Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 142 of 240
Found at i:44402737 original size:51 final size:50
Alignment explanation
Indices: 44402679--44402867 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 50
44402669 ATACCCGGTT
* * *
44402679 CACATAGTATCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCTGGTA
* * * * *
44402730 CACATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATC-ATCTGGTA
* *
44402781 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCTGGTA
* *
44402831 CACGTAGTAGCTTGCACATAGTACTACACATGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC
44402868 TAGCAACTTC
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 42 0.36
51 74 0.63
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCTGGTA
Found at i:44402804 original size:102 final size:101
Alignment explanation
Indices: 44402681--44402865 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
44402671 ACCCGGTTCA
* * *
44402681 CATAGTATCCTGCACATAGTACTACACATGTGACCATTTTCA-TCTGATACACATAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCTGATACACATAGTAGCCTGC
44402745 ACATAGTACTACACACGTGATCAAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCAAAGCTATCCGGTACG
* * *
44402783 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCTTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGATACACATAGTAGCCTGCAC
*
44402848 ATAGTACTACACATGTGA
66 ATAGTACTACACACGTGA
44402866 CCTAGCAACT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCAAAGCTATCCGGTACG
Found at i:44417596 original size:19 final size:18
Alignment explanation
Indices: 44417572--44417607 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
44417562 TAATTAAAAA
*
44417572 TTAATTAATCATTGTTTAT
1 TTAATTAAACA-TGTTTAT
44417591 TTAATTAAACATGTTTA
1 TTAATTAAACATGTTTA
44417608 ACAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TTAATTAAACATGTTTAT
Found at i:44425352 original size:42 final size:42
Alignment explanation
Indices: 44425277--44425370 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
44425267 ATAGCCTAGC
* *
44425277 ACATGGCCTGGCACACGGGCGTGTAGGGCTATTTCGAGAGTT
1 ACATGGCCTGGCACACAGGCATGTAGGGCTATTTCGAGAGTT
* * *
44425319 ACATGGCTTGGCACACAGGCATGTGGGGTTATTTCGAGAGTT
1 ACATGGCCTGGCACACAGGCATGTAGGGCTATTTCGAGAGTT
* *
44425361 ATACGGCCTG
1 ACATGGCCTG
44425371 ACATACGAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (42 bp):
ACATGGCCTGGCACACAGGCATGTAGGGCTATTTCGAGAGTT
Found at i:44426859 original size:32 final size:31
Alignment explanation
Indices: 44426787--44426897 Score: 100
Period size: 32 Copynumber: 3.5 Consensus size: 31
44426777 TAGAATGGCT
* * * **
44426787 ACAAGCCATAAGTA-CAGTAATATGGTTGGC
1 ACAAACCATCAGTAGCAGTAATATGATCCGC
*
44426817 ACAAAGCCATCAGTAGCAGTGATATGAT-CGAC
1 ACAAA-CCATCAGTAGCAGTAATATGATCCG-C
***
44426849 ACACAACCATCAGTAATGGTAATATGATCCGC
1 ACA-AACCATCAGTAGCAGTAATATGATCCGC
44426881 ACAAACCATCAGTAGCA
1 ACAAACCATCAGTAGCA
44426898 TCGTAGAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
30 4 0.06
31 20 0.31
32 36 0.56
33 4 0.06
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
ACAAACCATCAGTAGCAGTAATATGATCCGC
Found at i:44427093 original size:24 final size:24
Alignment explanation
Indices: 44427066--44427171 Score: 131
Period size: 24 Copynumber: 4.4 Consensus size: 24
44427056 TCATGCTCAG
44427066 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
44427090 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
** *
44427114 AATCAGTCATTTAAATCACATACA
1 AATCAGTCATACAAATCACAGACA
** * *
44427138 AATCAGTCATTTACATCACGGACA
1 AATCAGTCATACAAATCACAGACA
*
44427162 AATCAATCAT
1 AATCAGTCAT
44427172 TTACACTCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:44427142 original size:11 final size:11
Alignment explanation
Indices: 44427073--44427142 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
44427063 CAGAATCAGT
44427073 CATACAAATCA
1 CATACAAATCA
*
44427084 CAGACAAATCA
1 CATACAAATCA
*
44427095 GTCATACCAATCA
1 --CATACAAATCA
*
44427108 CAGACAAATCA
1 CATACAAATCA
**
44427119 GTCATTTAAATCA
1 --CATACAAATCA
44427132 CATACAAATCA
1 CATACAAATCA
44427143 GTCATTTACA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
11 28 0.62
13 17 0.38
ACGTcount: A:0.49, C:0.26, G:0.06, T:0.20
Consensus pattern (11 bp):
CATACAAATCA
Found at i:44427172 original size:24 final size:24
Alignment explanation
Indices: 44427066--44427201 Score: 127
Period size: 24 Copynumber: 5.6 Consensus size: 24
44427056 TCATGCTCAG
** *
44427066 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTACATCACAGACA
44427090 AATCAGTCA--TACCAATCACAGACA
1 AATCAGTCATTTA-C-ATCACAGACA
* *
44427114 AATCAGTCATTTAAATCACATACA
1 AATCAGTCATTTACATCACAGACA
*
44427138 AATCAGTCATTTACATCACGGACA
1 AATCAGTCATTTACATCACAGACA
*
44427162 AATCAATCATTTACACTCA-AGAGGCAA
1 AATCAGTCATTTACA-TCACAGA--C-A
44427189 AAT-AGTCATTTAC
1 AATCAGTCATTTAC
44427202 CCTCCACGGG
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.01
24 74 0.79
25 3 0.03
26 12 0.13
27 4 0.04
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.24
Consensus pattern (24 bp):
AATCAGTCATTTACATCACAGACA
Found at i:44427230 original size:27 final size:27
Alignment explanation
Indices: 44427193--44427713 Score: 386
Period size: 27 Copynumber: 19.3 Consensus size: 27
44427183 AGGCAAAATA
* *
44427193 GTCA-TTTACCCTCCACGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
44427219 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * ** * *
44427246 ATCATTTTACCCTA-TGAGCATTTTTCG
1 GTCATTTTACCCTACAG-GGGTATTACG
*
44427273 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* ** * *
44427300 ATCATTTTACCCTATGGGGGTTTTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
44427327 GTCATTTTACCCTATAGGGATATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
44427354 GTTATTTTACCTTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
44427381 GTCATTTTACCCTAC-GAGGGCATTACG
1 GTCATTTTACCCTACAG-GGGTATTACG
* * * **
44427408 GTCATTTTACCCTATAAGGGTTTTTTG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
44427435 ATCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
44427462 GTTATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
44427489 ATCATTTAACCCT-CTGGGGGTATTACG
1 GTCATTTTACCCTAC-AGGGGTATTACG
* * *
44427516 GTAATTTTACCCTACAGTGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * ** * **
44427543 ATCATTTTATCCTATGGGGGTTTTTTG
1 GTCATTTTACCCTACAGGGGTATTACG
*
44427570 GTCATTTTACCCTACAAGGGG-ATTACT
1 GTCATTTTACCCTAC-AGGGGTATTACG
* *
44427597 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
44427624 ATTATTTTACCCTACGGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
** * *
44427651 GTCATTTTACCCTGTAGGGGTTTTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * * **
44427678 ATCTTTTTACCTTACAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGTATTACG
44427705 GTCATTTTA
1 GTCATTTTA
44427714 TAAGTATTGG
Statistics
Matches: 371, Mismatches: 115, Indels: 17
0.74 0.23 0.03
Matches are distributed among these distances:
26 10 0.03
27 355 0.96
28 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:44427298 original size:81 final size:80
Alignment explanation
Indices: 44427193--44427713 Score: 468
Period size: 81 Copynumber: 6.5 Consensus size: 80
44427183 AGGCAAAATA
* * * * **
44427193 GTCA-TTTACCCTCCACGGGTATTACGGTCATTTTACCCTACAGGGGTATTACAATCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTCATTTTACC
** * *
44427257 CTATGAGCATTTTTCG
66 CTAT-AGGGTATTACG
* * * *
44427273 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATGGGGGTTTTTCGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTCATTTTACC
*
44427338 CTATAGGGATATTACA
66 CTATAGGG-TATTACG
* * * * *
44427354 GTTATTTTACCTTACAAGGGCATTACGGTCATTTTACCCTACGAGGGCATTACGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTCATTTTACC
* **
44427419 CTATAAGGGTTTTTTG
66 CTAT-AGGGTATTACG
* * * * ** * * *
44427435 ATCATTTTACCCTACAGGGGCATTATGGTTATTTTACCTTATAGGGGTATTTCGATCATTTAACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTCATTTTACC
* *
44427500 CTCTGGGGGTATTACG
66 CTAT-AGGGTATTACG
* * * * * * **
44427516 GTAATTTTACCCTACAGTGGCATTACGATCATTTTATCCTATGGGGGTTTTTTGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTCATTTTACC
* * *
44427581 CTACAAGGGGATTACT
66 CTA-TAGGGTATTACG
* * * *
44427597 GTCATTTTACCTTACAGGGGCATTACGATTATTTTACCCTACGGGGGCATTACGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTCATTTTACC
* * *
44427662 CTGTAGGGGTTTTTCG
66 CTATA-GGGTATTACG
* * * **
44427678 ATCTTTTTACCTTACAGGGGCATTATAGTCATTTTA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTA
44427714 TAAGTATTGG
Statistics
Matches: 348, Mismatches: 88, Indels: 9
0.78 0.20 0.02
Matches are distributed among these distances:
80 7 0.02
81 337 0.97
82 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (80 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTCATTTTACC
CTATAGGGTATTACG
Found at i:44428098 original size:18 final size:18
Alignment explanation
Indices: 44428069--44428108 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44428059 ATCTATGTGA
44428069 CCCACAAGCCCACTT-GG
1 CCCACAAGCCCACTTCGG
*
44428086 CCCACACAGCCCATTTCGG
1 CCCACA-AGCCCACTTCGG
44428105 CCCA
1 CCCA
44428109 ACGAGGCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 6 0.30
ACGTcount: A:0.23, C:0.50, G:0.15, T:0.12
Consensus pattern (18 bp):
CCCACAAGCCCACTTCGG
Found at i:44430282 original size:24 final size:22
Alignment explanation
Indices: 44430230--44430285 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
44430220 TGCATTAATG
44430230 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
*
44430252 AACAGAGAGCAC-ATATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
44430274 AACGGAGAGCAC
1 AACAGAGAGCAC
44430286 CGCCGTGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 1 0.03
22 30 0.97
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:44430308 original size:25 final size:25
Alignment explanation
Indices: 44430278--44430333 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
44430268 GTGCTAAACG
** *
44430278 GAGAGCACCGCCGTGCTAGTAATCA
1 GAGAGCACCAACGTGCTAATAATCA
44430303 GAGAGCACCAACGTGCTAATAATCA
1 GAGAGCACCAACGTGCTAATAATCA
44430328 GAGAGC
1 GAGAGC
44430334 GTGCTAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.25, G:0.27, T:0.14
Consensus pattern (25 bp):
GAGAGCACCAACGTGCTAATAATCA
Found at i:44431321 original size:22 final size:22
Alignment explanation
Indices: 44431271--44431314 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
44431261 TTTTTATAAT
*
44431271 ATAATATAATATTATATTTCAA
1 ATAATATAATATTATATATCAA
44431293 ATAATATAATATTAT-TAT-AA
1 ATAATATAATATTATATATCAA
44431313 AT
1 AT
44431315 TGAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 2 0.10
22 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATATAATATTATATATCAA
Found at i:44431365 original size:35 final size:35
Alignment explanation
Indices: 44431319--44431485 Score: 252
Period size: 35 Copynumber: 4.9 Consensus size: 35
44431309 ATAAATTGAA
44431319 TATTTT-TTGCAGGGAATCTCTCCTGTTCACGCAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
* *
44431353 TATTTTGTTGCAGGGAATCTCACCTGTTCACACAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
*
44431388 TATTTTGTTGCAGGGAATCTTTCCTGTTCA--CAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
* *
44431421 CA-TTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
*
44431455 TATTTTGGTGCAGGGAATCTCTCCTGTTCAC
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCAC
44431486 ATCATTTCTT
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
32 25 0.21
33 4 0.03
34 10 0.08
35 80 0.67
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (35 bp):
TATTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT
Found at i:44431446 original size:67 final size:67
Alignment explanation
Indices: 44431319--44431495 Score: 266
Period size: 67 Copynumber: 2.6 Consensus size: 67
44431309 ATAAATTGAA
* *
44431319 TATTTT-TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCACCTGTTCA
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCACCTGTTCA
44431383 CACAT
63 CACAT
* * *
44431388 TATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGC
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCACCTGTTCACAC
44431453 AT
66 AT
*
44431455 TATTTTGGTGCAGGGAATCTCTCCTGTTCACATCATTTCTT
1 TATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTT
44431496 TTTGGACCTG
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
67 68 0.68
68 4 0.04
69 6 0.06
70 22 0.22
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (67 bp):
TATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCACCTGTTCACAC
AT
Found at i:44438020 original size:40 final size:40
Alignment explanation
Indices: 44437922--44438184 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
44437912 TCCTCGTTCA
* * * * *
44437922 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
44437961 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
44438001 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
44438041 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44438081 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
44438121 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
44438161 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44438185 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44438193 original size:41 final size:41
Alignment explanation
Indices: 44438116--44438193 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44438106 TTAGTATCTC
* * *
44438116 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44438157 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44438194 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44441818 original size:13 final size:13
Alignment explanation
Indices: 44441783--44441820 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
44441773 GAGATATTTG
*
44441783 TAATTTGAAAGCT
1 TAATTTGAAAACT
44441796 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
44441810 TAATTTGAAAA
1 TAATTTGAAAA
44441821 TTTGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:44445528 original size:25 final size:24
Alignment explanation
Indices: 44445473--44445552 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 24
44445463 CACTAATGAA
*
44445473 CAGAGAGCACTAAAGTGCTA-AA-
1 CAGAGAGCACTAACGTGCTAGAAT
* *
44445495 CGGAGAGCACTATCGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTAG-AAT
*
44445520 CAGAGAGCACCAACGTGCTAAGAAT
1 CAGAGAGCACTAACGTGCT-AGAAT
*
44445545 TAGAGAGC
1 CAGAGAGC
44445553 GCGCTAAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 17 0.36
24 2 0.04
25 26 0.55
26 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTAGAAT
Found at i:44446464 original size:22 final size:22
Alignment explanation
Indices: 44446439--44446481 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
44446429 TCTTTCTCTA
44446439 TTTCGT-TTTTCAATTATGTTTC
1 TTTCGTCTTTTCAATT-TGTTTC
* *
44446461 TTTCTTCTTTTCTATTTGTTT
1 TTTCGTCTTTTCAATTTGTTT
44446482 GTTTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTCGTCTTTTCAATTTGTTTC
Found at i:44446497 original size:5 final size:5
Alignment explanation
Indices: 44446487--44446570 Score: 107
Period size: 5 Copynumber: 16.4 Consensus size: 5
44446477 TGTTTGTTTT
44446487 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAAA TATAA TATAAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT-AA TATAA TAT-AA
* * *
44446539 TATAA -ATATA TATTA TATTA TATTA TATAA TA
1 TATAA TATA-A TATAA TATAA TATAA TATAA TA
44446571 AAAACAAATA
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
4 3 0.04
5 58 0.79
6 12 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:44461518 original size:104 final size:104
Alignment explanation
Indices: 44461338--44461545 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
44461328 TGTGTGGGTC
44461338 ATTGTAGATCGTTCGATGAAGTCCGCGCATTTCATTCCTGTCCATATAGATTTTTCACTCAAAAG
1 ATTGTAGATCGTTCGATGAAGTCCGCGCATTTCATTCCTGTCCATATAGATTTTTCACTCAAAAG
44461403 ATTGGTAAACCTGTATGTTGCTGAGATTGTTAGATTGCA
66 ATTGGTAAACCTGTATGTTGCTGAGATTGTTAGATTGCA
44461442 ATTGTAGATCGTTCGATGAAGTCCGCGCATTTCATTCCTGTCCATATAGATTTTTCACTCAAAAG
1 ATTGTAGATCGTTCGATGAAGTCCGCGCATTTCATTCCTGTCCATATAGATTTTTCACTCAAAAG
44461507 ATTGGTAAACCTGTATGTTGCTGAGATTGTTAGATTGCA
66 ATTGGTAAACCTGTATGTTGCTGAGATTGTTAGATTGCA
44461546 CAGTGTGCTA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (104 bp):
ATTGTAGATCGTTCGATGAAGTCCGCGCATTTCATTCCTGTCCATATAGATTTTTCACTCAAAAG
ATTGGTAAACCTGTATGTTGCTGAGATTGTTAGATTGCA
Found at i:44466946 original size:28 final size:28
Alignment explanation
Indices: 44466915--44466975 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
44466905 AAGGGCCTCC
* *
44466915 CTTTTCAGAGTTCACCACATAGGTTATT
1 CTTTTCAAAGTTCACCACATAGGCTATT
** *
44466943 CTTTTCAAAGTTTGCCATATAGGCTATT
1 CTTTTCAAAGTTCACCACATAGGCTATT
44466971 CTTTT
1 CTTTT
44466976 TAGATTCCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (28 bp):
CTTTTCAAAGTTCACCACATAGGCTATT
Found at i:44471722 original size:15 final size:15
Alignment explanation
Indices: 44471704--44471732 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44471694 TAAAGATTAA
44471704 AATAATAATAAAAGT
1 AATAATAATAAAAGT
44471719 AATAATAATAAAAG
1 AATAATAATAAAAG
44471733 AAAGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAATAATAAAAGT
Found at i:44471740 original size:15 final size:15
Alignment explanation
Indices: 44471707--44471741 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44471697 AGATTAAAAT
* *
44471707 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
44471722 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
44471737 AATAA
1 AATAA
44471742 AGAGAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:44471740 original size:18 final size:18
Alignment explanation
Indices: 44471704--44471741 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
44471694 TAAAGATTAA
*
44471704 AATAATAATAAAAGTAAT
1 AATAATAAAAAAAGTAAT
44471722 AATAATAAAAGAAAG-AAT
1 AATAATAAAA-AAAGTAAT
44471740 AA
1 AA
44471742 AGAGAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
AATAATAAAAAAAGTAAT
Found at i:44480143 original size:65 final size:65
Alignment explanation
Indices: 44480052--44480209 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
44480042 CGTTACATGA
** * * * * *
44480052 GTTAATTTTAGATTGCATCTAAAATTGTCACCGCACCTGACAGATGTCTGCATGTCGCTGCACGG
1 GTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTGACAAATGTCTACATGTCGCTGCACGG
* *
44480117 GTTAATTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAAATGTCTACATGTCGCTGCATGG
1 GTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTGACAAATGTCTACATGTCGCTGCACGG
* *
44480182 GTTAATTCCAGATTGCGTTCAGAATTGT
1 GTTAATTCCAGATTGCATCCAGAATTGT
44480210 TATCGCAGCT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (65 bp):
GTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTGACAAATGTCTACATGTCGCTGCACGG
Found at i:44491004 original size:12 final size:12
Alignment explanation
Indices: 44490978--44491012 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
44490968 TTATACACAT
*
44490978 TACACTTGAAGAA
1 TACA-TTGAAAAA
44490991 TACATTGAAAAA
1 TACATTGAAAAA
44491003 TACATTGAAA
1 TACATTGAAA
44491013 TCAGATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (12 bp):
TACATTGAAAAA
Found at i:44510723 original size:12 final size:12
Alignment explanation
Indices: 44510706--44510747 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
44510696 TTCAAGAGTT
44510706 ACACGGCCTACC
1 ACACGGCCTACC
44510718 ACACGGCCTACC
1 ACACGGCCTACC
*
44510730 ACACGGCTTACC
1 ACACGGCCTACC
44510742 ACACGG
1 ACACGG
44510748 GCGTGTGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.26, C:0.45, G:0.19, T:0.10
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:44516243 original size:17 final size:17
Alignment explanation
Indices: 44516221--44516253 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44516211 CACTAACATT
*
44516221 AAAATGCAATGACAATA
1 AAAATGCAAAGACAATA
44516238 AAAATGCAAAGACAAT
1 AAAATGCAAAGACAAT
44516254 GTTCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAAAGACAATA
Found at i:44531240 original size:54 final size:54
Alignment explanation
Indices: 44531158--44531289 Score: 221
Period size: 54 Copynumber: 2.4 Consensus size: 54
44531148 AGGCACCTGT
*
44531158 ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCCTC-AG
1 ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCATCAAG
*
44531211 CATCACTCCATTTTGAACCAGTCCATGAGTTGTTTGCATCATTTGAAGCATCAAG
1 -ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCATCAAG
*
44531266 ATCACTCCATTTTGGACCAGTCCA
1 ATCACTCCATTTTGAACCAGTCCA
44531290 GGGTATCTCA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
54 72 0.97
55 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (54 bp):
ATCACTCCATTTTGAACCAGTCCATGAGTTGTTCGCATCATTTGAAGCATCAAG
Found at i:44539391 original size:41 final size:41
Alignment explanation
Indices: 44539339--44539446 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 41
44539329 AAATGGTTTT
* *
44539339 ATAAGTTGTGTATCAGCGAAGCTCCCTTTGAGAACTAATGG
1 ATAAGTTGTGTATCAGCGAAGCTCCCCTTGAGAACTAACGG
* * * *
44539380 ATAAGGTGTGTATCAGCGAAGCTCCCCTTGTGAGCTTACGG
1 ATAAGTTGTGTATCAGCGAAGCTCCCCTTGAGAACTAACGG
*
44539421 GTAAGTTGTGTATCAGCGAAGCTCCC
1 ATAAGTTGTGTATCAGCGAAGCTCCC
44539447 GTGAGCTTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (41 bp):
ATAAGTTGTGTATCAGCGAAGCTCCCCTTGAGAACTAACGG
Found at i:44539471 original size:38 final size:39
Alignment explanation
Indices: 44539339--44539478 Score: 133
Period size: 41 Copynumber: 3.5 Consensus size: 39
44539329 AAATGGTTTT
* * *
44539339 ATAAGTTGTGTATCAGCGAAGCTCCCTTTGAGAAC-TAATGG
1 ATAAGCTGTGTATCAGCGAAGCTCCCTGTGAG--CTTAGT-G
*
44539380 ATAAGGTGTGTATCAGCGAAGCTCCCCTTGTGAGCTTACG-G
1 ATAAGCTGTGTATCAGCGAAGCT-CCC-TGTGAGCTTA-GTG
* *
44539421 GTAAGTTGTGTATCAGCGAAGCTCCC-GTGAGCTTAGTG
1 ATAAGCTGTGTATCAGCGAAGCTCCCTGTGAGCTTAGTG
* *
44539459 ATAAGCTATGTATCAACGAA
1 ATAAGCTGTGTATCAGCGAA
44539479 ACATGAGCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
37 1 0.01
38 26 0.31
40 3 0.04
41 45 0.53
42 5 0.06
43 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (39 bp):
ATAAGCTGTGTATCAGCGAAGCTCCCTGTGAGCTTAGTG
Found at i:44544353 original size:17 final size:17
Alignment explanation
Indices: 44544309--44544354 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
44544299 GAAATAAAAG
*
44544309 ATTAACAAT-TTAATAA
1 ATTAAAAATATTAATAA
* *
44544325 ATTGAAAA-ATTAATCA
1 ATTAAAAATATTAATAA
44544341 ATTAAAAATATTAA
1 ATTAAAAATATTAA
44544355 AATTCTGGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (17 bp):
ATTAAAAATATTAATAA
Found at i:44544356 original size:24 final size:25
Alignment explanation
Indices: 44544303--44544356 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
44544293 TAATTAGAAA
44544303 TAAAAGATTAACAATTTAATAAATT
1 TAAAAGATTAACAATTTAATAAATT
*
44544328 GAAAA-ATTAATCAA-TTAA-AAATAT
1 TAAAAGATTAA-CAATTTAATAAAT-T
44544352 TAAAA
1 TAAAA
44544357 TTCTGGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAAGATTAACAATTTAATAAATT
Found at i:44545074 original size:28 final size:29
Alignment explanation
Indices: 44545020--44545074 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
44545010 GTTGTTTTAA
*
44545020 AATATTTACAGAAAAAGACAACTAATTTC
1 AATATTTACAGAAAAAGACAACCAATTTC
* *
44545049 AATATTTACA-AAAATGACAGCCAATT
1 AATATTTACAGAAAAAGACAACCAATT
44545075 ATTGCAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (29 bp):
AATATTTACAGAAAAAGACAACCAATTTC
Found at i:44546659 original size:20 final size:20
Alignment explanation
Indices: 44546634--44546676 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
44546624 GGGGTCACAC
44546634 GCCGTGTGGAATCACCCTAG
1 GCCGTGTGGAATCACCCTAG
44546654 GCCGTGTGGAATCACCCTAG
1 GCCGTGTGGAATCACCCTAG
44546674 GCC
1 GCC
44546677 TTGTAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.19
Consensus pattern (20 bp):
GCCGTGTGGAATCACCCTAG
Found at i:44548524 original size:95 final size:95
Alignment explanation
Indices: 44548419--44548606 Score: 376
Period size: 95 Copynumber: 2.0 Consensus size: 95
44548409 TTCAAATCCT
44548419 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
1 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
44548484 TTTTTAAAATAAATATTGAAAAATTATTCC
66 TTTTTAAAATAAATATTGAAAAATTATTCC
44548514 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
1 TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
44548579 TTTTTAAAATAAATATTGAAAAATTATT
66 TTTTTAAAATAAATATTGAAAAATTATT
44548607 TCAAGAATGA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (95 bp):
TTCTCTCTCACCATTTTTATTATTTTGCAAATTTTGTTTTAAACCCTAGCATGCAACATGCCTTG
TTTTTAAAATAAATATTGAAAAATTATTCC
Found at i:44574700 original size:22 final size:21
Alignment explanation
Indices: 44574674--44574738 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
44574664 AGCACCGTAG
44574674 ACAGAACGGCTAAAAGCCATA
1 ACAGAACGGCTAAAAGCCATA
* * *
44574695 AGCAGAAAGG-TAGTAAGCCTTGA
1 A-CAGAACGGCTA-AAAGCCAT-A
*
44574718 ACAGAACGGCTACAAGCCATA
1 ACAGAACGGCTAAAAGCCATA
44574739 CACTTCCTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 4 0.12
22 26 0.76
23 4 0.12
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (21 bp):
ACAGAACGGCTAAAAGCCATA
Found at i:44577341 original size:13 final size:13
Alignment explanation
Indices: 44577323--44577347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44577313 TAAAAACTAA
44577323 AAATTAACTAAGT
1 AAATTAACTAAGT
44577336 AAATTAACTAAG
1 AAATTAACTAAG
44577348 AAAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAATTAACTAAGT
Found at i:44584728 original size:43 final size:43
Alignment explanation
Indices: 44584665--44584822 Score: 226
Period size: 43 Copynumber: 3.7 Consensus size: 43
44584655 ATGTTTCAAT
* * *
44584665 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTAGC
1 ATCGATTTGAGATTTCATGTAAGACCATAGCTGGGCTATTGGC
** *
44584708 ATCGATTTGAGATTTTGTGTAAGACAATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCATGTAAGACCATAGCTGGGCTATTGGC
* *
44584751 ATCGATTTGAGATTTCATATAAGACCATAACTGGGCTATTGGC
1 ATCGATTTGAGATTTCATGTAAGACCATAGCTGGGCTATTGGC
*
44584794 ATCGATATGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGATTT-CATGTAAGACCAT
44584823 GTCTGAGACA
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
43 91 0.88
44 12 0.12
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (43 bp):
ATCGATTTGAGATTTCATGTAAGACCATAGCTGGGCTATTGGC
Found at i:44596570 original size:100 final size:99
Alignment explanation
Indices: 44596397--44596633 Score: 296
Period size: 100 Copynumber: 2.4 Consensus size: 99
44596387 ACATGACAAA
* * * * * *
44596397 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTACTGCCAATGCCATATCCTAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTACTGCCAACGACATATCCTAGAGAT
** *
44596462 GGTCTTACATGGGAGTTCTC-ACATCGGTGCCCAT
66 GGTCTTACATGGGACCTCTCGAC-TCGGTGCCAAT
** * * *
44596496 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGACATGTCCTAGAGA
1 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCT-ACTGCCAACGACATATCCTAGAGA
*
44596561 TGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAT
65 TGGTCTTACATGGGACCTCTCGACTCGGTGCCAAT
* *
44596596 GACATGTCCCAGGCATGGTCTTACATGGGATCTCTCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCAT
44596634 GATCTCAAGG
Statistics
Matches: 116, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
99 34 0.29
100 81 0.70
101 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTACTGCCAACGACATATCCTAGAGAT
GGTCTTACATGGGACCTCTCGACTCGGTGCCAAT
Found at i:44596684 original size:56 final size:53
Alignment explanation
Indices: 44596399--44596686 Score: 237
Period size: 50 Copynumber: 5.6 Consensus size: 53
44596389 ATGACAAAGC
* * * * *
44596399 CATGTCCCAGACATGGTCTTACATGGGATGT-T-TCATGT-A-CTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGATCTCTCTGATCTCAGGTGCCAATGA
* * * * *
44596448 CATATCCTAGATATGGTCTTACATGGGAGT-TCTC--A-CATC-GGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACATGGGA-TCTCTCTGATC-TCAGGTGCCAATGA
** * *
44596498 CATGTCCCAGACATGGTCTTACGGGGGA-C-CTCTCATCTCA-GTGCCAACGA
1 CATGTCCCAGACATGGTCTTACATGGGATCTCTCTGATCTCAGGTGCCAATGA
* * *
44596548 CATGTCCTAGAGATGGTCTTACATGGGACCTCTC-G-TCTC-GGTGCCAATGA
1 CATGTCCCAGACATGGTCTTACATGGGATCTCTCTGATCTCAGGTGCCAATGA
* * *
44596598 CATGTCCCAGGCATGGTCTTACATGGGATCTCTCATGATCTCAAGGATGCAAATGC
1 CATGTCCCAGACATGGTCTTACATGGGATCTCTC-TGATCTC-AGG-TGCCAATGA
*
44596654 CATGTCCCTGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGATCTCT
44596687 TTACCCAAAT
Statistics
Matches: 191, Mismatches: 28, Indels: 33
0.76 0.11 0.13
Matches are distributed among these distances:
48 3 0.02
49 28 0.15
50 110 0.58
51 2 0.01
52 4 0.02
53 4 0.02
55 2 0.01
56 38 0.20
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (53 bp):
CATGTCCCAGACATGGTCTTACATGGGATCTCTCTGATCTCAGGTGCCAATGA
Found at i:44599538 original size:23 final size:23
Alignment explanation
Indices: 44599509--44599554 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44599499 GTGGTAAGAA
44599509 AATTTTTCTCCTAAATTTCAATT
1 AATTTTTCTCCTAAATTTCAATT
44599532 AATTTTTCTCCTAAATTTCAATT
1 AATTTTTCTCCTAAATTTCAATT
44599555 TTATTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTTCTCCTAAATTTCAATT
Found at i:44603930 original size:5 final size:5
Alignment explanation
Indices: 44603920--44603944 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44603910 GCATTGGAAC
44603920 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
44603945 CTCAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:44611634 original size:26 final size:26
Alignment explanation
Indices: 44611581--44611634 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
44611571 ATGACCGTAA
* *
44611581 TGCCCCTAGAGGGTAAATGGCTGTTT
1 TGCCCCTAGAGGGTAAATGACTGATT
* * *
44611607 TGCCCCTCGTGGGTAAATGATTGATT
1 TGCCCCTAGAGGGTAAATGACTGATT
44611633 TG
1 TG
44611635 TGCTATGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (26 bp):
TGCCCCTAGAGGGTAAATGACTGATT
Found at i:44615388 original size:24 final size:25
Alignment explanation
Indices: 44615335--44615413 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
44615325 TCAGCTCAAG
* *
44615335 AGAGCTTACCGATATT-CAGCTTGCA
1 AGAGCTTACCGAT-TTACAGCTCGTA
*
44615360 TGAGCTTACCG-TTTACAGCTCGTA
1 AGAGCTTACCGATTTACAGCTCGTA
* * *
44615384 AGAGCATACCGATTCAGAGCTCGTA
1 AGAGCTTACCGATTTACAGCTCGTA
*
44615409 TGAGC
1 AGAGC
44615414 ATACATGTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.05
24 17 0.39
25 25 0.57
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AGAGCTTACCGATTTACAGCTCGTA
Found at i:44615413 original size:25 final size:24
Alignment explanation
Indices: 44615359--44615417 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
44615349 TTCAGCTTGC
* *
44615359 ATGAGCTTACCGTTTACAGCTCGT
1 ATGAGCATACCGTTCACAGCTCGT
* *
44615383 AAGAGCATACCGATTCAGAGCTCGT
1 ATGAGCATACCG-TTCACAGCTCGT
44615408 ATGAGCATAC
1 ATGAGCATAC
44615418 ATGTACAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
ATGAGCATACCGTTCACAGCTCGT
Found at i:44624747 original size:22 final size:22
Alignment explanation
Indices: 44624719--44624840 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
44624709 TTCCACATCC
44624719 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
44624741 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
44624765 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
44624788 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
44624812 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
44624835 ATCACA
1 ATCACA
44624841 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:44624754 original size:47 final size:47
Alignment explanation
Indices: 44624712--44625227 Score: 725
Period size: 47 Copynumber: 11.1 Consensus size: 47
44624702 TATACACTTC
* *
44624712 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACA-TGTT
* * *
44624759 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
*
44624806 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
44624853 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACT-CATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-TACATGTT
* * *
44624900 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
*
44624947 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
44624994 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACT-CATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-TACATGTT
*
44625041 CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-CCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
44625087 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACT-CATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-TACATGTT
* * * *
44625134 CACATTCATCACATTGGCC-TT----ATCA-CATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACA-TGTT
* * *
44625175 CACATTCATCACATTGGCCATTAGGACTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACA-TGTT
44625222 CACATT
1 CACATT
44625228 TATTCAAATA
Statistics
Matches: 432, Mismatches: 22, Indels: 30
0.89 0.05 0.06
Matches are distributed among these distances:
40 1 0.00
41 29 0.07
42 5 0.01
46 51 0.12
47 346 0.80
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
Found at i:44625075 original size:22 final size:22
Alignment explanation
Indices: 44625048--44625121 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
44625038 GTTCACATTC
44625048 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
44625070 ATCACACAT-ACCATGTTC-ACATT
1 ATCACA-TTGGCCA--TTCGGCCTT
44625093 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
44625116 ATCACA
1 ATCACA
44625122 CATACTCATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
22 18 0.47
23 8 0.21
24 12 0.32
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:44626743 original size:56 final size:56
Alignment explanation
Indices: 44626676--44626795 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
44626666 TATTAGTTTA
44626676 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
44626732 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
44626788 TTGCCCAT
1 TTGCCCAT
44626796 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:44627317 original size:36 final size:36
Alignment explanation
Indices: 44627271--44627344 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
44627261 TCACTATTAG
44627271 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
1 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
44627307 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
1 TAATGTCGTGACAATTACATAATAATCCAAGAAACA
44627343 TA
1 TA
44627345 CTCATAATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (36 bp):
TAATGTCGTGACAATTACATAATAATCCAAGAAACA
Found at i:44627938 original size:51 final size:51
Alignment explanation
Indices: 44627876--44628011 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
44627866 TGGAAACATG
*
44627876 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * **
44627927 ATCTTATAAGATATTATTTTATAAGATTATATATCTTATCTAAGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
44627978 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
44628012 TTGATGGTAG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:44631713 original size:51 final size:51
Alignment explanation
Indices: 44631651--44631786 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
44631641 TGGAAACATG
*
44631651 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * **
44631702 ATCTTATAAGATATTATTTTATAAGATTATATATCTTATCTAAGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
44631753 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
44631787 TTGATGGTAG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:44638551 original size:19 final size:19
Alignment explanation
Indices: 44638529--44638568 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
44638519 ATGTCGTGAC
44638529 AATTACATAATAATCCAAG
1 AATTACATAATAATCCAAG
44638548 AATTACATAATAATCCAAG
1 AATTACATAATAATCCAAG
44638567 AA
1 AA
44638569 ACATACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (19 bp):
AATTACATAATAATCCAAG
Found at i:44641482 original size:23 final size:22
Alignment explanation
Indices: 44641430--44641482 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
44641420 TCCACGTCTT
*
44641430 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
44641452 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
44641475 TTTCTTTT
1 TTTCTTTT
44641483 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:44646041 original size:50 final size:50
Alignment explanation
Indices: 44645923--44646065 Score: 180
Period size: 50 Copynumber: 2.9 Consensus size: 50
44645913 TATTGAGGTA
* *
44645923 ATGAG-ACGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAC-TCTCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
** * ** *
44645973 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATTGGCACCGAT
1 ATGAGAACTCTCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
* *
44646023 ATGAGAACTCTCATGTAAGACCATATTTGGGATATGGCATTGG
1 ATGAGAACTCTCATGTAAGACCATGTTTGGGACATGGCATTGG
44646066 TAGTACAGGA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
ATGAGAACTCTCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
Found at i:44653638 original size:56 final size:51
Alignment explanation
Indices: 44653577--44653756 Score: 175
Period size: 50 Copynumber: 3.5 Consensus size: 51
44653567 CATGTCCTTA
** *
44653577 CATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCATGTAAGAC
1 CATGTCTGGGACATGGCATTGGCA--ACCGA-G--ATGAGAGGTCCCACGTAAGAC
*
44653633 CATGTCTGGGACATGGCATTGGC-ACCGAGATGAGAGGTCCCCCGTAAGAC
1 CATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGTCCCACGTAAGAC
* * * ** * *
44653683 CATGTCTGGGACATGACATGGGC-ACCGATATGAGAACTCCCATGTAATAC
1 CATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGTCCCACGTAAGAC
* * *
44653733 CATATCTGGGATATGGAATTGGCA
1 CATGTCTGGGACATGGCATTGGCA
44653757 GTACAGGAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 79 0.75
52 1 0.01
53 3 0.03
56 23 0.22
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (51 bp):
CATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGTCCCACGTAAGAC
Found at i:44653666 original size:50 final size:50
Alignment explanation
Indices: 44653612--44653805 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
44653602 TATTGAGGTT
*
44653612 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * *
44653662 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * * *
44653712 ATGAGAACTCCCATGTAATACCATATCTGGGATATGGAATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** * *
44653761 AGGAAACATCCCATGTAAGACCATGTCTGGTACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
44653806 TGTTATTATC
Statistics
Matches: 117, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.31
50 80 0.68
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:44654032 original size:20 final size:20
Alignment explanation
Indices: 44654007--44654055 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
44653997 TGAGTTATTT
44654007 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
44654027 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
44654047 AA-TAAGCAA
1 AAGTAAGCAA
44654056 TGGCCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.57, C:0.06, G:0.22, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:44657935 original size:18 final size:19
Alignment explanation
Indices: 44657909--44657945 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44657899 AATTTCGGAA
44657909 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
44657927 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
44657946 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:44658592 original size:18 final size:18
Alignment explanation
Indices: 44658569--44658616 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
44658559 TTAAGTGCAC
44658569 ATTAATTATTTTGTAAAA
1 ATTAATTATTTTGTAAAA
44658587 ATTAATTATTTTGTAAAA
1 ATTAATTATTTTGTAAAA
44658605 ATTAATTATTTT
1 ATTAATTATTTT
44658617 TTCGACAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
ATTAATTATTTTGTAAAA
Found at i:44659338 original size:103 final size:103
Alignment explanation
Indices: 44659221--44659426 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
44659211 TTTCATTTGC
44659221 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
1 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
*
44659286 ATCATCAAATCTACAAGTTAGTGCATTTGTACATGGTT
66 ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
* *
44659324 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCATAATTCCTATACAAC
1 ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
44659389 ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
66 ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
44659427 CAAATGAATT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (103 bp):
ATAATGTAAATTGCATAATTATAACACCAACTAAAACCATAAGCTTCGCACAATGCCTATACAAC
ATCATCAAATCCACAAGTTAGTGCATTTGTACATGGTT
Found at i:44662912 original size:13 final size:13
Alignment explanation
Indices: 44662894--44662925 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
44662884 CTGCAAAGGT
44662894 CACACGGCTGAGA
1 CACACGGCTGAGA
44662907 CACACGGCTGAGA
1 CACACGGCTGAGA
44662920 CACACG
1 CACACG
44662926 CTAGTGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.34, G:0.28, T:0.06
Consensus pattern (13 bp):
CACACGGCTGAGA
Found at i:44664645 original size:46 final size:46
Alignment explanation
Indices: 44664536--44664697 Score: 181
Period size: 45 Copynumber: 3.6 Consensus size: 46
44664526 CGAAGTGTGG
* * *
44664536 CATAGTGTCTTTCAACCATGGTCTTATTTA-TTCTCGTCT-TGATGC
1 CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTGT-TGTGATGC
* *
44664581 CATAATGTCTTTCAACCATGGTCTTATATATTTTTTGTTGTGTTGC
1 CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTGTTGTGATGC
*
44664627 CATAGTGTCTTTCAACCATGGTC-T-TAT-TTCTTTGATTCGTGATGC
1 CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTG-TT-GTGATGC
* * *
44664672 CATAGCGTCTTTCAGCTATGGTCTTA
1 CATAGTGTCTTTCAACCATGGTCTTA
44664698 CTCGATAGAA
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
43 6 0.06
44 5 0.05
45 56 0.56
46 33 0.33
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.45
Consensus pattern (46 bp):
CATAGTGTCTTTCAACCATGGTCTTATATATTTTTTGTTGTGATGC
Found at i:44664720 original size:45 final size:45
Alignment explanation
Indices: 44664666--44664789 Score: 205
Period size: 45 Copynumber: 2.8 Consensus size: 45
44664656 CTTTGATTCG
*
44664666 TGATGCCATAGCGTCTTTCAG-CTATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCA
*
44664711 TGATTCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
*
44664756 TGATGCCATAACATCTTTCAGTCATGGTCTTACT
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACT
44664790 TGTTTCTGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
45 73 0.99
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
Found at i:44664820 original size:45 final size:46
Alignment explanation
Indices: 44664779--44664878 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
44664769 TCTTTCAGTC
* * * *
44664779 ATGGTCTTACTTGTT-TCTGGTATGGTGTCATAGTGTATTTCAACT
1 ATGGTCTTACTTCTTCTCTGGTATAGTGCCATAATGTATTTCAACT
* *
44664824 ATGGTCTTATTTCTTCTCTGGTATAGTGCCATAATGTCTTTCAACT
1 ATGGTCTTACTTCTTCTCTGGTATAGTGCCATAATGTATTTCAACT
44664870 ATGGTCTTA
1 ATGGTCTTA
44664879 ATCATTTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 13 0.27
46 35 0.73
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (46 bp):
ATGGTCTTACTTCTTCTCTGGTATAGTGCCATAATGTATTTCAACT
Found at i:44668361 original size:35 final size:35
Alignment explanation
Indices: 44668313--44668434 Score: 145
Period size: 35 Copynumber: 3.5 Consensus size: 35
44668303 CCTTGGACAT
* **
44668313 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGTTGG
1 GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGG
* *
44668348 GTCTATCCGAACCTTTTAAAGGTTACCTTAGACGG
1 GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGG
* ** *
44668383 GTCTATCCCAGCCTTTTTAAAATTTCCTTAGACGG
1 GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGG
* *
44668418 GTCTACCCCAACATTTT
1 GTCTATCCCAACCTTTT
44668435 CTAAAAGTCG
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 73 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (35 bp):
GTCTATCCCAACCTTTTTAAGGTTACCTTAGACGG
Found at i:44670641 original size:17 final size:17
Alignment explanation
Indices: 44670621--44670653 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44670611 TTTATTTAAC
*
44670621 TAAATTAATTTCTCAAT
1 TAAATTAACTTCTCAAT
44670638 TAAATTAACTTCTCAA
1 TAAATTAACTTCTCAA
44670654 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTAACTTCTCAAT
Found at i:44678019 original size:28 final size:26
Alignment explanation
Indices: 44677966--44678031 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
44677956 ATTTACATTT
**
44677966 ATATAATTTATTTTATAAAAATAAAA
1 ATATAATTTATAATATAAAAATAAAA
*
44677992 ATATAATATTATAATATAAATATTAAAA
1 ATATAAT-TTATAATATAAA-AATAAAA
*
44678020 ATATAAGTTATA
1 ATATAATTTATA
44678032 TATTCAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.21
27 15 0.44
28 12 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAATTTATAATATAAAAATAAAA
Found at i:44678047 original size:28 final size:28
Alignment explanation
Indices: 44677966--44678025 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
44677956 ATTTACATTT
** *
44677966 ATATAAT-TTATTTTATAAA-AATAAAA
1 ATATAATATTATAATATAAATATTAAAA
44677992 ATATAATATTATAATATAAATATTAAAA
1 ATATAATATTATAATATAAATATTAAAA
44678020 ATATAA
1 ATATAA
44678026 GTTATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.24
27 10 0.34
28 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATAATATTATAATATAAATATTAAAA
Found at i:44681412 original size:43 final size:43
Alignment explanation
Indices: 44681283--44681411 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 43
44681273 AGGGTAAATC
* * *
44681283 CAACAACCTATGTTTATC-TCTTCCTCGTTTTAAATTCTTTTTT
1 CAACAACCTAAGATTATCTTC-TCCTCTTTTTAAATTCTTTTTT
* * *
44681326 TAACAACCAAAAATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
44681369 CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATTGCTTTTT
1 CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATT-CTTTTT
44681412 CTAGGATAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
43 67 0.89
44 8 0.11
ACGTcount: A:0.26, C:0.22, G:0.03, T:0.49
Consensus pattern (43 bp):
CAACAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:44686444 original size:17 final size:17
Alignment explanation
Indices: 44686404--44686452 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
44686394 AGTGAATGGA
* *
44686404 AAAGTGAATTTGATATTT
1 AAAGTGAATTTGA-AATG
44686422 AAAGTGAATTTGAAATG
1 AAAGTGAATTTGAAATG
44686439 AAAGTGAATTTGAA
1 AAAGTGAATTTGAA
44686453 TTGTGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (17 bp):
AAAGTGAATTTGAAATG
Found at i:44689025 original size:42 final size:43
Alignment explanation
Indices: 44688924--44689052 Score: 172
Period size: 42 Copynumber: 3.0 Consensus size: 43
44688914 AGGGTAAATC
* * *
44688924 CAACAACCC-ATGTTGATCTTTTCCTCGTTTTAAATTCTTTTTT
1 CAACAACCCAATATT-ATCTTCTCCTCTTTTTAAATTCTTTTTT
* *
44688967 CAACAACCAAAGATTATCTTCTCCTCTTTTTAAATT-TTTTTT
1 CAACAACCCAATATTATCTTCTCCTCTTTTTAAATTCTTTTTT
* *
44689009 CAACAACCCAATATTATATTCTCCTCTTTTTAAATTCTCTTTT
1 CAACAACCCAATATTATCTTCTCCTCTTTTTAAATTCTTTTTT
44689052 C
1 C
44689053 TAGGATAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 39 0.52
43 33 0.44
44 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (43 bp):
CAACAACCCAATATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:44692026 original size:17 final size:18
Alignment explanation
Indices: 44691998--44692032 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44691988 TTTTCCCCAA
*
44691998 AAATATAATTTATTCTAT
1 AAATATAATTTATGCTAT
44692016 AAATA-AATTTATGCTAT
1 AAATATAATTTATGCTAT
44692033 TTTCTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATATAATTTATGCTAT
Found at i:44693164 original size:17 final size:17
Alignment explanation
Indices: 44693142--44693174 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44693132 GTGGAATTGT
44693142 GTATGCATGTAATATGG
1 GTATGCATGTAATATGG
44693159 GTATGCATGTAATATG
1 GTATGCATGTAATATG
44693175 ATTAGCGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (17 bp):
GTATGCATGTAATATGG
Found at i:44700359 original size:20 final size:20
Alignment explanation
Indices: 44700334--44700376 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44700324 CTTTCCCTCC
*
44700334 TTCTTCCTTTTGTTTATTTT
1 TTCTTCCTTTTCTTTATTTT
* *
44700354 TTCTTCTTTTTCTTTCTTTT
1 TTCTTCCTTTTCTTTATTTT
44700374 TTC
1 TTC
44700377 CTTTTTAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (20 bp):
TTCTTCCTTTTCTTTATTTT
Found at i:44706048 original size:30 final size:30
Alignment explanation
Indices: 44706012--44706078 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
44706002 TCTACACAGC
44706012 CAGACACACAGGCATGTGACTTGGTAGTGT
1 CAGACACACAGGCATGTGACTTGGTAGTGT
** *
44706042 CAGACACACAGGTGTGTGACTTGGTGGTGT
1 CAGACACACAGGCATGTGACTTGGTAGTGT
*
44706072 GAGACAC
1 CAGACAC
44706079 GCGGCTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (30 bp):
CAGACACACAGGCATGTGACTTGGTAGTGT
Found at i:44710290 original size:19 final size:19
Alignment explanation
Indices: 44710262--44710314 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
44710252 GCGCTAACGC
*
44710262 GCCAGGATGCACTTTGTGT
1 GCCAGTATGCACTTTGTGT
44710281 GCCAGTATGCACTTTGTGT
1 GCCAGTATGCACTTTGTGT
44710300 GCCAGTATGCACTTT
1 GCCAGTATGCACTTT
44710315 ACATGCTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (19 bp):
GCCAGTATGCACTTTGTGT
Found at i:44720996 original size:8 final size:8
Alignment explanation
Indices: 44720983--44721022 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
44720973 TAGACATGGA
44720983 TTTAATTT
1 TTTAATTT
44720991 TTTAATTT
1 TTTAATTT
44720999 TTTAATTT
1 TTTAATTT
44721007 TTTAATTT
1 TTTAATTT
*
44721015 TTTTATTT
1 TTTAATTT
44721023 AGGCCCTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTAATTT
Found at i:44722300 original size:16 final size:15
Alignment explanation
Indices: 44722279--44722321 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
44722269 AATAACTTTT
44722279 AAAAGTTACCTAACAA
1 AAAAGTT-CCTAACAA
* *
44722295 AAAAGTTTCTAATAA
1 AAAAGTTCCTAACAA
*
44722310 AAAAGTTTCTAA
1 AAAAGTTCCTAA
44722322 TAGTCGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (15 bp):
AAAAGTTCCTAACAA
Found at i:44722322 original size:15 final size:15
Alignment explanation
Indices: 44722288--44722323 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
44722278 TAAAAGTTAC
*
44722288 CTAACAAAAAAGTTT
1 CTAATAAAAAAGTTT
44722303 CTAATAAAAAAGTTT
1 CTAATAAAAAAGTTT
44722318 CTAATA
1 CTAATA
44722324 GTCGAATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (15 bp):
CTAATAAAAAAGTTT
Found at i:44724206 original size:18 final size:18
Alignment explanation
Indices: 44724185--44724219 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44724175 AATAAATACT
*
44724185 ATTTACTAAATTAATTTA
1 ATTTAATAAATTAATTTA
*
44724203 ATTTAATTAATTAATTT
1 ATTTAATAAATTAATTT
44724220 TCCAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAATAAATTAATTTA
Found at i:44727455 original size:47 final size:47
Alignment explanation
Indices: 44727402--44728200 Score: 1274
Period size: 47 Copynumber: 16.7 Consensus size: 47
44727392 TTAGGATTCT
44727402 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
44727449 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCAAATAGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
44727498 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44727545 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
44727594 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCG
* * *
44727645 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44727692 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
44727741 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44727788 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
44727837 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
44727884 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
44727931 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
44727978 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44728025 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44728072 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
44728119 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
44728166 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44728201 TCCCGAAGGG
Statistics
Matches: 707, Mismatches: 35, Indels: 20
0.93 0.05 0.03
Matches are distributed among these distances:
47 480 0.68
49 178 0.25
51 49 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:44727937 original size:94 final size:94
Alignment explanation
Indices: 44727402--44728200 Score: 1274
Period size: 96 Copynumber: 8.4 Consensus size: 94
44727392 TTAGGATTCT
44727402 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
44727467 TGTATATATATGTGATAAGGCCAAATAGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
* *
44727498 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
44727563 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
44727594 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * *
44727659 AAAGTGTGTATATGTGATAAGGCCGAATGGCCA
62 AAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
44727692 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44727757 AGTGTATATATGTGATAAGGCCGAATGGCCA
64 AGTGTATATATGTGATAAGGCCTAATGGCCG
44727788 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44727853 AGTGTATATATGTGATAAGGCCTAATAGCCG
64 AGTGTATATATGTGATAAGGCCTAATGGCCG
* *
44727884 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
44727949 TGTATATATGTGATAAGGCCTAATAGCCG
66 TGTATATATGTGATAAGGCCTAATGGCCG
* *
44727978 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
44728043 TGTATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATGTGATAAGGCCTAATGGCCG
44728072 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * *
44728137 TGTATATATGTGACAGGGCCGAGTGGCCA
66 TGTATATATGTGATAAGGCCTAATGGCCG
* * *
44728166 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44728201 TCCCGAAGGG
Statistics
Matches: 668, Mismatches: 31, Indels: 10
0.94 0.04 0.01
Matches are distributed among these distances:
94 282 0.42
96 297 0.44
98 44 0.07
100 45 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:44728369 original size:37 final size:37
Alignment explanation
Indices: 44728319--44728419 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
44728309 CCGAGCTCTA
*
44728319 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCAGGT
44728356 AAGACCCGATGACTACGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCAGGT
* *
44728393 AAGACCTGATGACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
44728420 TCGTCTGAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCAGGT
Found at i:44738799 original size:289 final size:289
Alignment explanation
Indices: 44738308--44738842 Score: 910
Period size: 289 Copynumber: 1.9 Consensus size: 289
44738298 TTAAAACGCG
* * * * *
44738308 TGTTTCAATGGTTACAAATTAATTTTAAGGGACTAGATATCATTTAAAACTCATAGTAAGTCGAA
1 TGTTTCAATGGCTACAAATTAAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAAGTCGAA
* * * *
44738373 TGGTTACCTTCGATGGAAGAAAAATGAGCTTTGATGCAAATCTAGAAAAAGCCACGTTTGGAGAA
66 TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCAGAAAAAACCACGTTTGGAGAA
* *
44738438 GATGATGTAGATGATGAAGTTTTTAGTTGATTTTCTTGGTTTTTATAGAGGTTTATAACTTAAGA
131 GATGATGTAGATGATGAAGTTTTTAGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAGA
*
44738503 GATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTTAAAATTGATTGAAATAGCAATTAAACGA
196 GATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAATAGCAATTAAACGA
44738568 CCCAATTTTTAGATTTTAATTTAAAGATT
261 CCCAATTTTTAGATTTTAATTTAAAGATT
* * *
44738597 TGTTTCAATGGCTACAAATTTAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAATTTGAA
1 TGTTTCAATGGCTACAAATTAAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAAGTCGAA
44738662 TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCA-AAAAAACTCACGTTTGGAGA
66 TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCAGAAAAAAC-CACGTTTGGAGA
*
44738726 AGATGATGTAGATGATGAAGTTTTTGGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAG
130 AGATGATGTAGATGATGAAGTTTTTAGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAG
44738791 AGATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAA
195 AGATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAA
44738843 CAGTAAGAGA
Statistics
Matches: 229, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
288 6 0.03
289 223 0.97
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (289 bp):
TGTTTCAATGGCTACAAATTAAGTTTAAGAGACTAGACATCATTTAAAACTCATAGAAAGTCGAA
TGGTTACCTTCAATGGAAGAAAAATAAGCTTTGATGCAAATCCAGAAAAAACCACGTTTGGAGAA
GATGATGTAGATGATGAAGTTTTTAGGTGATTTTCTTGGTTTTTATAAAGGTTTATAACTTAAGA
GATGATAGAAATCAAAAGGAATTAGGATTTGGAGTTCAAAATTGATTGAAATAGCAATTAAACGA
CCCAATTTTTAGATTTTAATTTAAAGATT
Found at i:44741074 original size:16 final size:16
Alignment explanation
Indices: 44741055--44741089 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44741045 CATATAATAA
*
44741055 ATTATATTAATAATTT
1 ATTATATTAATAAGTT
*
44741071 ATTATTTTAATAAGTT
1 ATTATATTAATAAGTT
44741087 ATT
1 ATT
44741090 TAATATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTATATTAATAAGTT
Found at i:44741197 original size:15 final size:15
Alignment explanation
Indices: 44741177--44741233 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
44741167 ATTCAATATT
44741177 AATATTTTAATAATA
1 AATATTTTAATAATA
*
44741192 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
44741211 AATATATTAATAATA
1 AATATTTTAATAATA
*
44741226 AATGTTTT
1 AATATTTT
44741234 GTAGTAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44743068 original size:610 final size:610
Alignment explanation
Indices: 44741909--44743128 Score: 2064
Period size: 610 Copynumber: 2.0 Consensus size: 610
44741899 TGGCAAACTC
*
44741909 TAGTATATTTAAATAAGGTTGTTGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
1 TAGTATATTTAAATAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
*
44741974 TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTCTTCTCCCTATAAATAGATGACACCGG
66 TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTATTCTCCCTATAAATAGATGACACCGG
* *
44742039 TAGAACTAAATACACAATTTTAAGATATTGTTATTCTGCTCGAAAATAGTGAGAATTTATTTTCT
131 TAAAACTAAATACACAATTTTAAGATATTGTTATTCTGCCCGAAAATAGTGAGAATTTATTTTCT
* * *
44742104 AAGTATAAATTATGATTTCCGTAATAACAATTCTATTGGTTTCTATTAAAGAGAATTTATTTTTC
196 AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAATTTATTTTTC
* * * *
44742169 CTATTGAAAGTAAAGTAAATTATTTCTGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
261 CTACTAAAAGTAAAGTAAATAATTTATGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
* *
44742234 CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAAACCGTTTGGTTAAAAGCCAAGAATGACAAGG
326 CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAAACAGTTTAGTTAAAAGCCAAGAATGACAAGG
* *
44742299 ATCCGTTTAGTCAAAAACTCATTTGCAATTTCGAGAAATGTTTACTGCTATAAATATCACAAACC
391 ATCCGTCTAGTCAAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAACC
* *
44742364 AACTTAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTTGAACCAGATTTTTTC
456 AACTCAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTTC
44742429 CAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGTC
521 CAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGTC
44742494 TTGTTTTGGGACCTTCTCCCACTGA
586 TTGTTTTGGGACCTTCTCCCACTGA
* *
44742519 TAGTATATTTAACTAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTGTTTTTCTAT
1 TAGTATATTTAAATAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
* * * *
44742584 TTAAATAGGTTTCTACTAACTCAACTAGGGTTTTACTTATTCTCCCTATAAATAGATGACACCGG
66 TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTATTCTCCCTATAAATAGATGACACCGG
*
44742649 TAAAACTAAATACACAATTTTGAGATATTGTTATTCTGCCCGAAAATAGTGAGAATTTATTTTCT
131 TAAAACTAAATACACAATTTTAAGATATTGTTATTCTGCCCGAAAATAGTGAGAATTTATTTTCT
*
44742714 AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAGTTTATTTTTC
196 AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAATTTATTTTTC
* *
44742779 CTACTAAAAGTAAAGTAAATAATTTATGCTTCTGTATTTGATTTGAATTCGTTCGATCCCACACT
261 CTACTAAAAGTAAAGTAAATAATTTATGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
* **
44742844 CGAAGAGGTTCATGGTAGGAGAGTAGTGGAG-AAGACAGTTTAGTTAAAAGCCAAGAATGACAAG
326 CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAA-ACAGTTTAGTTAAAAGCCAAGAATGACAAG
* ** * * *
44742908 GATTCGTCTAGTTGAAAACTTATTTGCAATTTTGAGAAAAGTTTATTGCTATAAATATCACAAAC
390 GATCCGTCTAGTCAAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAAC
* *
44742973 CAACTCAGTTTTCAAAATTTTAATTTTTCGCTGTGCAAGAAAATCATTTTCGAACCAGATTTTTT
455 CAACTCAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTT
*
44743038 CCAACAAAATTGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGT
520 CCAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGT
*
44743103 CTTGTTTTGGGACCTTCTCCGACTGA
585 CTTGTTTTGGGACCTTCTCCCACTGA
44743129 ATATTTTAAA
Statistics
Matches: 569, Mismatches: 40, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
609 2 0.00
610 567 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (610 bp):
TAGTATATTTAAATAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
TTAAATAGATTTCTACTAACTCAACAAAGGTTTCACTTATTCTCCCTATAAATAGATGACACCGG
TAAAACTAAATACACAATTTTAAGATATTGTTATTCTGCCCGAAAATAGTGAGAATTTATTTTCT
AAGTATAAATTAAGATTTCCGGAATAACAATTCTATTGGTTTCTATTAAAAAGAATTTATTTTTC
CTACTAAAAGTAAAGTAAATAATTTATGCCTCTGTATTTGATTCGAATTCGTTCGATCCCACACT
CGAAGAGGTTCATGGTAGGAGAATAACGGAGCAAACAGTTTAGTTAAAAGCCAAGAATGACAAGG
ATCCGTCTAGTCAAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAACC
AACTCAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTTC
CAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAGGTC
TTGTTTTGGGACCTTCTCCCACTGA
Found at i:44746477 original size:26 final size:26
Alignment explanation
Indices: 44746447--44746517 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
44746437 GGTCTTTGAA
44746447 ACAAGTAGATGCTGCCCAATTTTGGC
1 ACAAGTAGATGCTGCCCAATTTTGGC
*
44746473 ACAAGTAGATGTTGCCCAATTTTGGC
1 ACAAGTAGATGCTGCCCAATTTTGGC
*
44746499 ATAAGTAGATGCTGCCCAA
1 ACAAGTAGATGCTGCCCAA
44746518 AAATATTAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
ACAAGTAGATGCTGCCCAATTTTGGC
Found at i:44758319 original size:19 final size:18
Alignment explanation
Indices: 44758272--44758318 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
44758262 ATTTTAAAAT
44758272 TTTTATTTTTAACT-TTAA
1 TTTTATTTTTAA-TGTTAA
44758290 TTTCTATTTTTAATGTTAA
1 TTT-TATTTTTAATGTTAA
44758309 TTTTATTTTT
1 TTTTATTTTT
44758319 TTATGTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTAATGTTAA
Found at i:44764310 original size:38 final size:37
Alignment explanation
Indices: 44764257--44764350 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 37
44764247 TGAGATTTGA
* *
44764257 TTGCATGTTAAACATGGCCTACATGACATAATCCGAT
1 TTGCATGTAAAACATGCCCTACATGACATAATCCGAT
* * *
44764294 TTGCATGCTAAAACATGCCCTACATGATATTATTCGAT
1 TTGCATG-TAAAACATGCCCTACATGACATAATCCGAT
**
44764332 TTGCATGTTCAACATGCCC
1 TTGCATGTAAAACATGCCC
44764351 AATGTGACAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
37 17 0.35
38 32 0.65
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (37 bp):
TTGCATGTAAAACATGCCCTACATGACATAATCCGAT
Found at i:44776715 original size:2 final size:2
Alignment explanation
Indices: 44776710--44776744 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
44776700 CCCCCCCCCC
*
44776710 CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
44776745 AGACAGACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:44780373 original size:108 final size:105
Alignment explanation
Indices: 44780122--44780426 Score: 398
Period size: 108 Copynumber: 2.9 Consensus size: 105
44780112 AAGTTAAGAA
* * *
44780122 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCTAGCACGTTAGGGCAC-TTTCTCTCAAA
1 GATATTTGGCTATTTGGTCAAACGAGAAATTGAAACCCAGCACGTTAGGGCACGTTTC-CTC-GA
* * * * *
44780186 TTTT-CAAACGCAAATATTGTCTCACTTTGAAATTTTAAAAG
64 TTTTCCAAACGCAAATATTGCCTTATTTTAAAATTTAAAAAG
* * *
44780227 GATATTTGGCTATTTGGTCAAACGAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATTGAAACCCAGCACGTTAGGGCACGTTTCCTCGATT
44780292 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGC-AAATATTGCCTTATTTTAAAA-TTTAAAAAG
* * * *
44780334 GATATTTGTCTATTTCGGTCAAACGAGAAATTAAAACCCAGCACGTTAGGGTACGTTTTCTCGAT
1 GATATTTGGCTATTT-GGTCAAACGAGAAATTGAAACCCAGCACGTTAGGGCACGTTTCCTCGAT
*
44780399 TTTCCAAACGCAAAACATTGCCTTATTT
65 TTTCCAAACGC-AAATATTGCCTTATTT
44780427 AGAAAAATTT
Statistics
Matches: 175, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
104 5 0.03
105 58 0.33
106 21 0.12
107 22 0.13
108 69 0.39
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (105 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATTGAAACCCAGCACGTTAGGGCACGTTTCCTCGATT
TTCCAAACGCAAATATTGCCTTATTTTAAAATTTAAAAAG
Found at i:44780983 original size:17 final size:18
Alignment explanation
Indices: 44780961--44781000 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
44780951 ACATGTATAA
44780961 GTATGTGTATTA-AAAAT
1 GTATGTGTATTATAAAAT
44780978 GTATGTGTATTATAAAAT
1 GTATGTGTATTATAAAAT
44780996 GTATG
1 GTATG
44781001 CATGTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (18 bp):
GTATGTGTATTATAAAAT
Found at i:44782713 original size:21 final size:21
Alignment explanation
Indices: 44782689--44782727 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44782679 AATTTTGTAT
*
44782689 TTTTTGAA-TATTTTTTATAA
1 TTTTTAAATTATTTTTTATAA
44782709 TTTTTAAATTATTTTTTAT
1 TTTTTAAATTATTTTTTAT
44782728 TGTAGCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTTTAAATTATTTTTTATAA
Found at i:44790169 original size:92 final size:92
Alignment explanation
Indices: 44790051--44790233 Score: 348
Period size: 92 Copynumber: 2.0 Consensus size: 92
44790041 GTGTTATTTA
**
44790051 GATAAATTAATTAAATGAATTTTTTTTGTGATTAAATGTTATTGTTGGCTATTGAATGCTTTTAG
1 GATAAATTAATTAAATGAAAATTTTTTGTGATTAAATGTTATTGTTGGCTATTGAATGCTTTTAG
44790116 AATGCTTATTTCAATCTCAATTTCTTG
66 AATGCTTATTTCAATCTCAATTTCTTG
44790143 GATAAATTAATTAAATGAAAATTTTTTGTGATTAAATGTTATTGTTGGCTATTGAATGCTTTTAG
1 GATAAATTAATTAAATGAAAATTTTTTGTGATTAAATGTTATTGTTGGCTATTGAATGCTTTTAG
44790208 AATGCTTATTTCAATCTCAATTTCTT
66 AATGCTTATTTCAATCTCAATTTCTT
44790234 TTATAGTGTG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.48
Consensus pattern (92 bp):
GATAAATTAATTAAATGAAAATTTTTTGTGATTAAATGTTATTGTTGGCTATTGAATGCTTTTAG
AATGCTTATTTCAATCTCAATTTCTTG
Found at i:44791533 original size:20 final size:19
Alignment explanation
Indices: 44791490--44791544 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
44791480 CCAATATATG
*
44791490 AACAATAATAATGGAAGTAAT
1 AACAATAATAAT--AAGAAAT
44791511 AACAATAATAATAATGAAAT
1 AACAATAATAATAA-GAAAT
*
44791531 AACAATACTAATAA
1 AACAATAATAATAA
44791545 ATCTAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.06
20 17 0.55
21 12 0.39
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (19 bp):
AACAATAATAATAAGAAAT
Found at i:44791652 original size:24 final size:24
Alignment explanation
Indices: 44791616--44791663 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44791606 AATAATCGGT
* *
44791616 TAAAAATTAATAAA-AGGATAAAA
1 TAAAAATGAATAAATAAGATAAAA
44791639 TAAAAGATGAATAAATAAGATAAAA
1 TAAAA-ATGAATAAATAAGATAAAA
44791664 CCTATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (24 bp):
TAAAAATGAATAAATAAGATAAAA
Found at i:44791734 original size:22 final size:24
Alignment explanation
Indices: 44791695--44791741 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
44791685 AAAAGAAAAA
*
44791695 AAACGAAAGTAAATAAATAACATT
1 AAACGAAAGTAAATAAATAAAATT
44791719 AAACG-AAGT-AATAAATAAAATT
1 AAACGAAAGTAAATAAATAAAATT
44791741 A
1 A
44791742 TTTTGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 4 0.18
24 5 0.23
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (24 bp):
AAACGAAAGTAAATAAATAAAATT
Found at i:44793359 original size:49 final size:50
Alignment explanation
Indices: 44793284--44793388 Score: 126
Period size: 49 Copynumber: 2.1 Consensus size: 50
44793274 CTGCCATCTC
* * *
44793284 CAATCTGTTCAACTGCAAGGTCGGGGAAGTAAGATTCG-C-TGCTGTAGCTT
1 CAATCTATTCAACCGCAAGGTCGGGGAAGCAAGATTCGCCAT-C-GTAGCTT
* *
44793334 CAATCTATT-AACCGCAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTT
1 CAATCTATTCAACCGCAAGGTCGGGGAAGCAAGATTCGCCATCGTAGCTT
44793383 CAATCT
1 CAATCT
44793389 GTTCCACTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
49 37 0.77
50 10 0.21
51 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (50 bp):
CAATCTATTCAACCGCAAGGTCGGGGAAGCAAGATTCGCCATCGTAGCTT
Found at i:44793590 original size:50 final size:50
Alignment explanation
Indices: 44793536--44793690 Score: 132
Period size: 50 Copynumber: 3.1 Consensus size: 50
44793526 CGGGGAAGCA
*
44793536 AGATTCACCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
* * * ** * * * * **
44793586 AGATTCGCTGTTGTAGCTTCAATCTATTTGAAT-TCAATGTCGGGGAAGCG
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGT-ACTGCCAGGGAAATG
* * * * * *
44793636 AGATTCGCCATCATAGCTTCAATCTGTTCTACTGCACCGCTAGGGAAATG
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
44793686 AGATT
1 AGATT
44793691 GTAATGTCGG
Statistics
Matches: 75, Mismatches: 28, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
49 1 0.01
50 74 0.99
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (50 bp):
AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
Found at i:44793627 original size:100 final size:99
Alignment explanation
Indices: 44793416--44793690 Score: 302
Period size: 100 Copynumber: 2.8 Consensus size: 99
44793406 GGGAAATGAG
* * * * * **
44793416 ATTGCAATGTCAGGGAAGGAAGATTCGCCGTTGTAGCTTCAATCTATTCCATTGCA-TCGCTTTG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACT-GCTAGG
* * *
44793480 GAAGGTAAGATTCGCCATTGTGGCCTCAATCTTTTA
65 GAA-ATGAGATTCGCCATTGTAGCCTCAATCTTTTA
* * * *
44793516 ATTGCAGTGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGG
** *
44793581 AAATGAGATTCGCTGTTGTAGCTTCAATCTATTTGA
66 AAATGAGATTCGCCATTGTAGCCTCAATCT-TTT-A
* * * * *
44793617 ATT-CAATGTCGGGGAAGCGAGATTCGCCATCATAGCTTCAATCTGTTCTACTGCACCGCTAGGG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGG
44793681 AAATGAGATT
66 AAATGAGATT
44793691 GTAATGTCGG
Statistics
Matches: 146, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
99 22 0.15
100 119 0.82
101 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (99 bp):
ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGG
AAATGAGATTCGCCATTGTAGCCTCAATCTTTTA
Found at i:44807977 original size:49 final size:50
Alignment explanation
Indices: 44807904--44808008 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 50
44807894 CTGCCATCTC
* * * ** *
44807904 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTT
1 CAATCTATTCAACCGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTT
*
44807954 CAATCTATT-AACCGCAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTT
1 CAATCTATTCAACCGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTT
44808003 CAATCT
1 CAATCT
44808009 GTTCCACTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 40 0.83
50 8 0.17
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (50 bp):
CAATCTATTCAACCGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTT
Found at i:44808210 original size:50 final size:50
Alignment explanation
Indices: 44808156--44808310 Score: 150
Period size: 50 Copynumber: 3.1 Consensus size: 50
44808146 CGGGGAAGCA
*
44808156 AGATTCACCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
** * * ** * * * **
44808206 AGATTCGTTGTTGTAGCTTCAATCTATTTGACT-TCAATGTCGGGGAAGCG
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGT-ACTGCCAGGGAAATG
* * * *
44808256 AGATTCGCCATCGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAATG
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
44808306 AGATT
1 AGATT
44808311 GCAATGTCGG
Statistics
Matches: 76, Mismatches: 27, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
49 1 0.01
50 75 0.99
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (50 bp):
AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGGAAATG
Found at i:44808244 original size:100 final size:99
Alignment explanation
Indices: 44808036--44808310 Score: 324
Period size: 100 Copynumber: 2.8 Consensus size: 99
44808026 GGGAAATGAG
* * * *
44808036 ATTGTAATGTCGGGGAA-CGAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGCA-TCGCCTG
1 ATTGCAATGTCGGGGAAGC-AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACT-GCCAG
* * *
44808099 GGAAGGTAAGATTCGCCGTTGTGGCCTTAATCTTTTA
64 GGAA-ATGAGATTCGCCGTTGTAGCCTTAATCTTTTA
* *
44808136 ATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGTACTGCCAGGG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCCAGGG
**
44808201 AAATGAGATTCGTTGTTGTAG-CTTCAATCTATTTGA
66 AAATGAGATTCGCCGTTGTAGCCTT-AATCT-TTT-A
* * * * *
44808237 CTT-CAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACTGCACCGCTAGGG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCCAGGG
44808301 AAATGAGATT
66 AAATGAGATT
44808311 GCAATGTCGG
Statistics
Matches: 152, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
98 3 0.02
99 19 0.12
100 125 0.82
101 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (99 bp):
ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCCAGGG
AAATGAGATTCGCCGTTGTAGCCTTAATCTTTTA
Found at i:44808270 original size:272 final size:272
Alignment explanation
Indices: 44807935--44808958 Score: 1825
Period size: 272 Copynumber: 3.8 Consensus size: 272
44807925 CGGGGAAGTA
* **
44807935 AGATTCGCTGTTGTAGCTTCAATCTA-TTAACCGCAATGTCGGGGAAGCGAGATTCGCCATCGTA
1 AGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
* * * * *
44807999 GCTTCAATCTGTTCCACTGCATCGCTAGGGAAATGAGATTGTAATGTCGGGGAACGAAGATTCGC
66 GCTTCAATCTGTTCCACTGCACCACTAGGGAAATGAGATTGCAATGTCGGGGAAGGAAGATTTGC
* *
44808064 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGGGAAGGTAAGATTCGCCGTTGTGGCCTTAA
131 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTCGCCGTTGTGGCCTCAA
* *
44808129 TCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGTACT
196 TCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACT
44808194 GCCAGGGAAATG
261 GCCAGGGAAATG
*
44808206 AGATTCGTTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
1 AGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
*
44808271 GCTTCAATCTGTTCCACTGCACCGCTAGGGAAATGAGATTGCAATGTCGGGGAAGGAAGATTTGC
66 GCTTCAATCTGTTCCACTGCACCACTAGGGAAATGAGATTGCAATGTCGGGGAAGGAAGATTTGC
44808336 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTCGCCGTTGTGGCCTCAA
131 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTCGCCGTTGTGGCCTCAA
*
44808401 TCTTTTAATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACT
196 TCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACT
*
44808466 GCTAGGGAAATG
261 GCCAGGGAAATG
*
44808478 AGATTCGCTATTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
1 AGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
*
44808543 GCTTCAATCTGTTCCACTGCACTACTAGGGAAATGAGATTGCAATGTCGGGGAAGGAAGATTTGC
66 GCTTCAATCTGTTCCACTGCACCACTAGGGAAATGAGATTGCAATGTCGGGGAAGGAAGATTTGC
44808608 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTCGCCGTTGTGGCCTCAA
131 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTCGCCGTTGTGGCCTCAA
* * *
44808673 TCTTTTAATTGCATTATCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCATTATACT
196 TCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACT
44808738 GCCAGGGAAATG
261 GCCAGGGAAATG
44808750 AGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
1 AGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
* *
44808815 GCTTCAATCTGTTCCACTGCACCACTAGGGAAATGAGATTGGAATGTCAGGGAAGGAAGATTTGC
66 GCTTCAATCTGTTCCACTGCACCACTAGGGAAATGAGATTGCAATGTCGGGGAAGGAAGATTTGC
*
44808880 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTTGCCGTTGTGGCCTCAA
131 CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTCGCCGTTGTGGCCTCAA
44808945 TCTTTTAATTGCAA
196 TCTTTTAATTGCAA
44808959 ACTATGGTTT
Statistics
Matches: 723, Mismatches: 29, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
271 25 0.03
272 698 0.97
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (272 bp):
AGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCATCGTA
GCTTCAATCTGTTCCACTGCACCACTAGGGAAATGAGATTGCAATGTCGGGGAAGGAAGATTTGC
CGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAGAAGGTAAGATTCGCCGTTGTGGCCTCAA
TCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACT
GCCAGGGAAATG
Found at i:44808314 original size:172 final size:172
Alignment explanation
Indices: 44808136--44808482 Score: 439
Period size: 172 Copynumber: 2.0 Consensus size: 172
44808126 TAATCTTTTA
* * *
44808136 ATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTGTA-CTGCCAGG
1 ATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTGCATC-GCCAGA
* ** * * * * *
44808200 GAA-ATGAGATTCGTTGTTGTAGCTTCAATCTATTTGACTT-CAATGTCGGGGAAGCGAGATTCG
65 GAAGATAAGATTCGCCGTTGTAGCCTCAATCT-TTT-AATTGCAATGTCGGGGAAACAAGATTCA
* *
44808263 CCATCGTAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAATGAG
128 CCATCGTAGCTTCAATCTATTCCACTACACCGCTAGGGAAATGAG
* ** * *
44808308 ATTGCAATGTCGGGGAAGGAAGATTTGCCGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAG
1 ATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTGCATCGCCAGAG
* * *
44808373 AAGGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAACAAGATTCACCG
66 AAGATAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCGGGGAAACAAGATTCACCA
* *
44808438 TCGTAGCTTCAATCTATTCCACTATACTGCTAGGGAAATGAG
131 TCGTAGCTTCAATCTATTCCACTACACCGCTAGGGAAATGAG
44808480 ATT
1 ATT
44808483 CGCTATTGTA
Statistics
Matches: 149, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
171 3 0.02
172 123 0.83
173 23 0.15
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (172 bp):
ATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTGCATCGCCAGAG
AAGATAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCGGGGAAACAAGATTCACCA
TCGTAGCTTCAATCTATTCCACTACACCGCTAGGGAAATGAG
Found at i:44808482 original size:50 final size:49
Alignment explanation
Indices: 44808428--44808582 Score: 150
Period size: 50 Copynumber: 3.1 Consensus size: 49
44808418 CGGGGAAACA
* *
44808428 AGATTCACCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGGGAAATG
1 AGATTCGCCATCGTAGCTTCAATCTATTCCACT-TACTGCTAGGGAAATG
* * ** * * **
44808478 AGATTCGCTATTGTAGCTTCAATCTATTTGACTTCAATG-TCGGGGAAGCG
1 AGATTCGCCATCGTAGCTTCAATCTATTCCACTT-ACTGCT-AGGGAAATG
* * *
44808528 AGATTCGCCATCGTAGCTTCAATCTGTTCCACTGCACTACTAGGGAAATG
1 AGATTCGCCATCGTAGCTTCAATCTATTCCACT-TACTGCTAGGGAAATG
44808578 AGATT
1 AGATT
44808583 GCAATGTCGG
Statistics
Matches: 80, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
49 2 0.03
50 77 0.96
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (49 bp):
AGATTCGCCATCGTAGCTTCAATCTATTCCACTTACTGCTAGGGAAATG
Found at i:44808516 original size:100 final size:99
Alignment explanation
Indices: 44808308--44808582 Score: 297
Period size: 100 Copynumber: 2.8 Consensus size: 99
44808298 GGGAAATGAG
* * *
44808308 ATTGCAATGTCGGGGAAGGAAGATTTGCCGTTGTAGCTTCAATCTATTCCACTGCAT-C-GCCT-
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACT--ATACTG-CTA
* * * * *
44808370 GAGAAGGTAAGATTCGCCGTTGTGGCCTCAATCTTTTA
63 GGGAA-ATGAGATTCGCCATTGTAGCCTCAATCTTTTA
* *
44808408 ATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGGG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGGG
* *
44808473 AAATGAGATTCGCTATTGTAGCTTCAATCTATTTGA
66 AAATGAGATTCGCCATTGTAGCCTCAATCT-TTT-A
* * * * ** *
44808509 CTT-CAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACTGCACTACTAGGG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGGG
44808573 AAATGAGATT
66 AAATGAGATT
44808583 GCAATGTCGG
Statistics
Matches: 149, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
98 2 0.01
99 25 0.17
100 119 0.80
101 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (99 bp):
ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGGG
AAATGAGATTCGCCATTGTAGCCTCAATCTTTTA
Found at i:44808695 original size:172 final size:172
Alignment explanation
Indices: 44808408--44808754 Score: 398
Period size: 172 Copynumber: 2.0 Consensus size: 172
44808398 CAATCTTTTA
*
44808408 ATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGGG
1 ATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGAG
* * * * * * *
44808473 AAATGAGATTCGCTATTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGCGAGATTCGCCA
66 AAATAAGATTCGCCATTGTAGCCTCAATCTATTTGAATTCAATATCGGGGAAGCAAGATTCACCA
* * *
44808538 TCGTAGCTTCAATCTGTTCCACTGCACTACTAGGGAAATGAG
131 TCGTAGCTTCAATCTATTCCACTACACTACCAGGGAAATGAG
** ** *
44808580 ATTGCAATGTCGGGGAAGGAAGATTTGCCGTTGTAGCTTCAATCTATTCCACTGCAT-C-GCCT-
1 ATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACT--ATACTG-CTA
* * * *
44808642 GAGAAGGTAAGATTCGCCGTTGTGGCCTCAATCT-TTT-AATTGCATTATCGGGGAAGCAAGATT
63 GAGAA-ATAAGATTCGCCATTGTAGCCTCAATCTATTTGAATT-CAATATCGGGGAAGCAAGATT
* * * *
44808705 CACCGTCGTAGCTTCAATCTATTCCATTATACTGCCAGGGAAATGAG
126 CACCATCGTAGCTTCAATCTATTCCACTACACTACCAGGGAAATGAG
44808752 ATT
1 ATT
44808755 CGCTGTTGTA
Statistics
Matches: 146, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
171 3 0.02
172 116 0.79
173 25 0.17
174 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (172 bp):
ATTGCAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACTGCTAGAG
AAATAAGATTCGCCATTGTAGCCTCAATCTATTTGAATTCAATATCGGGGAAGCAAGATTCACCA
TCGTAGCTTCAATCTATTCCACTACACTACCAGGGAAATGAG
Found at i:44808793 original size:100 final size:100
Alignment explanation
Indices: 44808580--44808835 Score: 286
Period size: 100 Copynumber: 2.6 Consensus size: 100
44808570 GGGAAATGAG
* * * *
44808580 ATTGCAATGTCGGGGAAGGAAGATTTGCCGTTGTAGCTTCAATCTATTCCACTGCATCGCCTGAG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCATCGCCAGAG
* *
44808645 AAGGTAAGATTCGCCGTTGTGGCCTCAATCTTTTA
66 AAGATAAGATTCGCCGTTGTAGCCTCAATCTTTTA
* * * *
44808680 ATTGCATTATCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCA-T-TATACTGCCAG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCAT-C-GCCAG
* * * *
44808743 GGAA-ATGAGATTCGCTGTTGTAGCTTCAATCTATTTGA
64 AGAAGATAAGATTCGCCGTTGTAGCCTCAATCT-TTT-A
* * * *
44808781 CTT-CAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACTGCA
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCA
44808836 CCACTAGGGA
Statistics
Matches: 128, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
98 2 0.02
99 25 0.20
100 96 0.75
101 4 0.03
102 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (100 bp):
ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCATCGCCAGAG
AAGATAAGATTCGCCGTTGTAGCCTCAATCTTTTA
Found at i:44811232 original size:20 final size:19
Alignment explanation
Indices: 44811189--44811243 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
44811179 CCAATATATG
*
44811189 AACAATAATAATGGAAGTAAT
1 AACAATAATAAT--AAGAAAT
44811210 AACAATAATAATAATGAAAT
1 AACAATAATAATAA-GAAAT
*
44811230 AACAATACTAATAA
1 AACAATAATAATAA
44811244 ATCTAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.06
20 17 0.55
21 12 0.39
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (19 bp):
AACAATAATAATAAGAAAT
Found at i:44811433 original size:22 final size:24
Alignment explanation
Indices: 44811394--44811440 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
44811384 AAAAGAAAAA
*
44811394 AAACGAAAGTAAATAAATAACATT
1 AAACGAAAGTAAATAAATAAAATT
44811418 AAACG-AAGT-AATAAATAAAATT
1 AAACGAAAGTAAATAAATAAAATT
44811440 A
1 A
44811441 TTTTGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 4 0.18
24 5 0.23
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (24 bp):
AAACGAAAGTAAATAAATAAAATT
Found at i:44814366 original size:39 final size:39
Alignment explanation
Indices: 44814284--44814440 Score: 156
Period size: 39 Copynumber: 3.9 Consensus size: 39
44814274 ATTTACATGG
* *
44814284 TAATCACATTAACTTTTAAGCATATAT-ATCACATTAC-ACATA
1 TAATCACA-TAACATTCAAGCATATATCA-CA-ATT-CTA-ATA
* *
44814326 TAATCACATAACATTTAAGCATATATCACAATTCTTATA
1 TAATCACATAACATTCAAGCATATATCACAATTCTAATA
* * * *
44814365 TAATCACGTAACATTCAAACATATATCATAATACTAATA
1 TAATCACATAACATTCAAGCATATATCACAATTCTAATA
* * *
44814404 TAATCACTTAGCATTCAAGCATATATCACAATACTAA
1 TAATCACATAACATTCAAGCATATATCACAATTCTAA
44814441 AAAACATGTT
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 70 0.69
40 3 0.03
41 19 0.19
42 9 0.09
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (39 bp):
TAATCACATAACATTCAAGCATATATCACAATTCTAATA
Found at i:44814493 original size:15 final size:15
Alignment explanation
Indices: 44814475--44814517 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
44814465 ATAATATTGT
44814475 CACATATCATATAAA
1 CACATATCATATAAA
* *
44814490 CACATATCACAATACA
1 CACATATCA-TATAAA
44814506 CACATATTCATA
1 CACATA-TCATA
44814518 ATTTAAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 9 0.39
16 11 0.48
17 3 0.13
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:44834190 original size:27 final size:25
Alignment explanation
Indices: 44834160--44834215 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
44834150 ATTAATCAAT
*
44834160 TTAATTAATTAATTAAAAACTAATTTA
1 TTAATGAATT-ATTAAAAA-TAATTTA
*
44834187 TTAATGAATTATTAAAAATTATTTA
1 TTAATGAATTATTAAAAATAATTTA
44834212 TTAA
1 TTAA
44834216 ATATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 10 0.37
26 8 0.30
27 9 0.33
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
TTAATGAATTATTAAAAATAATTTA
Done.