Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 170 of 410
Found at i:51938337 original size:47 final size:47
Alignment explanation
Indices: 51938286--51938432 Score: 249
Period size: 47 Copynumber: 3.1 Consensus size: 47
51938276 TTAGGATTTT
51938286 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
51938333 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
51938380 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
51938427 ATGTGA
1 ATGTGA
51938433 AATATGTATG
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:51938471 original size:48 final size:48
Alignment explanation
Indices: 51938402--51938536 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
51938392 TGAACATGCA
* * *
51938402 TATATGTGATAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
51938450 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
51938498 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
51938537 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:51938746 original size:37 final size:37
Alignment explanation
Indices: 51938683--51938754 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
51938673 GGAAATATAT
*
51938683 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
51938720 TCCGGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
51938755 CGTCTAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:51939882 original size:32 final size:32
Alignment explanation
Indices: 51939841--51939904 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
51939831 ACGCAATACA
51939841 TTGTCTTCTCAAGTTTCTAATGAGATGTATCC
1 TTGTCTTCTCAAGTTTCTAATGAGATGTATCC
*
51939873 TTGTCTTCTCAAGTTTCTAATGAGTTGTATCC
1 TTGTCTTCTCAAGTTTCTAATGAGATGTATCC
51939905 AGGGAATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (32 bp):
TTGTCTTCTCAAGTTTCTAATGAGATGTATCC
Found at i:51946976 original size:55 final size:55
Alignment explanation
Indices: 51946862--51946986 Score: 162
Period size: 55 Copynumber: 2.3 Consensus size: 55
51946852 TGCGATATGG
* * * *
51946862 CCGTGGTCGAGCCTGCCAAAACAACATGGGCGTGCAACACGCCCGTGTGGAAGAA
1 CCGTGGTCGAACCTGCCAAAACAACACGGGCGTGCAACACGCCCGTGTGAAACAA
* * * *
51946917 CCGTGGGT-GAACCTGCCAAAACAACACGGGCGTTCGACACGCTCGTGTGAAACAC
1 CCGT-GGTCGAACCTGCCAAAACAACACGGGCGTGCAACACGCCCGTGTGAAACAA
51946972 CCGTGGTCGAACCTG
1 CCGTGGTCGAACCTG
51946987 TTAAATTAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.05
55 54 0.90
56 3 0.05
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (55 bp):
CCGTGGTCGAACCTGCCAAAACAACACGGGCGTGCAACACGCCCGTGTGAAACAA
Found at i:51965174 original size:256 final size:256
Alignment explanation
Indices: 51964719--51965231 Score: 1017
Period size: 256 Copynumber: 2.0 Consensus size: 256
51964709 TTTCAATATG
51964719 GTTCCTTTTGACTTGTATATATATGTAGCCATGCGAAAATGGCTTGTTAATGAGGTTAATGTTTG
1 GTTCCTTTTGACTTGTATATATATGTAGCCATGCGAAAATGGCTTGTTAATGAGGTTAATGTTTG
51964784 TGTATATTCAGGCATGGTATAAGCTTATTTTGGGAAGTATGTTTCATGGTATGTGTGTATGGTGT
66 TGTATATTCAGGCATGGTATAAGCTTATTTTGGGAAGTATGTTTCATGGTATGTGTGTATGGTGT
51964849 CTTGGTTTCATGTTTTGGTTAAGTAATGAATCGGTTGATGAATGTGTTTTCGGTTGTGGCTTAAT
131 CTTGGTTTCATGTTTTGGTTAAGTAATGAATCGGTTGATGAATGTGTTTTCGGTTGTGGCTTAAT
51964914 TGGATAAGCTAAGTAATGAAAAAATCATTGCTTGTATAATTGGATTTATTGGTGCATTTAT
196 TGGATAAGCTAAGTAATGAAAAAATCATTGCTTGTATAATTGGATTTATTGGTGCATTTAT
*
51964975 GTTCCTTTTGATTTGTATATATATGTAGCCATGCGAAAATGGCTTGTTAATGAGGTTAATGTTTG
1 GTTCCTTTTGACTTGTATATATATGTAGCCATGCGAAAATGGCTTGTTAATGAGGTTAATGTTTG
51965040 TGTATATTCAGGCATGGTATAAGCTTATTTTGGGAAGTATGTTTCATGGTATGTGTGTATGGTGT
66 TGTATATTCAGGCATGGTATAAGCTTATTTTGGGAAGTATGTTTCATGGTATGTGTGTATGGTGT
51965105 CTTGGTTTCATGTTTTGGTTAAGTAATGAATCGGTTGATGAATGTGTTTTCGGTTGTGGCTTAAT
131 CTTGGTTTCATGTTTTGGTTAAGTAATGAATCGGTTGATGAATGTGTTTTCGGTTGTGGCTTAAT
51965170 TGGATAAGCTAAGTAATGAAAAAATCATTGCTTGTATAATTGGATTTATTGGTGCATTTAT
196 TGGATAAGCTAAGTAATGAAAAAATCATTGCTTGTATAATTGGATTTATTGGTGCATTTAT
51965231 G
1 G
51965232 GAGACAAGAA
Statistics
Matches: 256, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 256 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (256 bp):
GTTCCTTTTGACTTGTATATATATGTAGCCATGCGAAAATGGCTTGTTAATGAGGTTAATGTTTG
TGTATATTCAGGCATGGTATAAGCTTATTTTGGGAAGTATGTTTCATGGTATGTGTGTATGGTGT
CTTGGTTTCATGTTTTGGTTAAGTAATGAATCGGTTGATGAATGTGTTTTCGGTTGTGGCTTAAT
TGGATAAGCTAAGTAATGAAAAAATCATTGCTTGTATAATTGGATTTATTGGTGCATTTAT
Found at i:51968232 original size:13 final size:13
Alignment explanation
Indices: 51968214--51968240 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51968204 AAGTAAGTGA
51968214 TCTTGATGATTTT
1 TCTTGATGATTTT
51968227 TCTTGATGATTTT
1 TCTTGATGATTTT
51968240 T
1 T
51968241 GCACTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TCTTGATGATTTT
Found at i:51969238 original size:99 final size:98
Alignment explanation
Indices: 51968977--51969299 Score: 316
Period size: 96 Copynumber: 3.4 Consensus size: 98
51968967 CGGCCACATC
* * *
51968977 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-CGAGAGTTAGTGTAAAG
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGA-ATCGATAGTCAGTGT-AAG
*
51969041 A-CATGTCTAGGACAT-GCATCGGCCTCGAGATGT
64 ACCATGTCTAGGACATGGCATCGGCATCGAGATGT
* * * * *
51969074 -A-AGCCAGTGTAAGA-CATATCTAGGACAT-GCATTGG-CTACGAGAT-G-T-GTCAGTGTAAG
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-TGA-ATCGATAGTCAGTGTAAG
* *
51969131 ACCATGTCTAGGACATGGCATCGGCATGGATATGT
64 ACCATGTCTAGGACATGGCATCGGCATCGAGATGT
* * * *
51969166 GAGAGCTAGTGTAAGACCATGTTTGGGATATGGCGTCGGCCTTGATTTCGATAGTCAGTGTAAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGA-ATCGATAGTCAGTGTAAGA
* *
51969231 CCATGTCTAGGACATGGCATCGAC-TTG-G-TG-
65 CCATGTCTAGGACATGGCATCGGCATCGAGATGT
* *
51969261 GATAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
51969300 ACATTGCACC
Statistics
Matches: 184, Mismatches: 29, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
90 4 0.02
91 21 0.11
92 16 0.09
93 12 0.07
94 24 0.13
95 24 0.13
96 42 0.23
97 3 0.02
98 3 0.02
99 35 0.19
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (98 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAATCGATAGTCAGTGTAAGAC
CATGTCTAGGACATGGCATCGGCATCGAGATGT
Found at i:51969285 original size:47 final size:48
Alignment explanation
Indices: 51968943--51969299 Score: 237
Period size: 47 Copynumber: 7.6 Consensus size: 48
51968933 GTGCGCTAGC
* *** *
51968943 GTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TCGA-GAGCTAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCTTGAGTCGATGAGCCAGT
* * **
51968987 GTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGTTAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGC-TTGAGTCGATGAGCCAGT
* *
51969035 GTAAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGAT-G-TAAGCCAGT
1 GT-AAGACCATGTCTAGGACATGGCATCGG-CTTGAG-TCGATGAGCCAGT
* * * * *
51969082 GTAAGA-CATATCTAGGACAT-GCATTGGC-T-ACG-AGATGTGTCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCTTGA-GTCGATGAGCCAGT
* *
51969126 GTAAGACCATGTCTAGGACATGGCATCGGCATGGATATGT-GA-GAGCTAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGC-TTG--A-GTCGATGAGCCAGT
* * * * * *
51969176 GTAAGACCATGTTTGGGATATGGCGTCGGCCTTGATTTCGAT-AGTCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGG-CTTGA-GTCGATGAGCCAGT
* * *
51969225 GTAAGACCATGTCTAGGACATGGCATCGACTTG-GTGGATAAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCTTGAGTCGATGAGCCAGT
*
51969272 GTAAGACCATGTCTGGGACATGGCATCG
1 GTAAGACCATGTCTAGGACATGGCATCG
51969300 ACATTGCACC
Statistics
Matches: 249, Mismatches: 41, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 19 0.08
45 28 0.11
46 42 0.17
47 53 0.21
48 33 0.13
49 35 0.14
50 32 0.13
51 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
GTAAGACCATGTCTAGGACATGGCATCGGCTTGAGTCGATGAGCCAGT
Found at i:51970274 original size:28 final size:28
Alignment explanation
Indices: 51970234--51970289 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
51970224 ACACGGGCTA
51970234 GGACACGGGC-GTGTCATGGCCGTGTGAG
1 GGACACGGGCGGTGTCA-GGCCGTGTGAG
51970262 GGACACGGGCGTGTGTCAGGCCGTGTGA
1 GGACACGGGCG-GTGTCAGGCCGTGTGA
51970290 AAACCCCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.38
29 10 0.38
30 6 0.23
ACGTcount: A:0.14, C:0.21, G:0.46, T:0.18
Consensus pattern (28 bp):
GGACACGGGCGGTGTCAGGCCGTGTGAG
Found at i:51972610 original size:6 final size:6
Alignment explanation
Indices: 51972596--51972640 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
51972586 AGGTCTCAAA
* * *
51972596 AAATAG AAATGG AAATGG AAATGA AAATGA AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
51972641 CTTACAATCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:51976246 original size:61 final size:62
Alignment explanation
Indices: 51976175--51976304 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 62
51976165 TTGATCATCT
** * * *
51976175 TAATATTAAATTAATAAAATTTTATTTAGATAAATATTAAATTAAATTAAAT-ATCTCATAC
1 TAATATTAAATTAATAAAATACTATCTAGAAAAATATTAAACTAAATTAAATAATCTCATAC
* *
51976236 TAATATTAAATTAATAAAATACTATCTAGAAAAATATTAAACTAAATTTAATAATCTCATAT
1 TAATATTAAATTAATAAAATACTATCTAGAAAAATATTAAACTAAATTAAATAATCTCATAC
51976298 TAATATT
1 TAATATT
51976305 TAGATAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
61 46 0.75
62 15 0.25
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (62 bp):
TAATATTAAATTAATAAAATACTATCTAGAAAAATATTAAACTAAATTAAATAATCTCATAC
Found at i:51976275 original size:31 final size:30
Alignment explanation
Indices: 51976176--51976276 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
51976166 TGATCATCTT
* * *
51976176 AATATTAAATTAATAAAATTTTATTTAGATA
1 AATATTAAATTAATAAAA-TATATCTAGAAA
* * * **
51976207 AATATTAAATTAAATTAAATATCTC-ATACT
1 AATATTAAATT-AATAAAATATATCTAGAAA
51976237 AATATTAAATTAATAAAATACTATCTAGAAA
1 AATATTAAATTAATAAAATA-TATCTAGAAA
51976268 AATATTAAA
1 AATATTAAA
51976277 CTAAATTTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
29 8 0.15
30 16 0.29
31 25 0.45
32 6 0.11
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATATCTAGAAA
Found at i:51979390 original size:14 final size:15
Alignment explanation
Indices: 51979373--51979401 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51979363 TTTATTGTAA
51979373 TTAATTTTA-TTAAT
1 TTAATTTTACTTAAT
51979387 TTAATTTTACTTAAT
1 TTAATTTTACTTAAT
51979402 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATTTTACTTAAT
Found at i:51986958 original size:19 final size:19
Alignment explanation
Indices: 51986915--51986955 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
51986905 TTTAAATGTG
51986915 TATTTATAATATCAAAAAT
1 TATTTATAATATCAAAAAT
51986934 TATTTATAATAT--AAAAT
1 TATTTATAATATCAAAAAT
51986951 TATTT
1 TATTT
51986956 TTAAAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTTATAATATCAAAAAT
Found at i:51987464 original size:15 final size:16
Alignment explanation
Indices: 51987444--51987473 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51987434 GTTATTTTTG
51987444 AAATTATA-AAAATAA
1 AAATTATACAAAATAA
51987459 AAATTATACAAAATA
1 AAATTATACAAAATA
51987474 TATACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATTATACAAAATAA
Found at i:51989026 original size:20 final size:20
Alignment explanation
Indices: 51989001--51989041 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
51988991 TCTTGTCTAC
51989001 ATGGACATTTTAATAATACA
1 ATGGACATTTTAATAATACA
51989021 ATGGACATTTTAATAATACA
1 ATGGACATTTTAATAATACA
51989041 A
1 A
51989042 ATTCACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
ATGGACATTTTAATAATACA
Found at i:51989052 original size:20 final size:20
Alignment explanation
Indices: 51989005--51989051 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
51988995 GTCTACATGG
*
51989005 ACATTTTAATAATACAATGG
1 ACATTTTAATAATACAATGC
*
51989025 ACATTTTAATAATACAAATTC
1 ACATTTTAATAATAC-AATGC
51989046 ACATTT
1 ACATTT
51989052 AGTATTCACG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (20 bp):
ACATTTTAATAATACAATGC
Found at i:51991384 original size:40 final size:40
Alignment explanation
Indices: 51991336--51991522 Score: 320
Period size: 40 Copynumber: 4.7 Consensus size: 40
51991326 GTAATTCGAG
* *
51991336 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
*
51991376 CAATTGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
*
51991416 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
*
51991456 CAATTGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
*
51991496 CAAATGCCTTCGGGAATTAACTCGGAT
1 CAAATGCCTTCGGGAATTAACCCGGAT
51991523 ATCATTCGAA
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
Found at i:51991387 original size:80 final size:80
Alignment explanation
Indices: 51991336--51991522 Score: 356
Period size: 80 Copynumber: 2.3 Consensus size: 80
51991326 GTAATTCGAG
*
51991336 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCACAATTGCCTTCGGGAATTAACCCGG
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACAATTGCCTTCGGGAATTAACCCGG
51991401 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
51991416 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACAATTGCCTTCGGGAATTAACCCGG
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACAATTGCCTTCGGGAATTAACCCGG
51991481 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
*
51991496 CAAATGCCTTCGGGAATTAACTCGGAT
1 CAAATGCCTTCGGGAATTAACCCGGAT
51991523 ATCATTCGAA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 105 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCACAATTGCCTTCGGGAATTAACCCGG
ATTTAGTAACTCGCA
Found at i:52000777 original size:34 final size:34
Alignment explanation
Indices: 52000734--52000799 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
52000724 CTTAGGACCC
** * *
52000734 ACTGATACTATTACTGAAATGGGCTCAGGCCCAG
1 ACTGATACTATTAAGGAAATAGGCTAAGGCCCAG
*
52000768 ACTGCTACTATTAAGGAAATAGGCTAAGGCCC
1 ACTGATACTATTAAGGAAATAGGCTAAGGCCC
52000800 TAACTGAGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (34 bp):
ACTGATACTATTAAGGAAATAGGCTAAGGCCCAG
Found at i:52024149 original size:28 final size:28
Alignment explanation
Indices: 52024117--52024215 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
52024107 GCAATAAGCC
*
52024117 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
52024145 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
52024173 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
52024202 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52024216 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:52032567 original size:34 final size:34
Alignment explanation
Indices: 52032524--52032601 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
52032514 CTTAGGCTCC
* *
52032524 ACTGATACTGTTACTA-AAATGGGCTCAGGCCTAG
1 ACTGATACTGTTA-AAGAAATGGGCTAAGGCCTAG
*
52032558 ACTGGTACTGTTAAAGAAATGGGCTAAGGCCCTA-
1 ACTGATACTGTTAAAGAAATGGGCTAAGG-CCTAG
*
52032592 ACTGAGACTG
1 ACTGATACTG
52032602 AAAGGGTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 1 0.03
34 32 0.86
35 4 0.11
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (34 bp):
ACTGATACTGTTAAAGAAATGGGCTAAGGCCTAG
Found at i:52034806 original size:34 final size:34
Alignment explanation
Indices: 52034721--52034806 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 34
52034711 GATTCTTTGT
* *
52034721 CTGCATACTG-TACTGATATGGGCTAAGGCCCAGA
1 CTGC-TACTGTTACTGAAATAGGCTAAGGCCCAGA
* ** * * *
52034755 CTACTTTTATCATTGAAATAGGCTAAGGCCCAGA
1 CTGCTACTGTTACTGAAATAGGCTAAGGCCCAGA
52034789 CTGCTACTGTTACTGAAA
1 CTGCTACTGTTACTGAAA
52034807 AGGGGCTAAG
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
33 2 0.05
34 35 0.95
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (34 bp):
CTGCTACTGTTACTGAAATAGGCTAAGGCCCAGA
Found at i:52036329 original size:30 final size:30
Alignment explanation
Indices: 52036295--52036355 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52036285 TTCCCGAGCC
52036295 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
52036325 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
52036355 T
1 T
52036356 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:52037126 original size:67 final size:64
Alignment explanation
Indices: 52037017--52037268 Score: 183
Period size: 67 Copynumber: 3.9 Consensus size: 64
52037007 ATACAGATAG
* * * *
52037017 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAAAGACAT
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGCT-AAGACA-
52037081 TA
63 TA
* * * **
52037083 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTAAGACAT
52037147 A
64 A
* * * *
52037148 TATGTAGCTAGGTCACATGCATTGTTTCAGGTGAAG-G-ACACCATGTAGACAAGAGAGCTATGA
1 TATGTAGCTAGGTCACATGGA-TG-AT-A-CTG-AGTGCACACCATGTAGACAAGAGAGCTAAGA
*
52037211 GATA
61 CATA
* * * * **
52037215 AAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGC
52037269 CAAACTATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 19 0.12
64 19 0.12
65 7 0.05
66 20 0.13
67 76 0.50
68 3 0.02
69 1 0.01
70 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTAAGACATA
Found at i:52038358 original size:2 final size:2
Alignment explanation
Indices: 52038351--52038385 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
52038341 TCATGACACG
52038351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52038386 GACTAGTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:52040717 original size:27 final size:26
Alignment explanation
Indices: 52040669--52040724 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
52040659 GCGAGGCTGC
* *
52040669 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACCAAGCCACCAGA-A
* *
52040696 CAGATATTGTGGCCAGGCCACCAGAA
1 CAGATATTGTGACCAAGCCACCAGAA
52040722 CAG
1 CAG
52040725 TTATATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACCAAGCCACCAGAA
Found at i:52040733 original size:2 final size:2
Alignment explanation
Indices: 52040726--52040760 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
52040716 CCAGAACAGT
52040726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52040761 GTGGCGAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:52041451 original size:27 final size:27
Alignment explanation
Indices: 52041420--52041558 Score: 199
Period size: 27 Copynumber: 5.1 Consensus size: 27
52041410 ATCTGTAGTC
*
52041420 CTACCCTACAGGGGTATTTTAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
* *
52041447 TTACCCTACAGGGGTATTTCGGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
* *
52041474 CTACCTTACAGGAGTATTTCAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
*
52041501 CTACCCTATAGGGGTATTTCAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
*
52041528 CTA-CCTCACAGGGGTATTTCGGTAATT
1 CTACCCT-ACAGGGGTATTTCAGTAATT
52041555 CTAC
1 CTAC
52041559 AACTTATCCA
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 95 0.97
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
CTACCCTACAGGGGTATTTCAGTAATT
Found at i:52050409 original size:18 final size:18
Alignment explanation
Indices: 52050386--52050422 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52050376 AAAATGACCA
52050386 AGTCCCTATAGATGTCAT
1 AGTCCCTATAGATGTCAT
52050404 AGTCCCTATAGATGTCAT
1 AGTCCCTATAGATGTCAT
52050422 A
1 A
52050423 CTTTCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (18 bp):
AGTCCCTATAGATGTCAT
Found at i:52052243 original size:40 final size:40
Alignment explanation
Indices: 52052188--52052397 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52052178 AACATTGGAA
52052188 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52052228 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52052268 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52052308 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
52052347 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52052388 CTATATCCGG
1 ATATATCCGG
52052398 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52058789 original size:71 final size:71
Alignment explanation
Indices: 52058705--52058868 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52058695 CGATTTGTCT
52058705 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52058770 CTTTCA
66 CTTTCA
52058776 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52058841 CTTTCA
66 CTTTCA
52058847 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52058869 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52058906 original size:71 final size:70
Alignment explanation
Indices: 52058705--52058902 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52058695 CGATTTGTCT
* * * *
52058705 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52058770 CTTTCA
65 CTTTCA
* * * *
52058776 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52058841 CTTTCA
65 CTTTCA
* *
52058847 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52058903 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52065889 original size:71 final size:71
Alignment explanation
Indices: 52065805--52065968 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52065795 CGATTTGTCT
52065805 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52065870 CTTTCA
66 CTTTCA
52065876 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52065941 CTTTCA
66 CTTTCA
52065947 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52065969 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52066006 original size:71 final size:70
Alignment explanation
Indices: 52065805--52066002 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52065795 CGATTTGTCT
* * * *
52065805 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52065870 CTTTCA
65 CTTTCA
* * * *
52065876 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52065941 CTTTCA
65 CTTTCA
* *
52065947 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52066003 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52069873 original size:47 final size:47
Alignment explanation
Indices: 52069798--52070110 Score: 464
Period size: 47 Copynumber: 6.5 Consensus size: 47
52069788 TATTAAAATT
*
52069798 TGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCTGATGTGATGAA
1 TGTGAAAGTGTATATAT--GTGATAAGGCCTAATGGCCGATGTGATGAA
*
52069847 CGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
52069894 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
52069943 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
52069990 TGTGAAGGTGTAAATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGT--ATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * *
52070039 TGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
52070086 TGTGGAAGTGTATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
52070111 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
47 139 0.57
49 107 0.43
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:52069909 original size:96 final size:96
Alignment explanation
Indices: 52069798--52070110 Score: 497
Period size: 96 Copynumber: 3.3 Consensus size: 96
52069788 TATTAAAATT
* * * *
52069798 TGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCTGATGTGATGAACGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
52069863 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
52069894 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
52069959 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
52069990 TGTGAAGGTGTAAATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
52070055 TGTGATAAGGCCGAGTGGCCAACGTGATGGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGAA
52070086 TGTGGAA-GTGTATA-A-ATGTGATAAG
1 TGT-GAAGGTGTATATATATGTGATAAG
52070111 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 10 0.05
95 1 0.00
96 190 0.93
97 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:52073666 original size:23 final size:23
Alignment explanation
Indices: 52073631--52073695 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
52073621 GTCCTACCCA
*
52073631 TCCAGCCTCTACACTCCATCTCCG
1 TCCAACCT-TACACTCCATCTCCG
52073655 TCCAACCTTACACTCCATCTCCG
1 TCCAACCTTACACTCCATCTCCG
*
52073678 TCCAACCCTACACTCCAT
1 TCCAACCTTACACTCCAT
52073696 GTGGAGATAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 32 0.82
24 7 0.18
ACGTcount: A:0.22, C:0.49, G:0.05, T:0.25
Consensus pattern (23 bp):
TCCAACCTTACACTCCATCTCCG
Found at i:52073998 original size:27 final size:27
Alignment explanation
Indices: 52073961--52074122 Score: 137
Period size: 27 Copynumber: 6.0 Consensus size: 27
52073951 AAACATACAT
* **
52073961 CACATAGGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
52073988 CACATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
52074015 CTCATAAGCGCAAAACTGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
52074042 CATATAAGGGCAAAATC-GTCATTTTAA
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* * * *
52074069 TATATAAGGGCAAAACAATCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
** * * *
52074096 CTTACAAGGGTAATACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
52074123 TATACAGGGG
Statistics
Matches: 108, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 106 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:52074133 original size:27 final size:28
Alignment explanation
Indices: 52074087--52074232 Score: 97
Period size: 27 Copynumber: 5.4 Consensus size: 28
52074077 GGCAAAACAA
* * *
52074087 TCATTTTGCCT-TACAAGGGTAATACAG
1 TCATTTTACCTATACAGGGGTATTACAG
*
52074114 TCATTTTA-CTATACAGGGGTATTATAG
1 TCATTTTACCTATACAGGGGTATTACAG
*
52074141 TCATTTTATCCTAT--GGGGGTATTACAG
1 TCATTTTA-CCTATACAGGGGTATTACAG
* ** ** * *
52074168 TCATTTGACCCCTATGGGGGTATTTCGG
1 TCATTTTACCTATACAGGGGTATTACAG
* * *
52074196 TCATTTTATCCTAT-GA-GGGTATTTCGG
1 TCATTTTA-CCTATACAGGGGTATTACAG
52074223 TCATTTTACC
1 TCATTTTACC
52074233 CCATGGGCGT
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.07
27 65 0.67
28 18 0.19
29 7 0.07
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (28 bp):
TCATTTTACCTATACAGGGGTATTACAG
Found at i:52074161 original size:54 final size:51
Alignment explanation
Indices: 52074103--52074335 Score: 160
Period size: 54 Copynumber: 4.3 Consensus size: 51
52074093 TGCCTTACAA
* *
52074103 GGGTAATACAGTCATTTTACTATACAGGGGTATTATAGTCATTTTATCCTATGG
1 GGGTATTACAGTCATTTTAC--TACAGGGGTATT-TGGTCATTTTATCCTATGG
* ** *
52074157 GGGTATTACAGTCATTTGACCCCTATGGGGGTATTTCGGTCATTTTATCCTATGA
1 GGGTATTACAGTCATTTTA---CTACAGGGGTATTT-GGTCATTTTATCCTATGG
* * ** * *
52074212 GGGTATTTCGGTCATTTTACCCCATGGGCGTATTTTGGTCATTTTACCCTATAG
1 GGGTATTACAGTCATTTTACTACA-GGG-GTA-TTTGGTCATTTTATCCTATGG
* * ** * **
52074266 GGGTATTTCAGTCATTTTTCCCTATGGGGGTATTTTGGTCATTTTACCCTATAA
1 GGGTATTACAGTCA-TTTT-ACTACAGGGGTA-TTTGGTCATTTTATCCTATGG
* *
52074320 GGGTATTTCGGTCATT
1 GGGTATTACAGTCATT
52074336 ATTTCGTCCC
Statistics
Matches: 146, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
52 1 0.01
53 5 0.03
54 86 0.59
55 52 0.36
56 1 0.01
57 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (51 bp):
GGGTATTACAGTCATTTTACTACAGGGGTATTTGGTCATTTTATCCTATGG
Found at i:52074244 original size:27 final size:26
Alignment explanation
Indices: 52074140--52074335 Score: 221
Period size: 27 Copynumber: 7.2 Consensus size: 26
52074130 GGGTATTATA
* * *
52074140 GTCATTTTATCCTATGGGGGTATTACA
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
52074167 GTCATTTGACCCCTATGGGGGTATTTCG
1 GTCATTTTA-CCCTAT-GGGGTATTTCG
*
52074195 GTCATTTTATCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
52074222 GTCATTTTACCCCATGGGCGTATTTTG
1 GTCATTTTACCCTATGGG-GTATTTCG
*
52074249 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
52074276 GTCATTTTTCCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
52074303 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
52074330 GTCATT
1 GTCATT
52074336 ATTTCGTCCC
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
26 3 0.02
27 116 0.80
28 26 0.18
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:52074326 original size:81 final size:81
Alignment explanation
Indices: 52074129--52074335 Score: 247
Period size: 81 Copynumber: 2.5 Consensus size: 81
52074119 TTACTATACA
* * * * * *
52074129 GGGGTATTATAGTCATTTTATCCTATGGGGGTATTACAGTCATTTGACCCCTATGGGGGTATTTC
1 GGGGTATTTTGGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTGACCCCTATAGGGGTATTTC
*
52074194 GGTCATTTTATCCTATG
65 AGTCATTTTATCCTATG
* * * * *
52074211 AGGGTATTTCGGTCATTTTACCCCATGGGCGTATTTTGGTCATTTTA-CCCTATAGGGGTATTTC
1 GGGGTATTTTGGTCATTTTACCCTATGGG-GTATTTCGGTCATTTGACCCCTATAGGGGTATTTC
52074275 AGTCATTTT-TCCCTATG
65 AGTCATTTTAT-CCTATG
*
52074292 GGGGTATTTTGGTCATTTTACCCTATAAGGGTATTTCGGTCATT
1 GGGGTATTTTGGTCATTTTACCCTAT-GGGGTATTTCGGTCATT
52074336 ATTTCGTCCC
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
80 1 0.01
81 69 0.66
82 35 0.33
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (81 bp):
GGGGTATTTTGGTCATTTTACCCTATGGGGTATTTCGGTCATTTGACCCCTATAGGGGTATTTCA
GTCATTTTATCCTATG
Found at i:52077633 original size:32 final size:33
Alignment explanation
Indices: 52077587--52077650 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
52077577 AATAGTGGGT
52077587 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
52077619 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAGATAACAGTA
52077651 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:52077738 original size:24 final size:22
Alignment explanation
Indices: 52077711--52077756 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
52077701 CCCAACCCAG
52077711 CCTATAACCAACCGCTACACTCCA
1 CCTAT-ACCAACC-CTACACTCCA
* *
52077735 CCTATACCAGCCCTCCACTCCA
1 CCTATACCAACCCTACACTCCA
52077757 TGTAGGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 6 0.30
24 5 0.25
ACGTcount: A:0.28, C:0.50, G:0.04, T:0.17
Consensus pattern (22 bp):
CCTATACCAACCCTACACTCCA
Found at i:52080149 original size:27 final size:26
Alignment explanation
Indices: 52080101--52080160 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
52080091 GCGAGGCTGC
*
52080101 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
52080128 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
52080154 CATATAT
1 CAGATAT
52080161 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52080247 original size:27 final size:26
Alignment explanation
Indices: 52080199--52080250 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52080189 GCGAGGCTGC
*
52080199 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
52080225 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52080251 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52087501 original size:27 final size:26
Alignment explanation
Indices: 52087453--52087512 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
52087443 GCGAGGCTGC
*
52087453 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
52087480 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
52087506 CAGATAT
1 CAGATAT
52087513 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52087605 original size:27 final size:26
Alignment explanation
Indices: 52087557--52087608 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52087547 GCGAGGCTGC
*
52087557 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
52087583 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52087609 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52094526 original size:27 final size:26
Alignment explanation
Indices: 52094478--52094537 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
52094468 GCGAGGCTGC
*
52094478 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
52094505 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
52094531 CAGATAT
1 CAGATAT
52094538 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52094632 original size:27 final size:26
Alignment explanation
Indices: 52094584--52094635 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52094574 GCGAGGCTGC
*
52094584 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
52094610 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52094636 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52098708 original size:40 final size:40
Alignment explanation
Indices: 52098679--52098909 Score: 288
Period size: 40 Copynumber: 5.8 Consensus size: 40
52098669 ATAACCATGT
52098679 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
52098719 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
*
52098759 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
* * * *
52098799 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCATTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTC
* * * **
52098839 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
* * * *
52098878 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAAATGCCTTCGGGTCTTAGCCCGGATA
52098910 TCATTCGATT
Statistics
Matches: 169, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 165 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
Found at i:52106949 original size:40 final size:40
Alignment explanation
Indices: 52106904--52107073 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
52106894 CGGAATATAA
*
52106904 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-CGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52106944 CCGGATAGAATGACTCGCACGAATGCCTTCAGGTCTTAGC
1 CCGGATATAACCACTCGCACAAATGCCTTCGGGTCTTAGC
* ** *
52106984 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
52107024 CCGGATGTAGCCATTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTCGCACAAATGCCTTCGGGTCTTAGC
52107064 CCGGATATAA
1 CCGGATATAA
52107074 TTTCCAGCAT
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 109 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:52107051 original size:80 final size:80
Alignment explanation
Indices: 52106920--52107070 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
52106910 ATAACCATGT
* *
52106920 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCAGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTAGCACGAATGCCTTCAGGTCTTAACC
52106985 CGGATAGAATGACTC
66 CGGATAGAATGACTC
* * * *
52107000 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCATTAGCAC-AATTGCCTTCGGGTCTTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTAGCACGAA-TGCCTTCAGGTCTTA
52107062 ACCCGGATA
63 ACCCGGATA
52107071 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.02
79 4 0.06
80 57 0.92
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTAGCACGAATGCCTTCAGGTCTTAACC
CGGATAGAATGACTC
Found at i:52109130 original size:18 final size:18
Alignment explanation
Indices: 52109089--52109124 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52109079 TTAACAAACT
52109089 AATTTGGGTCCAATCGAG
1 AATTTGGGTCCAATCGAG
52109107 AATTTGGGTCCAATCGAG
1 AATTTGGGTCCAATCGAG
52109125 CTTTTGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (18 bp):
AATTTGGGTCCAATCGAG
Found at i:52110994 original size:17 final size:16
Alignment explanation
Indices: 52110951--52110996 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
52110941 ATTGAAGTGT
52110951 TTTTTGAAAACCCTAC
1 TTTTTGAAAACCCTAC
*
52110967 TTTCATTGAAAACCCTTC
1 TTT--TTGAAAACCCTAC
52110985 TTATTTGAAAAC
1 TT-TTTGAAAAC
52110997 TTGAGTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 14 0.54
19 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (16 bp):
TTTTTGAAAACCCTAC
Found at i:52115013 original size:25 final size:23
Alignment explanation
Indices: 52114967--52115013 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
52114957 CAGTCGTACA
* *
52114967 ACCGTCGTCAAGACAGTTAAATC
1 ACCGTCGTCAACACAGTCAAATC
52114990 ACCGTCGTACAATCACAGTCAAAT
1 ACCGTCGT-CAA-CACAGTCAAAT
52115014 TAGTAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 3 0.15
25 9 0.45
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (23 bp):
ACCGTCGTCAACACAGTCAAATC
Found at i:52115103 original size:27 final size:27
Alignment explanation
Indices: 52115065--52115150 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
52115055 CAAAATAGTC
*
52115065 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACACTACAGGGGTATTTCGATA
* * *
52115092 ATTTTACACTACAAGGGTAATCCGATA
1 ATTTTACACTACAGGGGTATTTCGATA
* *
52115119 ATTTTACA-AATC-GGGGTATTTCGGTA
1 ATTTTACACTA-CAGGGGTATTTCGATA
52115145 ATTTTA
1 ATTTTA
52115151 TGAACTGAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 17 0.35
27 32 0.65
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCGATA
Found at i:52118831 original size:20 final size:21
Alignment explanation
Indices: 52118808--52118848 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
52118798 ATAGGTCTCT
*
52118808 AGAGTGCATAATA-GGGCACC
1 AGAGTACATAATAGGGGCACC
*
52118828 AGAGTACATTATAGGGGCACC
1 AGAGTACATAATAGGGGCACC
52118849 GTAGTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTACATAATAGGGGCACC
Found at i:52120817 original size:29 final size:28
Alignment explanation
Indices: 52120785--52120840 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
52120775 TTTAAGGACT
*
52120785 AAATTGTGAAAAATGTAAAAGTTTAGGGA
1 AAATTGTGAAAAATG-AAAAGTTAAGGGA
*
52120814 AAATTGTGAATAATGAAAAGTTAAGGG
1 AAATTGTGAAAAATGAAAAGTTAAGGG
52120841 TCATATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (28 bp):
AAATTGTGAAAAATGAAAAGTTAAGGGA
Found at i:52122835 original size:4 final size:4
Alignment explanation
Indices: 52122826--52122922 Score: 194
Period size: 4 Copynumber: 24.2 Consensus size: 4
52122816 TTACTACCAA
52122826 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
52122874 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
52122922 T
1 T
52122923 TTTTTTTAAG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 93 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:52140911 original size:2 final size:2
Alignment explanation
Indices: 52140899--52140930 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
52140889 ATCAAGTGTT
*
52140899 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52140931 CTTTCTCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:52144906 original size:37 final size:37
Alignment explanation
Indices: 52144859--52144933 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
52144849 TGATGTGTAT
* * * *
52144859 TCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATA
1 TCGGGATAAATCCCGCAGGCCTAGTACTGGTATTATA
52144896 TCGGGATAAATCCCGCAGGCCTAGTACTGGTATTATA
1 TCGGGATAAATCCCGCAGGCCTAGTACTGGTATTATA
52144933 T
1 T
52144934 TCAGGCCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (37 bp):
TCGGGATAAATCCCGCAGGCCTAGTACTGGTATTATA
Found at i:52145036 original size:43 final size:43
Alignment explanation
Indices: 52144931--52145140 Score: 314
Period size: 43 Copynumber: 4.9 Consensus size: 43
52144921 ACTGGTATTA
* * *
52144931 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCTGGTGAT-TA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
52144973 TATTCGGGCCTTCGTACCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
52145016 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
** *
52145059 TATTCGGGCCTTCGTGCCTAGCAGGCTTCTTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
52145102 TATTCGGGCCTTCGTGCCTAGCAAGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
52145141 AATGACATGT
Statistics
Matches: 154, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 37 0.24
43 117 0.76
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:52149273 original size:34 final size:34
Alignment explanation
Indices: 52149230--52149297 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
52149220 CATTCGACTC
52149230 CTTAACTCGTAATTGATAATAGTCAGATCTCAAA
1 CTTAACTCGTAATTGATAATAGTCAGATCTCAAA
**
52149264 CTTAACTCGTAATTGATAATAGTTGGATCTCAAA
1 CTTAACTCGTAATTGATAATAGTCAGATCTCAAA
52149298 TCTATCTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (34 bp):
CTTAACTCGTAATTGATAATAGTCAGATCTCAAA
Found at i:52151579 original size:27 final size:27
Alignment explanation
Indices: 52151541--52151595 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
52151531 GCATGCTACA
*
52151541 TAGTCCAAGAACTGACTAAACCGTAGC
1 TAGTCCAAGAACCGACTAAACCGTAGC
52151568 TAGTCCAAGAACCGACTAAACCGTAGC
1 TAGTCCAAGAACCGACTAAACCGTAGC
52151595 T
1 T
52151596 CTAATACCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (27 bp):
TAGTCCAAGAACCGACTAAACCGTAGC
Found at i:52152841 original size:29 final size:29
Alignment explanation
Indices: 52152768--52152897 Score: 129
Period size: 29 Copynumber: 4.5 Consensus size: 29
52152758 ACCCCTACAT
* *
52152768 ACATGCATATGGCCCA-CTTGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* * *
52152796 CCATTTATATGGCCCATCAGGCCTAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
52152825 ACATTCATATGGTCCATCAAGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * *
52152854 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
52152883 ACCTTTATATGGCCC
1 ACATTCATATGGCCC
52152898 GTTAGGCCGA
Statistics
Matches: 82, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
28 19 0.23
29 63 0.77
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:52152902 original size:29 final size:28
Alignment explanation
Indices: 52152774--52152920 Score: 111
Period size: 29 Copynumber: 5.1 Consensus size: 28
52152764 ACATACATGC
52152774 ATATGGCCCACTT-GGCCC-AATC-CCATTT
1 ATATGGCCCA-TTAGGCCCAAATCACC--TT
* * * *
52152802 ATATGGCCCATCAGGCCTAATTCACATT
1 ATATGGCCCATTAGGCCCAAATCACCTT
* * * * **
52152830 CATATGGTCCATCAAGCCCAATTCATATT
1 -ATATGGCCCATTAGGCCCAAATCACCTT
52152859 CATATGGCCCATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTAGGCCCAAATCACC-TT
* *
52152889 ATATGGCCCGTTAGGCCGAAATCACCTT
1 ATATGGCCCATTAGGCCCAAATCACCTT
52152917 ATAT
1 ATAT
52152921 TTATGCTCAC
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
27 1 0.01
28 22 0.22
29 72 0.73
30 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACCTT
Found at i:52153156 original size:16 final size:16
Alignment explanation
Indices: 52153132--52153174 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
52153122 ACAGCCAAAC
*
52153132 TTTCGACTTTTCGGCA
1 TTTCAACTTTTCGGCA
*
52153148 TTTCAACTTTTCGGTA
1 TTTCAACTTTTCGGCA
*
52153164 TTTCAGCTTTT
1 TTTCAACTTTT
52153175 GCCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:52159285 original size:17 final size:18
Alignment explanation
Indices: 52159263--52159296 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52159253 TCACATTGAA
52159263 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
52159280 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
52159297 ACTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:52160412 original size:29 final size:29
Alignment explanation
Indices: 52160342--52160453 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
52160332 ACCCCTACAT
* *
52160342 ACATGCATATGTCCCACTT-GGCCCAA-TC
1 ACATTCATATGGCCCA-TTAGGCCCAATTC
* *
52160370 TCATTTATATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
52160399 ACATTCATATGGCCCATCAGGCGCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
*
52160428 ATATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCATTAGGCCCAA
52160454 ATCATCTTTA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 19 0.27
29 50 0.70
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:52160458 original size:29 final size:29
Alignment explanation
Indices: 52160347--52160486 Score: 124
Period size: 29 Copynumber: 4.9 Consensus size: 29
52160337 TACATACATG
*
52160347 CATATGTCCCACTT-GGCCC-AATC-TCATT
1 CATATGGCCCA-TTAGGCCCAAATCAT-ATT
* * *
52160375 TATATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* * *
52160404 CATATGGCCCATCAGGCGCAATTCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
*
52160433 CATATGGCCCATTAGGCCCAAATCATCTT
1 CATATGGCCCATTAGGCCCAAATCATATT
* * * **
52160462 TATGTGACCTGTTAGGCCCAAATCA
1 CATATGGCCCATTAGGCCCAAATCA
52160487 CCTTATATTC
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
27 2 0.02
28 14 0.15
29 76 0.83
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:52168070 original size:45 final size:45
Alignment explanation
Indices: 52168006--52168167 Score: 231
Period size: 45 Copynumber: 3.6 Consensus size: 45
52167996 TATCGTACGG
* *
52168006 TACTATTCGGGCCTTTGAGCCTAACAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCCGGTGAGA
* *
52168051 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGATGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCCGGTGAGA
* * *
52168096 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCCGGTGAGA
52168141 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGC
52168168 AAAATGCCAA
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
43 17 0.16
44 5 0.05
45 86 0.79
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCCGGTGAGA
Found at i:52170419 original size:33 final size:33
Alignment explanation
Indices: 52170382--52170447 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
52170372 AATTTTAGTG
52170382 TTTTAGGGAATACATCGTAATTAAATTAAAACA
1 TTTTAGGGAATACATCGTAATTAAATTAAAACA
52170415 TTTTAGGGAATACATCGTAATTAAATTAAAACA
1 TTTTAGGGAATACATCGTAATTAAATTAAAACA
52170448 ACGCAACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTAGGGAATACATCGTAATTAAATTAAAACA
Found at i:52171196 original size:49 final size:49
Alignment explanation
Indices: 52171125--52171254 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 49
52171115 TGTGGTTGAA
* * * *
52171125 CCACCAGATATTGCAGATTTATTGCCACATACAGAATAATGTGGACATG
1 CCACCAGAAAATGCAAAATTATTGCCACATACAGAATAATGTGGACATG
*
52171174 CTA-CAGGAAAATGCAAAATTATTGCCACATACAGAATAATGTGGACATG
1 CCACCA-GAAAATGCAAAATTATTGCCACATACAGAATAATGTGGACATG
* * * *
52171223 CCACCAGAAAATGTAGATTTATTGCCAGATAC
1 CCACCAGAAAATGCAAAATTATTGCCACATAC
52171255 TTCCTCCATA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 65 0.94
50 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (49 bp):
CCACCAGAAAATGCAAAATTATTGCCACATACAGAATAATGTGGACATG
Found at i:52172028 original size:6 final size:6
Alignment explanation
Indices: 52172010--52172106 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
52172000 AAGAAACATT
* *
52172010 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
52172059 ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAAA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
52172107 GTAACAGAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:52172055 original size:31 final size:31
Alignment explanation
Indices: 52171994--52172118 Score: 146
Period size: 31 Copynumber: 4.1 Consensus size: 31
52171984 TAACCCATTA
* * *
52171994 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* * *
52172024 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
52172055 CAGAATTAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* *
52172086 CAAAATCAAAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
52172117 CA
1 CA
52172119 AAAATTAGAA
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 15 0.19
31 63 0.79
32 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:52174327 original size:18 final size:18
Alignment explanation
Indices: 52174304--52174339 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52174294 CAGGATGTTA
52174304 CAATATATCTATCTTTTT
1 CAATATATCTATCTTTTT
52174322 CAATATATCTATCTTTTT
1 CAATATATCTATCTTTTT
52174340 ACATTGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (18 bp):
CAATATATCTATCTTTTT
Found at i:52179311 original size:29 final size:29
Alignment explanation
Indices: 52179269--52179327 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
52179259 ATCTATCAAC
52179269 AACCTCTTATTTTCTACCATAAATTTCTA
1 AACCTCTTATTTTCTACCATAAATTTCTA
* *
52179298 AACCTTTTATTTTCTACCATTAATTTCTA
1 AACCTCTTATTTTCTACCATAAATTTCTA
52179327 A
1 A
52179328 CATTCAGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (29 bp):
AACCTCTTATTTTCTACCATAAATTTCTA
Found at i:52180263 original size:17 final size:18
Alignment explanation
Indices: 52180221--52180269 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
52180211 AGTTGAAAAG
52180221 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
52180240 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
52180257 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
52180270 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:52181155 original size:40 final size:40
Alignment explanation
Indices: 52181089--52181255 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
52181079 AAATTGAATG
* * *
52181089 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
52181128 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
52181168 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
52181208 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
52181248 ATATCCGG
1 ATATCCGG
52181256 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:52187036 original size:49 final size:49
Alignment explanation
Indices: 52186968--52187090 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
52186958 TACATATATG
*
52186968 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
52187017 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
52187066 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
52187091 AAATATATGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:52189308 original size:29 final size:29
Alignment explanation
Indices: 52189237--52189719 Score: 844
Period size: 29 Copynumber: 16.7 Consensus size: 29
52189227 CGAATGATTA
* * *
52189237 GAGGCACTGTGTGTGC-AAATTCCGTTAACC
1 GAGGCACTGTGTGTGCGAGA-TCAG-TAATC
*
52189267 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189296 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189325 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189354 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189383 G-GGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189411 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189440 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189469 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189498 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189527 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189556 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189585 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
52189614 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* * *
52189643 GAGGCACTATGTGTGCGAAATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* *
52189672 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
52189701 GAGGCACTGTGTGTACGAG
1 GAGGCACTGTGTGTGCGAG
52189720 TTTTTCAACA
Statistics
Matches: 440, Mismatches: 11, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
28 28 0.06
29 392 0.89
30 18 0.04
31 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
GAGGCACTGTGTGTGCGAGATCAGTAATC
Found at i:52190301 original size:40 final size:41
Alignment explanation
Indices: 52190203--52190301 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
52190193 TTCGAATGGT
* ** * *
52190203 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
52190244 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGC-AAATCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCTAAATCACTA-A
52190285 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
52190302 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 20 0.40
41 27 0.54
42 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
Found at i:52193472 original size:49 final size:49
Alignment explanation
Indices: 52193404--52193526 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
52193394 TACATATATG
*
52193404 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
52193453 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
52193502 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
52193527 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:52193676 original size:36 final size:37
Alignment explanation
Indices: 52193629--52193705 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
52193619 GTTCCGGGCG
52193629 AGACCCGATGACTACGTGTGGAGATTATGACC-GGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
52193665 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
52193702 AGAC
1 AGAC
52193706 TTCTTTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 32 0.80
37 8 0.20
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:52197141 original size:29 final size:28
Alignment explanation
Indices: 52197044--52197141 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
52197034 TAATAAGCCT
* *
52197044 GCACACTTAGTTCT-TAATAGTCGAACTC
1 GCACACTTAGTGCTATAA-ATTCGAACTC
* *
52197072 GCACACTTAGTGCTATATATTCAAACTC
1 GCACACTTAGTGCTATAAATTCGAACTC
* *
52197100 GCACACTTAGTGCTATACAATTTGAACCC
1 GCACACTTAGTGCTATA-AATTCGAACTC
52197129 GCACACTTAGTGC
1 GCACACTTAGTGC
52197142 CAATCTCATG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 38 0.63
29 22 0.37
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
GCACACTTAGTGCTATAAATTCGAACTC
Found at i:52208434 original size:43 final size:44
Alignment explanation
Indices: 52208380--52208534 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 44
52208370 ATATCGTACA
*
52208380 ATGCCAA-TGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACAAGTAATCACATATCG
* *
52208423 ATGCC-ACTGTCCCAGATAG-GGTCTTACAAG-AATCAAATAT-G
1 ATGCCAACTGTCCCAGA-CGTGGTCTTACAAGTAATCACATATCG
* * * *
52208464 ATGCCGA-TGTCCTAGACATGGTCTTACACA-TAATCACACATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACA-AGTAATCACATATCG
52208507 ATGCCAAC-GTCCCAGACGTGGTCTTACA
1 ATGCCAACTGTCCCAGACGTGGTCTTACA
52208535 CGAGAACACA
Statistics
Matches: 93, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
41 23 0.25
42 20 0.22
43 49 0.53
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACAAGTAATCACATATCG
Found at i:52210829 original size:26 final size:27
Alignment explanation
Indices: 52210800--52210922 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
52210790 TTAGTTTACC
*
52210800 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
* *
52210826 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCCCAGTTTGTA
* * *
52210853 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
* * *
52210880 AAACTACCGAAATACCCTCAGTTTGCA
1 AAATTACCGAAATACCCCCAGTTTGTA
*
52210907 AAATTACTGAAATACC
1 AAATTACCGAAATACC
52210923 ATCGACTTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.04
26 16 0.20
27 57 0.71
28 4 0.05
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAGTTTGTA
Found at i:52210881 original size:27 final size:27
Alignment explanation
Indices: 52210821--52210952 Score: 108
Period size: 27 Copynumber: 4.9 Consensus size: 27
52210811 ATACCCCCAG
* *
52210821 TTGTAAAATTA-CCAAAGTACCCCCGGT
1 TTGTAAAATTACCCAAA-TACCCTCGAT
* *
52210848 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCCAAATACCCTCGAT
* *
52210875 TTGTAAAACTACCGAAATACCCTC-AGT
1 TTGTAAAATTACCCAAATACCCTCGA-T
* ** * *
52210902 TTGCAAAATTACTGAAATACCATCGAC
1 TTGTAAAATTACCCAAATACCCTCGAT
*
52210929 TTGTAAAATTA-TCAAAGTACCCTC
1 TTGTAAAATTACCCAAA-TACCCTC
52210953 AAATTACAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.06
27 74 0.87
28 6 0.07
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCCAAATACCCTCGAT
Found at i:52210968 original size:54 final size:53
Alignment explanation
Indices: 52210792--52210969 Score: 187
Period size: 54 Copynumber: 3.3 Consensus size: 53
52210782 AGAATACTTT
* * * * *
52210792 AGTTTACCAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACTGAAATACCTCGACTTGTAAAATTACCAAAGTACCCTC
* * ** * *
52210845 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAACTACCGAAA-TACCCTC
1 AGTTTACAAAATTACTGAAATA-CCTCGACTTGTAAAATTACC-AAAGTACCCTC
* *
52210899 AGTTTGCAAAATTACTGAAATACCATCGACTTGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACTGAAATACC-TCGACTTGTAAAATTACCAAAGTACCCTC
**
52210953 AAATTACAAAATTACTG
1 AGTTTACAAAATTACTG
52210970 TTTTACCCTC
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
53 22 0.22
54 75 0.75
55 3 0.03
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (53 bp):
AGTTTACAAAATTACTGAAATACCTCGACTTGTAAAATTACCAAAGTACCCTC
Found at i:52210976 original size:27 final size:27
Alignment explanation
Indices: 52210946--52211300 Score: 455
Period size: 27 Copynumber: 13.2 Consensus size: 27
52210936 ATTATCAAAG
* *
52210946 TACCCTCAAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
52210973 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
52211000 TACCCTCGATTTAC-AAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
**
52211026 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
52211053 TACCCTCGATTGATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
52211080 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
52211107 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
52211134 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
52211161 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
52211188 TACCCTCGATTTACAAAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
52211215 TACCCTCGATTTACAAAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
52211242 TACCCTCTATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
52211269 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
52211296 TACCC
1 TACCC
52211301 CTAAGGTGTT
Statistics
Matches: 295, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
25 1 0.00
26 24 0.08
27 269 0.91
28 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:52211631 original size:2 final size:2
Alignment explanation
Indices: 52211626--52211653 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52211616 CTACACACAC
52211626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52211654 TTGTTCTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52211867 original size:6 final size:6
Alignment explanation
Indices: 52211828--52211941 Score: 63
Period size: 6 Copynumber: 18.5 Consensus size: 6
52211818 TTGCAGTCAC
* * *
52211828 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
52211877 -TCACCTA ATTCTG ATTCTG ATTCTT ATTCTG CCA-CCTG ATTTTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG --ATTCTG ATTCTG ATTCTG
* *
52211927 ATTCTC ATTTTG ATT
1 ATTCTG ATTCTG ATT
52211942 TTAGTTCTGA
Statistics
Matches: 80, Mismatches: 19, Indels: 18
0.68 0.16 0.15
Matches are distributed among these distances:
5 4 0.05
6 65 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:52211930 original size:31 final size:31
Alignment explanation
Indices: 52211828--52211931 Score: 138
Period size: 31 Copynumber: 3.4 Consensus size: 31
52211818 TTGCAGTCAC
* *
52211828 ATTCTGATT-TTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTT-ATTCTGTCACCTGATTCTG
* *
52211859 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTTATTCTGTCACCTGATTCTG
* *
52211890 ATTCTGATTCTTATTCTGCCACCTGATTTTG
1 ATTCTGATTCTTATTCTGTCACCTGATTCTG
52211921 ATTCTGATTCT
1 ATTCTGATTCT
52211932 CATTTTGATT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 63 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTTATTCTGTCACCTGATTCTG
Found at i:52214057 original size:39 final size:39
Alignment explanation
Indices: 52214010--52214192 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
52214000 AATGTTCGAG
52214010 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52214049 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
52214088 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
52214127 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
52214167 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
52214193 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:52221489 original size:39 final size:39
Alignment explanation
Indices: 52221442--52221624 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
52221432 AATGTTCGAG
52221442 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52221481 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
52221520 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
52221559 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
52221599 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
52221625 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:52224878 original size:54 final size:53
Alignment explanation
Indices: 52224750--52224927 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 53
52224740 AGAATACTTT
* * * *
52224750 AGTTTACAAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACTGAAATACCTCAACTTGTAAAATTACCAAAGTACCCTC
* ** * * * *
52224803 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAACTACCAAAATACCCTC
1 AGTTTACAAAATTACTGAAATA-CCTCAACTTGTAAAATTACCAAAGTACCCTC
*
52224857 AGTTTGCAAAATTACTGAAATACCATCAACTTGTAAAATTATCC-AAGTACCCTC
1 AGTTTACAAAATTACTGAAATACC-TCAACTTGTAAAATTA-CCAAAGTACCCTC
**
52224911 AAATTACAAAATTACTG
1 AGTTTACAAAATTACTG
52224928 TTTTACCCTC
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
53 21 0.21
54 79 0.77
55 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (53 bp):
AGTTTACAAAATTACTGAAATACCTCAACTTGTAAAATTACCAAAGTACCCTC
Found at i:52224912 original size:27 final size:26
Alignment explanation
Indices: 52224757--52224912 Score: 116
Period size: 27 Copynumber: 5.8 Consensus size: 26
52224747 TTTAGTTTAC
* * *
52224757 AAAATTACTGAAATACCC-CCAGTTGT
1 AAAATTAC-CAAATACCCTCAATTTGT
* * *
52224783 AAAATTACCAAAGTACCCCCAGTTTAT
1 AAAATTACCAAA-TACCCTCAATTTGT
* *
52224810 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTA-CCAAATACCCTCAATTTGT
* * *
52224837 AAAACTACCAAAATACCCTCAGTTTGC
1 AAAATTACC-AAATACCCTCAATTTGT
* * *
52224864 AAAATTACTGAAATACCATCAACTTGT
1 AAAATTAC-CAAATACCCTCAATTTGT
*
52224891 AAAATTATCCAAGTACCCTCAA
1 AAAATTA-CCAAATACCCTCAA
52224913 ATTACAAAAT
Statistics
Matches: 100, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
25 3 0.03
26 15 0.15
27 76 0.76
28 6 0.06
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCAATTTGT
Found at i:52224934 original size:27 final size:27
Alignment explanation
Indices: 52224904--52225204 Score: 381
Period size: 27 Copynumber: 11.2 Consensus size: 27
52224894 ATTATCCAAG
* * *
52224904 TACCCTCAAATTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
52224931 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
52224958 TACCCTCGATTTATAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
52224985 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
52225012 TACCCTCGATTGACAGGATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
52225039 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
52225066 TACCCTCGATTT-TAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
52225092 TACCCTCGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
52225119 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
52225146 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
52225173 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
52225200 TACCC
1 TACCC
52225205 CTAGGGTGTT
Statistics
Matches: 241, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.10
27 218 0.90
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:52225486 original size:27 final size:26
Alignment explanation
Indices: 52225442--52225493 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52225432 CTCGCTGCAA
*
52225442 TCTGGTGGCCTCACCACATATATCTGT
1 TCTGGTGACCTCACCACA-ATATCTGT
* *
52225469 TCTGGTGACTTCATCACAATATCTG
1 TCTGGTGACCTCACCACAATATCTG
52225494 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCACCACAATATCTGT
Found at i:52225580 original size:27 final size:26
Alignment explanation
Indices: 52225542--52225601 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
52225532 ACATATATAT
* *
52225542 ATATTTGTTCTGGTGGCTTAG-CTACA
1 ATATCTGTTCTGGTGACTTAGTC-ACA
*
52225568 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACTTAGTCACA
52225595 ATATCTG
1 ATATCTG
52225602 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.24
27 21 0.72
28 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTTAGTCACA
Found at i:52225755 original size:31 final size:31
Alignment explanation
Indices: 52225720--52225821 Score: 111
Period size: 31 Copynumber: 3.3 Consensus size: 31
52225710 TTGCATTCAC
52225720 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
52225751 ATTCTGATTTTGATTCTAATT--CT-ATCACCTA
1 ATTCTGATTTTGATTCT-GTTACCTGAT-A-CTG
* * *
52225782 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
52225813 ATTCTGATT
1 ATTCTGATT
52225822 CTCATTTTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 46 0.79
32 4 0.07
33 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:52225759 original size:6 final size:6
Alignment explanation
Indices: 52225720--52225844 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
52225710 TTGCATTCAC
* * * *
52225720 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
52225769 ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
52225819 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
52225845 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 6 0.07
6 73 0.79
7 9 0.10
8 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:52225797 original size:25 final size:25
Alignment explanation
Indices: 52225761--52225823 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
52225751 ATTCTGATTT
*
52225761 TGATTCTAATTCTATCACCTAATTC
1 TGATTCTGATTCTATCACCTAATTC
* *
52225786 TGATTCTGATTCTGTCACCTGATTC
1 TGATTCTGATTCTATCACCTAATTC
52225811 TGATTCTGATTCT
1 TGATTCTGATTCT
52225824 CATTTTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (25 bp):
TGATTCTGATTCTATCACCTAATTC
Found at i:52226956 original size:18 final size:18
Alignment explanation
Indices: 52226919--52226957 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52226909 AAAAAGAATT
*
52226919 TGAAAAAAGAAAAGACAG
1 TGAAAAAAGAAAAGAAAG
52226937 TGAAAGAAAGAAAA-AAAG
1 TGAAA-AAAGAAAAGAAAG
52226955 TGA
1 TGA
52226958 TTGTGATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (18 bp):
TGAAAAAAGAAAAGAAAG
Found at i:52230035 original size:40 final size:40
Alignment explanation
Indices: 52229991--52230301 Score: 541
Period size: 40 Copynumber: 7.8 Consensus size: 40
52229981 AGAATTGAGG
* *
52229991 GTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
*
52230031 GTGATGTATCCGGGCTAAATCCTGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
*
52230071 GTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
* *
52230111 GTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
52230151 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
52230191 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
52230231 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
* **
52230271 GTGATGTATCCGAGCTAGGTCCCGAAGAGCA
1 GTGATGTATCCGGGCTAAATCCCGAAGAGCA
52230302 ATCATGCTGG
Statistics
Matches: 260, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 260 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTA
Found at i:52232508 original size:70 final size:71
Alignment explanation
Indices: 52232425--52232587 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
52232415 CGATTTGTCT
52232425 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA-TTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52232489 CTTTCA
66 CTTTCA
52232495 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52232560 CTTTCA
66 CTTTCA
52232566 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52232588 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 60 0.65
71 32 0.35
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52232625 original size:71 final size:69
Alignment explanation
Indices: 52232425--52232621 Score: 247
Period size: 70 Copynumber: 2.8 Consensus size: 69
52232415 CGATTTGTCT
* * * *
52232425 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTATC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTATC
52232490 TTTCA
65 TTTCA
* * * *
52232495 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA-TTAT
52232560 CTTTCA
64 CTTTCA
* *
52232566 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52232622 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 61 0.51
71 35 0.29
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTATCT
TTCA
Found at i:52239595 original size:71 final size:71
Alignment explanation
Indices: 52239511--52239672 Score: 324
Period size: 71 Copynumber: 2.3 Consensus size: 71
52239501 CGATTTGTCT
52239511 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52239576 CTTTCA
66 CTTTCA
52239582 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52239647 CTTTCA
66 CTTTCA
52239653 CGTAGCTCTCTTGTCTACAT
1 CGTAGCTCTCTTGTCTACAT
52239673 NCAGATCTGA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52253223 original size:37 final size:35
Alignment explanation
Indices: 52253172--52253271 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 35
52253162 ATAGTCCCCA
* *
52253172 CACATAGTTATCGGGTCTTACCCGGACAAAATCTC
1 CACATAGTCATCGGGTCTTACCCGGACAAAATATC
52253207 CGAACATAGTCATCGGGTCTTACCCGGACAAAATATC
1 C--ACATAGTCATCGGGTCTTACCCGGACAAAATATC
52253244 CACATGTAGTCATCGGGTCTTACCCGGA
1 CACA--TAGTCATCGGGTCTTACCCGGA
52253272 ATACATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
35 4 0.07
37 55 0.93
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (35 bp):
CACATAGTCATCGGGTCTTACCCGGACAAAATATC
Found at i:52253387 original size:48 final size:48
Alignment explanation
Indices: 52253316--52253784 Score: 749
Period size: 48 Copynumber: 9.8 Consensus size: 48
52253306 TGTTACAACA
*
52253316 TTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
52253364 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
52253412 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * *
52253460 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
52253508 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
52253556 TTCACATTCGTCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
52253604 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
52253652 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * * *
52253700 TTCACATTCGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * *
52253748 TTCACATTAGCTATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
52253785 ATTTATCTTG
Statistics
Matches: 389, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 389 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:52256599 original size:43 final size:42
Alignment explanation
Indices: 52256533--52256642 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
52256523 AACAGGTACA
* * *
52256533 ATGCCGATGTCCCAGACGTGGTCTTACATGTAATTC-AGTATCG
1 ATGCCTATGTCCCAGACGTGGTCTTACATG-AAATCAAATA-CG
*
52256576 ATGCCTCTGTCCCAGACAG-GGTCTTACATGAAATCAAATACG
1 ATGCCTATGTCCCAGAC-GTGGTCTTACATGAAATCAAATACG
52256618 ATGCCTATGTCCCA-A--TGGTCTTACA
1 ATGCCTATGTCCCAGACGTGGTCTTACA
52256643 CATAAATCTC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
39 9 0.15
41 1 0.02
42 19 0.32
43 29 0.49
44 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (42 bp):
ATGCCTATGTCCCAGACGTGGTCTTACATGAAATCAAATACG
Found at i:52270001 original size:30 final size:30
Alignment explanation
Indices: 52269967--52270026 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
52269957 CTTTAATACG
* *
52269967 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
52269997 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
52270027 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:52272803 original size:50 final size:50
Alignment explanation
Indices: 52272748--52273041 Score: 306
Period size: 50 Copynumber: 5.8 Consensus size: 50
52272738 ACCGAAGCTC
* *
52272748 TCTGGTACGCATAGTAGCCTGCACTTAGTATTACACATGTGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
52272798 TCTGGTACACATAGTAGCCTGCAATTAGTACTACACAAGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * * * * *
52272848 TCCGATACACGTAGTAGCCTGGA-TATAGTACTACACACGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACT-TAGTACTACACATGTGACCTAA-CAA
* * * **
52272899 TCAGGTACGCATAGTAGCCTGCACTTAGTTCTACACATGCAACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
52272949 TCTGGTACACGTAGTAGCCTGCATTTAGTACTATACATGTGACCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* *
52272998 -CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
52273042 TTCTCACAAT
Statistics
Matches: 199, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 3 0.02
50 125 0.63
51 36 0.18
52 32 0.16
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:52272918 original size:101 final size:101
Alignment explanation
Indices: 52272759--52272990 Score: 270
Period size: 101 Copynumber: 2.3 Consensus size: 101
52272749 CTGGTACGCA
* * * * * *
52272759 TAGTAGCCTGCACT-TAGTATTACACATGTGACCTAA-CAATCTGGTACACATAGTAGCCTGCAA
1 TAGTAGCCTGCA-TATAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCAA
** *
52272822 TTAGTACTACACAAGTGACCTAACCATCCGATACACG
65 TTAGTACTACACAAGCAACCTAACAATCCGATACACG
* * *
52272859 TAGTAGCCTGGATATAGTACTACACACGTGATCGAAGCTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCATATAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCAAT
* * * *
52272924 TAGTTCTACACATGCAACCTAACAATCTGGTACACG
66 TAGTACTACACAAGCAACCTAACAATCCGATACACG
* * *
52272960 TAGTAGCCTGCATTTAGTACTATACATGTGA
1 TAGTAGCCTGCATATAGTACTACACACGTGA
52272991 CCTAAAACTG
Statistics
Matches: 110, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 29 0.26
101 80 0.73
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCATATAGTACTACACACGTGATCGAAGCTATCAGGTACACATAGTAGCCTGCAAT
TAGTACTACACAAGCAACCTAACAATCCGATACACG
Found at i:52298631 original size:15 final size:15
Alignment explanation
Indices: 52298611--52298640 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
52298601 TGTATCAATC
52298611 ATGTTTCACATATAT
1 ATGTTTCACATATAT
52298626 ATGTTTCACATATAT
1 ATGTTTCACATATAT
52298641 GTATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
ATGTTTCACATATAT
Found at i:52300213 original size:56 final size:56
Alignment explanation
Indices: 52300153--52300294 Score: 230
Period size: 56 Copynumber: 2.5 Consensus size: 56
52300143 TCCCAGACAG
* * *
52300153 GGTCTTACTCACACACATATATCAGAGTCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
52300209 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
52300265 GGTCTTACTCGCACATCACATATCGGAATC
1 GGTCTTACTCGCACA-CATATATCAGAATC
52300295 TTATGTCATG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
56 68 0.85
57 12 0.15
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:52300715 original size:12 final size:12
Alignment explanation
Indices: 52300692--52300727 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
52300682 TTTAATTATG
52300692 TTATA-ATA-TA
1 TTATATATATTA
52300702 TTATATATATTA
1 TTATATATATTA
52300714 TTATATATATTA
1 TTATATATATTA
52300726 TT
1 TT
52300728 TACTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.21
11 3 0.12
12 16 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATATATATTA
Done.