAATACTTTTTTT
1 ATTTTTAAAATAATTTTTTT
47487246 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAAT-AATTTTT
47487265 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAAAATAATTTTTTT
Found at i:47488342 original size:6 final size:6
Alignment explanation
Indices: 47488310--47488341 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
47488300 CTCAGTGTAT
*
47488310 GATAGA GATAGA GATAGA GATAGA GAGAGA GA
1 GATAGA GATAGA GATAGA GATAGA GATAGA GA
47488342 GGGAGCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.38, T:0.12
Consensus pattern (6 bp):
GATAGA
Found at i:47492262 original size:26 final size:26
Alignment explanation
Indices: 47492232--47492282 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
47492222 ACCAATGAAC
*
47492232 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
47492258 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
47492283 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:47492322 original size:103 final size:104
Alignment explanation
Indices: 47492138--47492360 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
47492128 AATGGATATC
47492138 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47492203 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
47492242 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47492306 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
47492345 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
47492361 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:47492722 original size:29 final size:29
Alignment explanation
Indices: 47492689--47492752 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47492679 TAATCCACCA
47492689 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
47492718 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
47492748 CCCAA
1 CCCAA
47492753 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:47492726 original size:30 final size:30
Alignment explanation
Indices: 47492696--47492752 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47492686 CCACCCAACT
47492696 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
47492725 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
47492753 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:47499641 original size:26 final size:26
Alignment explanation
Indices: 47499605--47499656 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
47499595 CACCACTGAA
* *
47499605 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
47499631 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
47499657 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:47499733 original size:70 final size:71
Alignment explanation
Indices: 47499617--47499767 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
47499607 GGGGAATCAT
*
47499617 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
47499681 ATATCG
66 ATATCG
* ***
47499687 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
47499752 GATATCG
65 GATATCG
47499759 CACTTAGCA
1 CACTTAGCA
47499768 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:47499810 original size:104 final size:104
Alignment explanation
Indices: 47499686--47499909 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
47499676 AATGGATATC
47499686 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47499751 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
47499790 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47499855 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
47499894 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
47499910 TTATATACAA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:47500270 original size:29 final size:29
Alignment explanation
Indices: 47500237--47500300 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47500227 TAATCCACCA
47500237 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
47500266 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
47500296 CCCAA
1 CCCAA
47500301 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:47500274 original size:30 final size:30
Alignment explanation
Indices: 47500244--47500300 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47500234 CCACCCAACT
47500244 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
47500273 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
47500301 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:47502612 original size:46 final size:46
Alignment explanation
Indices: 47502554--47502710 Score: 169
Period size: 46 Copynumber: 3.4 Consensus size: 46
47502544 TGGTTGAGCA
*
47502554 TTGAGT-CGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 TTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
* * * *
47502599 TTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAACTCGTTGAG
1 TTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCGAACTCGTTGAG
* * * *
47502646 TTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 TTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
47502692 TTGAGTCCGAGTTCACTTA
1 TTGAGTCCGAGTTCACTTA
47502711 GGGGCGGGTT
Statistics
Matches: 91, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.07
45 9 0.10
46 39 0.43
47 29 0.32
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
Found at i:47510149 original size:46 final size:46
Alignment explanation
Indices: 47510099--47510224 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
47510089 TGGTTGAGCA
*
47510099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
47510145 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
47510191 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47510225 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47514259 original size:22 final size:22
Alignment explanation
Indices: 47514231--47514274 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
47514221 TTTTGAACCA
47514231 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
47514253 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
47514275 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:47514799 original size:33 final size:33
Alignment explanation
Indices: 47514754--47514831 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
47514744 CGACGTACTA
*
47514754 TCTGTGTTTACTAGT-CCAACGGACTTACTCTAT
1 TCTGTGTTTACTA-TCCCAACAGACTTACTCTAT
*
47514787 T-TCGTGTTTACTATCCCTACAGACTTACTCTAT
1 TCT-GTGTTTACTATCCCAACAGACTTACTCTAT
47514820 TCTGTGTTTACT
1 TCTGTGTTTACT
47514832 CTCTTACTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
32 2 0.05
33 37 0.93
34 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.44
Consensus pattern (33 bp):
TCTGTGTTTACTATCCCAACAGACTTACTCTAT
Found at i:47522430 original size:19 final size:19
Alignment explanation
Indices: 47522406--47522459 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
47522396 AATCTTCAGG
47522406 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
47522425 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
47522444 GATATGCAATTTTAGA
1 GATATGCAATCTTAGA
47522460 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:47522485 original size:22 final size:22
Alignment explanation
Indices: 47522406--47522482 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
47522396 AATCTTCAGG
47522406 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
47522425 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
47522444 GATATGCAATTTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
47522466 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
47522483 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 31 0.62
22 8 0.16
23 11 0.22
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:47523043 original size:35 final size:35
Alignment explanation
Indices: 47522974--47523043 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
47522964 TTACAGTTCA
*
47522974 AATTAGTCTTTTTTTCATTTTCTTTATTTTTTATT
1 AATTAGTCTTTTTTTCATTTTCTTTATTTATTATT
47523009 AATTAGT-TTTTTATTC-TTTT-TTATATTTAATTATT
1 AATTAGTCTTTTT-TTCATTTTCTT-TATTT-ATTATT
47523044 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
33 2 0.06
34 14 0.45
35 15 0.48
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (35 bp):
AATTAGTCTTTTTTTCATTTTCTTTATTTATTATT
Found at i:47523160 original size:23 final size:21
Alignment explanation
Indices: 47523115--47523178 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 21
47523105 ATATAATTAT
47523115 TATTATTTGTTTTT-TTATATG
1 TATTATTT-TTTTTATTATATG
47523136 TAATTATTTTTTTTATCTATATG
1 T-ATTATTTTTTTTAT-TATATG
* *
47523159 TATATATTTATTTTAGTATA
1 TAT-TATTTTTTTTATTATA
47523179 CATATGTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 6 0.16
22 14 0.38
23 17 0.46
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.66
Consensus pattern (21 bp):
TATTATTTTTTTTATTATATG
Found at i:47530721 original size:21 final size:21
Alignment explanation
Indices: 47530697--47530833 Score: 89
Period size: 21 Copynumber: 6.5 Consensus size: 21
47530687 ACTCATATGA
*
47530697 GTTTCAGTTTAACCCTTCTGG
1 GTTTCCGTTTAACCCTTCTGG
* * * * * *
47530718 GTTTCAGTTCATCTCTTTTGA
1 GTTTCCGTTTAACCCTTCTGG
* * *
47530739 GCTTCAGTTTAACCCTTATGG
1 GTTTCCGTTTAACCCTTCTGG
* * * * *
47530760 GTTTCCGTTCAGCTCTTATGA
1 GTTTCCGTTTAACCCTTCTGG
**
47530781 CCTTCCGTTTAACCCTTAC-GG
1 GTTTCCGTTTAACCCTT-CTGG
47530802 GTTTCCGTTTAACCCTTAC-GG
1 GTTTCCGTTTAACCCTT-CTGG
47530823 GTTTCCGTTTA
1 GTTTCCGTTTA
47530834 GCACTTATGT
Statistics
Matches: 89, Mismatches: 26, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
21 89 1.00
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (21 bp):
GTTTCCGTTTAACCCTTCTGG
Found at i:47530748 original size:42 final size:42
Alignment explanation
Indices: 47530679--47530806 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 42
47530669 TCTCATGAGC
* * *
47530679 TTCAGTT-AACTCATATGAGTTTCAGTTTAACCCTTCTGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTCTGGGT
* * *
47530720 TTCAGTTCATCTCTTTTGAGCTTCAGTTTAACCCTTATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTCTGGGT
* * *
47530762 TTCCGTTCAGCTCTTATGACCTTCCGTTTAACCCTTAC-GGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTT-CTGGGT
47530804 TTC
1 TTC
47530807 CGTTTAACCC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
41 7 0.09
42 67 0.91
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTCTGGGT
Found at i:47530807 original size:42 final size:42
Alignment explanation
Indices: 47530699--47530810 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
47530689 TCATATGAGT
* * * *
47530699 TTCAGTTTAACCCTT-CTGGGTTTCAGTTCATCTCTTTTGAGC
1 TTCAGTTTAACCCTTAC-GGGTTTCCGTTCAGCTCTTATGACC
*
47530741 TTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGACC
1 TTCAGTTTAACCCTTACGGGTTTCCGTTCAGCTCTTATGACC
*
47530783 TTCCGTTTAACCCTTACGGGTTTCCGTT
1 TTCAGTTTAACCCTTACGGGTTTCCGTT
47530811 TAACCCTTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.43
Consensus pattern (42 bp):
TTCAGTTTAACCCTTACGGGTTTCCGTTCAGCTCTTATGACC
Found at i:47530840 original size:21 final size:21
Alignment explanation
Indices: 47530745--47530833 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
47530735 TTGAGCTTCA
*
47530745 GTTTAACCCTTATGGGTTTCC
1 GTTTAACCCTTACGGGTTTCC
* * * * ***
47530766 GTTCAGCTCTTATGACCTTCC
1 GTTTAACCCTTACGGGTTTCC
47530787 GTTTAACCCTTACGGGTTTCC
1 GTTTAACCCTTACGGGTTTCC
47530808 GTTTAACCCTTACGGGTTTCC
1 GTTTAACCCTTACGGGTTTCC
47530829 GTTTA
1 GTTTA
47530834 GCACTTATGT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (21 bp):
GTTTAACCCTTACGGGTTTCC
Found at i:47531375 original size:23 final size:23
Alignment explanation
Indices: 47531345--47531390 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47531335 TAGTATGGGT
47531345 AATGAATGAATTGATATAGCATG
1 AATGAATGAATTGATATAGCATG
*
47531368 AATGAATGAATTGGTATAGCATG
1 AATGAATGAATTGATATAGCATG
47531391 TTAATATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.30
Consensus pattern (23 bp):
AATGAATGAATTGATATAGCATG
Found at i:47540025 original size:20 final size:20
Alignment explanation
Indices: 47539997--47540035 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47539987 AATACTATGA
47539997 ATCACTCCATTTACTTACTT
1 ATCACTCCATTTACTTACTT
* *
47540017 ATCATTCCATTTATTTACT
1 ATCACTCCATTTACTTACT
47540036 GTCCATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (20 bp):
ATCACTCCATTTACTTACTT
Found at i:47540040 original size:15 final size:16
Alignment explanation
Indices: 47540022--47540051 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47540012 TACTTATCAT
47540022 TCCATTT-ATTTACTG
1 TCCATTTCATTTACTG
47540037 TCCATTTCATTTACT
1 TCCATTTCATTTACT
47540052 AAAAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.53
Consensus pattern (16 bp):
TCCATTTCATTTACTG
Found at i:47552583 original size:41 final size:41
Alignment explanation
Indices: 47552396--47552584 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
47552386 CCGGCTTTTG
* *
47552396 GCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCAA
1 GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
* * *
47552437 GCCTGCTAGACGTAAAGTCTAAATTGTTTCACCAGCATCAA
1 GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
* *
47552478 GCCTGTTAGACATAAAGTCTGAATTGTTTCACCGGCATCCA
1 GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
* * * *
47552519 GCCTGCTAGACATAGAGTTTGAATTGTTTCACTGGCATCCA
1 GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
* * *
47552560 TCCTACTAGACATAGAGTCTGAATT
1 GCCTGCTAGACATAAAGTCTGAATT
47552585 ATCTCACTTG
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 132 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (41 bp):
GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGGCATCAA
Found at i:47562904 original size:16 final size:16
Alignment explanation
Indices: 47562883--47562916 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47562873 GATTAGGACA
47562883 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
47562899 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
47562915 TA
1 TA
47562917 GGACATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:47563387 original size:29 final size:29
Alignment explanation
Indices: 47563345--47563409 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
47563335 CGCCACAAAC
*
47563345 CTAA-AAGAACTAGTCAAAAATTAGCATG
1 CTAAGAAGAAATAGTCAAAAATTAGCATG
* *
47563373 CTAAGAAGAAATAGTCAAAAATTGGCGTG
1 CTAAGAAGAAATAGTCAAAAATTAGCATG
47563402 CTAAGAAG
1 CTAAGAAG
47563410 CAAACAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (29 bp):
CTAAGAAGAAATAGTCAAAAATTAGCATG
Found at i:47565196 original size:18 final size:18
Alignment explanation
Indices: 47565171--47565220 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
47565161 ACATTTTGGA
47565171 AAATTAATACAATTCACC
1 AAATTAATACAATTCACC
*
47565189 ATATTAATACAGA-TCACC
1 AAATTAATACA-ATTCACC
*
47565207 AAATTAACACAATT
1 AAATTAATACAATT
47565221 TTTCATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (18 bp):
AAATTAATACAATTCACC
Found at i:47565487 original size:33 final size:34
Alignment explanation
Indices: 47565440--47565505 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
47565430 TACAAAACTC
47565440 ATATACATATATATTATATA-AAACAAGACCCAT
1 ATATACATATATATTATATATAAACAAGACCCAT
* * *
47565473 ATATGCATATATATTGTATATAATCAAGACCCA
1 ATATACATATATATTATATATAAACAAGACCCA
47565506 CGCATATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (34 bp):
ATATACATATATATTATATATAAACAAGACCCAT
Found at i:47565551 original size:29 final size:30
Alignment explanation
Indices: 47565479--47565553 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
47565469 CCATATATGC
* *
47565479 ATATATATTGTATATAATCAAGACCCACGC
1 ATATATATTGTATATAATCAAAACCCACGA
* **
47565509 ATATATGTCATATATAAT-AAAACCCACGA
1 ATATATATTGTATATAATCAAAACCCACGA
47565538 ATATATATTGTATATA
1 ATATATATTGTATATA
47565554 TATACGTACC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 22 0.59
30 15 0.41
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (30 bp):
ATATATATTGTATATAATCAAAACCCACGA
Found at i:47573690 original size:79 final size:81
Alignment explanation
Indices: 47573589--47573773 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
47573579 GCTACTCGTT
* *
47573589 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
47573652 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
47573669 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
47573733 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
47573749 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47573774 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:47573773 original size:40 final size:40
Alignment explanation
Indices: 47573589--47573773 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
47573579 GCTACTCGTT
* *
47573589 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
47573629 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
47573669 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
47573708 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
47573749 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47573774 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:47576248 original size:201 final size:203
Alignment explanation
Indices: 47575866--47576285 Score: 641
Period size: 201 Copynumber: 2.1 Consensus size: 203
47575856 GTTTAGTAAA
* *
47575866 AAATCAGTTCCTATTGGACATATCAGTTTTTATTAAATTAATTGAAACTATGTATGTCATTGAAT
1 AAATCAATTCCTATTTGACATATCAGTTTTTATTAAATTAATTGAAACTATGTATGTCATTGAAT
*
47575931 TATTCAAATATGATTCAAATCATTTTTTCAAATGTTGATTCAAATATGATTATTATTTGTATCAA
66 TATTCAAATATGATTCAAATCATTTTTTCAAATGTTGATTCAAATATGATTATTATTTGTAACAA
* * * * * **
47575996 ATTGAATTGCAGGTTTGGACTTTTGTATACTTATTGTCTATTATGTGCATACTAATTACCTTAGG
131 ACTAAATTGCAGGTTTGCACTTTTATAAACTTATTGTCTACCATGTGCATACTAATTACCTTAGG
47576061 AAAGAGAC
196 AAAGAGAC
* * *
47576069 AAATCAATTCCTATTTGACA-ATCAGTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAAT
1 AAATCAATTCCTATTTGACATATCAGTTTTTATTAAATTAATTGAAACTATGTATGTCATTGAAT
* *
47576133 TGTTCAAATATGATTCAAAAT-ATTTTTT-AAATGTTGATTGAAATATGATTATTATTTGTAACA
66 TATTCAAATATGATTC-AAATCATTTTTTCAAATGTTGATTCAAATATGATTATTATTTGTAACA
* *
47576196 AACTAAATTGCAGGTTTGCATTTTTATAAACTTATTGTCTGCCA-GATGCATACTAATTACCTTA
130 AACTAAATTGCAGGTTTGCACTTTTATAAACTTATTGTCTACCATG-TGCATACTAATTACCTTA
47576260 GGAAAGAGAC
194 GGAAAGAGAC
47576270 AAATCAATTCCTATTT
1 AAATCAATTCCTATTT
47576286 TTATGACTAA
Statistics
Matches: 198, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
200 1 0.01
201 112 0.57
202 63 0.32
203 22 0.11
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (203 bp):
AAATCAATTCCTATTTGACATATCAGTTTTTATTAAATTAATTGAAACTATGTATGTCATTGAAT
TATTCAAATATGATTCAAATCATTTTTTCAAATGTTGATTCAAATATGATTATTATTTGTAACAA
ACTAAATTGCAGGTTTGCACTTTTATAAACTTATTGTCTACCATGTGCATACTAATTACCTTAGG
AAAGAGAC
Found at i:47576643 original size:147 final size:148
Alignment explanation
Indices: 47576479--47576756 Score: 423
Period size: 148 Copynumber: 1.9 Consensus size: 148
47576469 CATTGTTTTA
* * *
47576479 GATTTGTTTGTATTAAATTGTTTGGTTATTGTACATGAAAAAA-TGTATTTCAATCTATTAAATT
1 GATTTGTTTGTATTAAATTATTTGGTTATTGTACATGAAAAAATTGGATTTCAATATATTAAATT
* *
47576543 ATTTTTGTATTGGTTATTGTCTGCCATTTCCTAGGTTGTATTAAAGTGTTCGGTTATTGTCTGCC
66 ATTTTTGTATTGGTTATTGTCTGCCATTGCCTAGGTTGTACTAAAGTGTTCGGTTATTGTCTGCC
47576608 ATGTGTATAACAAAAATG
131 ATGTGTATAACAAAAATG
***
47576626 GATTTGTTTGTATTAAATTATTTGGTTATTGTACATGAAAAAATTGGATTTGTTTATATTAAATT
1 GATTTGTTTGTATTAAATTATTTGGTTATTGTACATGAAAAAATTGGATTTCAATATATTAAATT
* * * * * *
47576691 GTTTTTGTATTGGTTATTTTTTGTCATTGCCTAGGTTTTACTAAAGTGTTTGGTTATTGTCTGCC
66 ATTTTTGTATTGGTTATTGTCTGCCATTGCCTAGGTTGTACTAAAGTGTTCGGTTATTGTCTGCC
47576756 A
131 A
47576757 ATGCTTTTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
147 42 0.36
148 74 0.64
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.49
Consensus pattern (148 bp):
GATTTGTTTGTATTAAATTATTTGGTTATTGTACATGAAAAAATTGGATTTCAATATATTAAATT
ATTTTTGTATTGGTTATTGTCTGCCATTGCCTAGGTTGTACTAAAGTGTTCGGTTATTGTCTGCC
ATGTGTATAACAAAAATG
Found at i:47578793 original size:23 final size:23
Alignment explanation
Indices: 47578767--47578829 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
47578757 ACTAATCCTT
47578767 TGTGGCATATTTTGTATAGCCTA
1 TGTGGCATATTTTGTATAGCCTA
* * * *
47578790 TGTGACATATTCTGGATAGCCTT
1 TGTGGCATATTTTGTATAGCCTA
* * *
47578813 TATGGAAAATTTTGTAT
1 TGTGGCATATTTTGTAT
47578830 TCTATCATTG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (23 bp):
TGTGGCATATTTTGTATAGCCTA
Found at i:47581148 original size:45 final size:44
Alignment explanation
Indices: 47581050--47581460 Score: 355
Period size: 37 Copynumber: 9.7 Consensus size: 44
47581040 TTTGAGTACT
* *
47581050 TCTGATCAAGTGATAAAGTGATAAGTG-TAGCTTGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTA
47581093 TCTGATCAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTT--GCTACACTTA
47581138 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTT--GCTACACTTA
*
47581190 TCTGATCAAGTGACAAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-----AAAGTGATAAGTGATAGCTT--GCTACACTTA
*
47581241 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTT-GCTACACTTA
47581286 TCTGATCAAGTGACAAAGTGATAA--G-T-G---GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTA
47581323 TCTGATCAAGTGACAAAGTGATAA--G-T-G---GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTA
**
47581360 TCTGATCAAGAAACAAAGTGATAA--G-T-G---GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTA
**
47581397 TCTGATCAAGAAACAAAGTGAT-AG-G-T-G---GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTA
*
47581434 TCTGATC-AGGGAC-AAGTGATAAGTGAT
1 TCTGATCAAGTGACAAAGTGATAAGTGAT
47581461 CATACGTAAG
Statistics
Matches: 339, Mismatches: 15, Indels: 33
0.88 0.04 0.09
Matches are distributed among these distances:
35 7 0.02
36 7 0.02
37 125 0.37
38 1 0.00
41 1 0.00
42 13 0.04
43 20 0.06
45 55 0.16
46 20 0.06
51 46 0.14
52 44 0.13
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTA
Found at i:47581163 original size:52 final size:51
Alignment explanation
Indices: 47581099--47581312 Score: 314
Period size: 52 Copynumber: 4.2 Consensus size: 51
47581089 CTTATCTGAT
47581099 CAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
47581151 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGT-GAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* * *
47581203 CAAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
47581254 C-----AAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
47581299 CAAAGTGATAAGTG
1 C-AAGTGA-AAGTG
47581313 GCTACACTTA
Statistics
Matches: 148, Mismatches: 6, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
45 22 0.15
46 20 0.14
51 46 0.31
52 58 0.39
53 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (51 bp):
CAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
Found at i:47581266 original size:97 final size:95
Alignment explanation
Indices: 47581050--47581312 Score: 333
Period size: 97 Copynumber: 2.7 Consensus size: 95
47581040 TTTGAGTACT
* *
47581050 TCTGATCAAGTGATAAAGTGATAAGTG-TAGCTTGCTATACTTATCTGATCAAGTGAC------A
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGTGACAAGTGAA
47581108 AGTGATAAGTGATAGCTTCAGCTACACTTA
66 AGTGATAAGTGATAGCTTCAGCTACACTTA
47581138 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGTGA
* *
47581203 CAAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
58 CAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
47581241 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTT-GCTACACTTATCTGATCAAGTGAC-AAGTG
47581306 ATAAGTG
64 A-AAGTG
47581313 GCTACACTTA
Statistics
Matches: 152, Mismatches: 6, Indels: 24
0.84 0.03 0.13
Matches are distributed among these distances:
88 13 0.09
94 13 0.09
95 6 0.04
96 24 0.16
97 49 0.32
98 5 0.03
103 42 0.28
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (95 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGTGACAAGTGAA
AGTGATAAGTGATAGCTTCAGCTACACTTA
Done.