Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 223 of 344
Found at i:74092860 original size:17 final size:19
Alignment explanation
Indices: 74092782--74092853 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
74092772 ATAATCTTCA
74092782 ATGATATGCAATCTT-GAT
1 ATGATATGCAATCTTAGAT
74092800 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
74092819 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
74092836 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
74092854 AGATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.33
18 15 0.29
19 19 0.37
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:74092879 original size:22 final size:22
Alignment explanation
Indices: 74092782--74092876 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
74092772 ATAATCTTCA
74092782 ATGATATGCAATCTT----GAT
1 ATGATATGCAATCTTAGAAGAT
74092800 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
74092819 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
74092836 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
74092858 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
74092877 GATTTAATTT
Statistics
Matches: 68, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
17 17 0.25
18 15 0.22
19 16 0.24
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:74093168 original size:18 final size:17
Alignment explanation
Indices: 74093145--74093178 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
74093135 TTTCCCGGAT
*
74093145 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
74093163 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
74093179 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:74101597 original size:78 final size:78
Alignment explanation
Indices: 74101459--74101831 Score: 428
Period size: 78 Copynumber: 4.6 Consensus size: 78
74101449 GAAGAAACAG
* ** * * * * *
74101459 ATTTAGCATCTCCATATTCGACGGAGAGCAGATTGAAGACATAACATATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCATCATTGAAG
74101524 CAGATCCAAGATA
66 CAGATCCAAGATA
* **
74101537 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATATAGTAGATCTGACCATCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCATCATTGAAG
*
74101602 CAGATCCAAGATG
66 CAGATCCAAGATA
*
74101615 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGAACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTG-ACCATCATTGAA
*
74101679 GCAGATCCAAGATG
65 GCAGATCCAAGATA
*
74101693 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATGTGTT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGA-C--CA------
*
74101758 TACATCGAAGCAGATCCAAGATGACA
57 T-CATTGAAGCAGATCCAAGAT---A
* *
74101784 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCG--GAGATAACAGAT
1 -ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT
74101832 TTGGCATCTC
Statistics
Matches: 256, Mismatches: 23, Indels: 20
0.86 0.08 0.07
Matches are distributed among these distances:
77 2 0.01
78 186 0.73
79 3 0.01
81 1 0.00
87 1 0.00
88 19 0.07
90 11 0.04
92 33 0.13
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCATCATTGAAG
CAGATCCAAGATA
Found at i:74101845 original size:45 final size:45
Alignment explanation
Indices: 74101692--74101952 Score: 253
Period size: 45 Copynumber: 5.8 Consensus size: 45
74101682 GATCCAAGAT
* *
74101692 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCG--GAGATAACA
* * * * * * ** *
74101739 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGGAGATAACA
*
74101784 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGGAGATAACA
* *
74101829 GATTTGGCATCTCTGTATTAGACGGGGAGCAGAT-TGA-AAAAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGGAGATAA-CA
* * * *
74101873 GATTTGGCGTCTCTGTATTAGACGGGGAGTAGATCGAAGGTAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGGAGATAACA
* *
74101918 GATTTGGCGTCTCTGTATTAGATGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
74101953 AAAGATAGCA
Statistics
Matches: 174, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
43 4 0.02
44 40 0.23
45 100 0.57
46 6 0.03
47 19 0.11
48 4 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGGAGATAACA
Found at i:74101898 original size:89 final size:89
Alignment explanation
Indices: 74101782--74101951 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
74101772 TCCAAGATGA
*
74101782 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
74101847 TAGACGGGGAGCAGATTGAAAAAG
66 TAGACGGGGAGCAGATTGAAAAAG
* * * * *
74101871 CAGATTTGGCGTCTCTGTATTAGACGGGGAGTAGATCGAAGGTAACAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
*
74101936 TAGATGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
74101952 CAAAGATAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.26
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAAAAG
Found at i:74102329 original size:17 final size:19
Alignment explanation
Indices: 74102307--74102349 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
74102297 ATGGAAATAT
74102307 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
74102324 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
74102343 AATCTTA
1 AATCTTA
74102350 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:74102339 original size:19 final size:19
Alignment explanation
Indices: 74102315--74102351 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
74102305 ATAATCTTCA
74102315 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
74102334 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
74102352 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:74102377 original size:22 final size:22
Alignment explanation
Indices: 74102315--74102374 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
74102305 ATAATCTTCA
74102315 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
74102334 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
74102356 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
74102375 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:74102665 original size:17 final size:17
Alignment explanation
Indices: 74102641--74102675 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74102631 TGTTTCCTGG
*
74102641 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
74102659 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
74102676 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:74104324 original size:34 final size:34
Alignment explanation
Indices: 74104285--74104382 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
74104275 TCTGATATGT
74104285 TATGACATTTTGATATGGTATATGTTTCTGAAAA
1 TATGACATTTTGATATGGTATATGTTTCTGAAAA
* * **
74104319 TATGACATTTTGATCTAGTATATGTTTCTGGGAA
1 TATGACATTTTGATATGGTATATGTTTCTGAAAA
* **
74104353 TATGACATTTTGATTTGACATATGTTTCTG
1 TATGACATTTTGATATGGTATATGTTTCTG
74104383 GTAATGTGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (34 bp):
TATGACATTTTGATATGGTATATGTTTCTGAAAA
Found at i:74105179 original size:19 final size:19
Alignment explanation
Indices: 74105157--74105219 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
74105147 TGGCATTCTC
74105157 TCATATTTTTGGTACATCA
1 TCATATTTTTGGTACATCA
74105176 TCATA-TTTT--TACATCA
1 TCATATTTTTGGTACATCA
* * *
74105192 TCATATTATCGGTACATAA
1 TCATATTTTTGGTACATCA
74105211 TCAT-TTTTT
1 TCATATTTTT
74105220 TTTACACTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
16 12 0.33
17 2 0.06
18 7 0.19
19 15 0.42
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (19 bp):
TCATATTTTTGGTACATCA
Found at i:74105325 original size:16 final size:17
Alignment explanation
Indices: 74105289--74105326 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
74105279 TTTTGTATTC
*
74105289 CCTCATATTTTTATGCAT
1 CCTCATATATTTA-GCAT
74105307 CCTCATATATTTA-CAT
1 CCTCATATATTTAGCAT
74105323 CCTC
1 CCTC
74105327 GTAACTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.45
Consensus pattern (17 bp):
CCTCATATATTTAGCAT
Found at i:74105714 original size:20 final size:20
Alignment explanation
Indices: 74105689--74105730 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
74105679 TCTCATAATG
*
74105689 GTACTTCCTCAAAATTTTTT
1 GTACTTACTCAAAATTTTTT
* *
74105709 GTACTTACTTAAATTTTTTT
1 GTACTTACTCAAAATTTTTT
74105729 GT
1 GT
74105731 TATTTTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (20 bp):
GTACTTACTCAAAATTTTTT
Found at i:74106070 original size:40 final size:38
Alignment explanation
Indices: 74105989--74106070 Score: 87
Period size: 40 Copynumber: 2.1 Consensus size: 38
74105979 TTGTACTTTC
* * *
74105989 TTTTATTTTTTTATATTCTCTCAATTTTTTTGGTATTT
1 TTTTATTTTTTTATATTCTCTCAAATTTTTTGATATAT
74106027 TTTTCATTTTTTTAATATATC-CTCAAAATTTTTT-ATATAT
1 TTTT-ATTTTTTT-ATAT-TCTCTC-AAATTTTTTGATATAT
74106067 TTTT
1 TTTT
74106071 GAAATGATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
38 4 0.11
39 8 0.22
40 15 0.41
41 10 0.27
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (38 bp):
TTTTATTTTTTTATATTCTCTCAAATTTTTTGATATAT
Found at i:74108020 original size:12 final size:12
Alignment explanation
Indices: 74107977--74108020 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
74107967 CATTAACCTG
74107977 AAAAATATTATAT
1 AAAAAT-TTATAT
*
74107990 AAATATATTTATAA
1 AAA-A-ATTTATAT
74108004 AAAAATTTATAT
1 AAAAATTTATAT
74108016 AAAAA
1 AAAAA
74108021 CTAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 12 0.44
13 4 0.15
14 9 0.33
15 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAATTTATAT
Found at i:74113251 original size:49 final size:49
Alignment explanation
Indices: 74113182--74113496 Score: 288
Period size: 49 Copynumber: 6.6 Consensus size: 49
74113172 CAAGTACCCG
*
74113182 GGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCAGGCCACCTA
1 GGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCTA
* ** * * * *
74113231 GGATGAG-AGAATATGTAAATAGTGAAAATTATCGTTGTCGGGTCACTTG
1 GGATG-GTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCTA
* * * * *
74113280 GGATGGTGGAATATGCAAATAGAGAAAATCATCATGGTCGGGCCA-ATA
1 GGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCTA
* * ** *
74113328 GGTATGGTAGAATATGCAAATAGTG--AACTATCGTTAACGAGCCAACC-A
1 GG-ATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCC-ACCTA
* * * * *
74113376 GGATGGTAGAATACGTAAATAGTGAAAACCATCATTTTCGGGTCATCTA
1 GGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCTA
* * *
74113425 GGATGGTAGAATATACAAATAGTGAAAACTATCATTATC--G--ACCTA
1 GGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCTA
* *
74113470 GGATGGTAGACTATACAAATAGTGAAA
1 GGATGGTAGAATATGCAAATAGTGAAA
74113497 GTAATCATTG
Statistics
Matches: 215, Mismatches: 43, Indels: 20
0.77 0.15 0.07
Matches are distributed among these distances:
45 30 0.14
47 32 0.15
48 10 0.05
49 142 0.66
50 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.25
Consensus pattern (49 bp):
GGATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCGGGCCACCTA
Found at i:74113459 original size:145 final size:146
Alignment explanation
Indices: 74113184--74113452 Score: 341
Period size: 145 Copynumber: 1.8 Consensus size: 146
74113174 AGTACCCGGG
** *
74113184 ATGGTAGAATATGCAAATAGTGAAAACCATCATTGTCAGGCCACCTAGGATGAGAGAATATGTAA
1 ATGGTAGAATATGCAAATAGTG-AAACCATCATTAACAGGCCACCTAGGATGAGAGAATACGTAA
** * * * *
74113249 ATAGTGAAAATTATCGTTGTCGGGTCACTTGGGATGGTGGAATATGCAAATAGAGAAAATCATCA
65 ATAGTGAAAACCATCATTGTCGGGTCACTTAGGATGGTAGAATATACAAATAGAGAAAATCATCA
74113314 TGGTCGGGCCAATAGGT
130 TGGTCGGGCCAATAGGT
* *
74113331 ATGGTAGAATATGCAAATAGTG-AACTATCGTTAAC-GAGCCAACC-AGGATG-GTAGAATACGT
1 ATGGTAGAATATGCAAATAGTGAAACCATCATTAACAG-GCC-ACCTAGGATGAG-AGAATACGT
* *
74113392 AAATAGTGAAAACCATCATTTTCGGGTCA-TCTAGGATGGTAGAATATACAAATAGTGAAAA
63 AAATAGTGAAAACCATCATTGTCGGGTCACT-TAGGATGGTAGAATATACAAATAGAGAAAA
74113453 CTATCATTAT
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
144 3 0.03
145 77 0.73
146 3 0.03
147 22 0.21
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (146 bp):
ATGGTAGAATATGCAAATAGTGAAACCATCATTAACAGGCCACCTAGGATGAGAGAATACGTAAA
TAGTGAAAACCATCATTGTCGGGTCACTTAGGATGGTAGAATATACAAATAGAGAAAATCATCAT
GGTCGGGCCAATAGGT
Found at i:74115011 original size:27 final size:27
Alignment explanation
Indices: 74114959--74115050 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
74114949 TAAACATGAC
* *
74114959 ATAAAAGAATAA-CTTCTATGGTGAACT
1 ATAAAAGAATAACCTT-TGTGGCGAACT
*
74114986 ATGAAAGAATAACCTTTGTGGCGAACT
1 ATAAAAGAATAACCTTTGTGGCGAACT
* * *
74115013 AAAAAAGAATAACCTTCGTGGCAAACT
1 ATAAAAGAATAACCTTTGTGGCGAACT
*
74115040 CTAAAAGAATA
1 ATAAAAGAATA
74115051 GTTGTAACAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 52 0.95
28 3 0.05
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (27 bp):
ATAAAAGAATAACCTTTGTGGCGAACT
Found at i:74117211 original size:27 final size:25
Alignment explanation
Indices: 74117182--74117230 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
74117172 CCCCCCCAAA
74117182 AAAAACCTAACCCAAAAAAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAG
**
74117207 AAAAACCTAACCCCCAAAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAA
74117231 CCAAGAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.69, C:0.24, G:0.02, T:0.04
Consensus pattern (25 bp):
AAAAACCTAACCCAAAAAAAAAAAG
Found at i:74117239 original size:27 final size:25
Alignment explanation
Indices: 74117182--74117240 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
74117172 CCCCCCCAAA
*
74117182 AAAAACCTAACCCAAAAAAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAC
* *
74117207 AAAAACCTAACCCCCAAAAAAAAACC
1 AAAAACCTAA-CCCAAAAAAAAAAAC
74117233 AAGAAACC
1 AA-AAACC
74117241 CTAGCCACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 10 0.34
26 14 0.48
27 5 0.17
ACGTcount: A:0.66, C:0.27, G:0.03, T:0.03
Consensus pattern (25 bp):
AAAAACCTAACCCAAAAAAAAAAAC
Found at i:74117900 original size:19 final size:18
Alignment explanation
Indices: 74117876--74117918 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
74117866 ATTATATTAG
*
74117876 TGTATATTTTATGTACATA
1 TGTATA-TTAATGTACATA
74117895 TGTATA-TAATGTACATA
1 TGTATATTAATGTACATA
74117912 TGTATAT
1 TGTATAT
74117919 ATATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 16 0.73
19 6 0.27
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (18 bp):
TGTATATTAATGTACATA
Found at i:74117906 original size:17 final size:17
Alignment explanation
Indices: 74117886--74117919 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
74117876 TGTATATTTT
74117886 ATGTACATATGTATATA
1 ATGTACATATGTATATA
74117903 ATGTACATATGTATATA
1 ATGTACATATGTATATA
74117920 TATATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
ATGTACATATGTATATA
Found at i:74119756 original size:16 final size:16
Alignment explanation
Indices: 74119737--74119772 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
74119727 TATGTATGAA
74119737 ATGTGGTAATGTTTCC
1 ATGTGGTAATGTTTCC
74119753 ATGTGGTAATGTTTCC
1 ATGTGGTAATGTTTCC
74119769 ATGT
1 ATGT
74119773 TTAGGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.44
Consensus pattern (16 bp):
ATGTGGTAATGTTTCC
Found at i:74119887 original size:22 final size:20
Alignment explanation
Indices: 74119846--74119887 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
74119836 TGGTTCATTG
*
74119846 AATTGGTTTTTTTATGCTTT
1 AATTGGTTTTTTGATGCTTT
74119866 AATTGGTTTGTTTAGATGCTTT
1 AATTGGTTT-TTT-GATGCTTT
74119888 GGTTAAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.60
Consensus pattern (20 bp):
AATTGGTTTTTTGATGCTTT
Found at i:74129724 original size:25 final size:26
Alignment explanation
Indices: 74129676--74129724 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
74129666 AAATTATGGC
*
74129676 TTCAAACACAAACATATACTTATATT
1 TTCAAACACAAACATACACTTATATT
74129702 TTCAAAC-C-AACATTACACTTATA
1 TTCAAACACAAACA-TACACTTATA
74129725 ACTCAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 10 0.48
26 7 0.33
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (26 bp):
TTCAAACACAAACATACACTTATATT
Found at i:74131830 original size:26 final size:26
Alignment explanation
Indices: 74131801--74131908 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
74131791 TGGTACAAAT
74131801 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
74131827 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
74131853 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
74131879 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74131905 TGAT
1 TGAT
74131909 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:74135974 original size:41 final size:40
Alignment explanation
Indices: 74135898--74136146 Score: 311
Period size: 41 Copynumber: 6.1 Consensus size: 40
74135888 GCAAAAATTG
* **
74135898 TAAAACACAGAGCAATAGCGGCG-TTTTGACAAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTG-GTAAAACGCCGC
* * * *
74135939 TAAAAACTGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGC
* *
74135980 CAAAAACAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
74136020 TAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
1 TAAA-AACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
74136061 TAAAAACCAGAGCATTAGCAGTGCTTTTGGTAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
74136102 TAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-AACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
74136143 TAAA
1 TAAA
74136147 TACCAAAGTA
Statistics
Matches: 183, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
40 35 0.19
41 142 0.78
42 6 0.03
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:74136870 original size:21 final size:21
Alignment explanation
Indices: 74136845--74136891 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
74136835 GTATATATAT
*
74136845 GTTTATGGTCTAGGATTTAGG
1 GTTTATGGTCTAAGATTTAGG
* *
74136866 GTTTATGGTTTAAGATTTGGG
1 GTTTATGGTCTAAGATTTAGG
74136887 GTTTA
1 GTTTA
74136892 ATTTTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (21 bp):
GTTTATGGTCTAAGATTTAGG
Found at i:74137315 original size:7 final size:7
Alignment explanation
Indices: 74137303--74137364 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
74137293 AATATTCAAA
74137303 AAAATTT
1 AAAATTT
74137310 AAAATTT
1 AAAATTT
**
74137317 AAAAATAAA
1 -AAAAT-TT
**
74137326 AAAATAA
1 AAAATTT
**
74137333 AAAATAA
1 AAAATTT
74137340 AAAATTT
1 AAAATTT
74137347 AAAATTT
1 AAAATTT
74137354 AAAATTT
1 AAAATTT
74137361 AAAA
1 AAAA
74137365 ATAAAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
7 39 0.80
8 10 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATTT
Found at i:74137321 original size:8 final size:8
Alignment explanation
Indices: 74137276--74137393 Score: 77
Period size: 8 Copynumber: 14.9 Consensus size: 8
74137266 TTTATATGTT
74137276 AATTTAAA
1 AATTTAAA
74137284 AATTATAAA
1 AATT-TAAA
74137293 AATATTCAAAAA
1 AAT-TT---AAA
74137305 AATTT-AA
1 AATTTAAA
74137312 AATTTAAA
1 AATTTAAA
74137320 AA--TAAA
1 AATTTAAA
**
74137326 AAAATAAA
1 AATTTAAA
* *
74137334 AAATAAAA
1 AATTTAAA
74137342 AATTT-AA
1 AATTTAAA
74137349 AATTT-AA
1 AATTTAAA
74137356 AATTTAAA
1 AATTTAAA
*
74137364 AA-TAAAA
1 AATTTAAA
* *
74137371 AAATAAAA
1 AATTTAAA
*
74137379 AACTTAAA
1 AATTTAAA
74137387 AATTTAA
1 AATTTAA
74137394 TATTTAATAT
Statistics
Matches: 92, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
6 6 0.07
7 27 0.29
8 42 0.46
9 8 0.09
10 1 0.01
11 2 0.02
12 6 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
AATTTAAA
Found at i:74137327 original size:14 final size:15
Alignment explanation
Indices: 74137310--74137393 Score: 89
Period size: 15 Copynumber: 5.6 Consensus size: 15
74137300 AAAAAAATTT
74137310 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
* *
74137325 AAAAATAAAAAATAA
1 AAAATTTAAAAATAA
**
74137340 AAAATTT-AAAATTT
1 AAAATTTAAAAATAA
74137354 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
* * *
74137369 AAAAATAAAAAACTTA
1 AAAATTTAAAAA-TAA
74137385 AAAATTTAA
1 AAAATTTAA
74137394 TATTTAATAT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
14 12 0.22
15 33 0.61
16 9 0.17
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTAAAAATAA
Found at i:74137351 original size:37 final size:38
Alignment explanation
Indices: 74137301--74137393 Score: 136
Period size: 37 Copynumber: 2.5 Consensus size: 38
74137291 AAAATATTCA
74137301 AAAAAATTTAAAATTTAAAAATAAAAAAAT-AAAAAAT
1 AAAAAATTTAAAATTTAAAAATAAAAAAATAAAAAAAT
**
74137338 AAAAAATTTAAAATTT-AAAATTTAAAAATAAAAAAAT
1 AAAAAATTTAAAATTTAAAAATAAAAAAATAAAAAAAT
*
74137375 AAAAAACTTAAAAATTTAA
1 AAAAAA-TTTAAAATTTAA
74137394 TATTTAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 11 0.22
37 29 0.58
38 9 0.18
39 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (38 bp):
AAAAAATTTAAAATTTAAAAATAAAAAAATAAAAAAAT
Found at i:74137352 original size:44 final size:45
Alignment explanation
Indices: 74137303--74137405 Score: 172
Period size: 44 Copynumber: 2.3 Consensus size: 45
74137293 AATATTCAAA
74137303 AAAATTTAAAATTTAAAAATAAAAAAATAAAAAA-TAAAAAATTT
1 AAAATTTAAAATTTAAAAATAAAAAAATAAAAAACTAAAAAATTT
*
74137347 AAAATTTAAAATTTAAAAATAAAAAAATAAAAAACTTAAAAATTT
1 AAAATTTAAAATTTAAAAATAAAAAAATAAAAAACTAAAAAATTT
* *
74137392 AATATTTAATATTT
1 AAAATTTAAAATTT
74137406 TAATTCATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 34 0.62
45 21 0.38
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (45 bp):
AAAATTTAAAATTTAAAAATAAAAAAATAAAAAACTAAAAAATTT
Found at i:74137371 original size:7 final size:7
Alignment explanation
Indices: 74137317--74137380 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
74137307 TTTAAAATTT
74137317 AAAAATAA
1 AAAAAT-A
74137325 AAAAATA
1 AAAAATA
74137332 AAAAATA
1 AAAAATA
*
74137339 AAAAATTT
1 AAAAA-TA
* *
74137347 AAAATTT
1 AAAAATA
* *
74137354 AAAATTT
1 AAAAATA
74137361 AAAAATAA
1 AAAAAT-A
74137369 AAAAATA
1 AAAAATA
74137376 AAAAA
1 AAAAA
74137381 CTTAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
7 33 0.66
8 17 0.34
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAAATA
Found at i:74137508 original size:16 final size:17
Alignment explanation
Indices: 74137452--74137496 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
74137442 ATTTAAAAAT
74137452 AAATAAAAAAATGTTAA
1 AAATAAAAAAATGTTAA
74137469 AAATAAAAAAATGTTAA
1 AAATAAAAAAATGTTAA
74137486 AAATAAAAAAA
1 AAATAAAAAAA
74137497 ATTAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (17 bp):
AAATAAAAAAATGTTAA
Found at i:74140586 original size:12 final size:12
Alignment explanation
Indices: 74140569--74140593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74140559 ATGTTGGCTG
74140569 TTTTTATTTATT
1 TTTTTATTTATT
74140581 TTTTTATTTATT
1 TTTTTATTTATT
74140593 T
1 T
74140594 ATGAATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:74141057 original size:21 final size:21
Alignment explanation
Indices: 74141012--74141057 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
74141002 CATTTCATTG
*
74141012 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
74141033 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
74141054 TGTT
1 TGTT
74141058 GTCAGCATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:74142657 original size:43 final size:43
Alignment explanation
Indices: 74142604--74142750 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 43
74142594 TTTTAAAATT
* * * *
74142604 TCATTACCTTTAGCGGCGTTTTTAGGTAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * *
74142647 TCGTGACCTTTAGC-G-G--TGTGGGAAAAAGTGTCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGG
*
74142687 TCAAGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* *
74142730 TCATAACCTTTAGTGGCGTTT
1 TCATGACCTTTAGCGGCGTTT
74142751 TTTTTAAATA
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
39 4 0.05
40 26 0.31
41 2 0.02
42 2 0.02
43 45 0.53
44 6 0.07
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:74146910 original size:26 final size:26
Alignment explanation
Indices: 74146881--74146988 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
74146871 TGATACAAAT
74146881 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
74146907 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
74146933 TGATAATGGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
74146959 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74146985 TGAT
1 TGAT
74146989 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:74153357 original size:22 final size:23
Alignment explanation
Indices: 74153310--74153358 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
74153300 TAAGATACAT
*
74153310 TTTTTTATCATTAAAAATAACTA
1 TTTTTTATCATTAAAAATAACAA
*
74153333 TTTTTTAT-ATTTAAAATTAA-AA
1 TTTTTTATCA-TTAAAAATAACAA
74153355 TTTT
1 TTTT
74153359 AAATAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTTTATCATTAAAAATAACAA
Found at i:74154854 original size:21 final size:22
Alignment explanation
Indices: 74154817--74154872 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
74154807 GATTTCTTAA
* *
74154817 ATATAAATAATTATTTATTT-T
1 ATATAAATATTTGTTTATTTAT
74154838 ATATAAATATTTGTTTATTTAT
1 ATATAAATATTTGTTTATTTAT
*
74154860 ATATATATATTTG
1 ATATAAATATTTG
74154873 CTAACGTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
ATATAAATATTTGTTTATTTAT
Found at i:74157247 original size:19 final size:21
Alignment explanation
Indices: 74157203--74157246 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
74157193 GGAATAACAC
*
74157203 AAAATATGATGTGAGTACCAA
1 AAAATATGATGTAAGTACCAA
74157224 AAAATATGATG-AAGTACCAA
1 AAAATATGATGTAAGTACCAA
74157244 AAA
1 AAA
74157247 TTATAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (21 bp):
AAAATATGATGTAAGTACCAA
Found at i:74157312 original size:17 final size:18
Alignment explanation
Indices: 74157280--74157314 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
74157270 ATTCTTCTTA
74157280 TAAAATTTACTTTATTTTT
1 TAAAATTTA-TTTATTTTT
74157299 TAAAATTT-TTTATTTT
1 TAAAATTTATTTATTTT
74157315 ATAGTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TAAAATTTATTTATTTTT
Found at i:74157472 original size:20 final size:21
Alignment explanation
Indices: 74157438--74157494 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
74157428 TGCCTTACGA
*
74157438 GAAAATACT-AAAATTATG-G
1 GAAAATATTAAAAATTATGAG
74157457 GAAAATATTAAAAATTATGAG
1 GAAAATATTAAAAATTATGAG
* *
74157478 G-AATTATTAATAATTAT
1 GAAAATATTAAAAATTAT
74157495 TAAAAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.24
20 23 0.70
21 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (21 bp):
GAAAATATTAAAAATTATGAG
Found at i:74159523 original size:18 final size:18
Alignment explanation
Indices: 74159492--74159526 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
74159482 TATTTGAATA
74159492 AAAATATTAGAAAATTTC
1 AAAATATTAGAAAATTTC
* *
74159510 AAAATTTTATAAAATTT
1 AAAATATTAGAAAATTT
74159527 TTCAAAAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATATTAGAAAATTTC
Found at i:74160387 original size:16 final size:15
Alignment explanation
Indices: 74160368--74160404 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
74160358 AAATAATCAC
74160368 AAATATTAACATTTTA
1 AAATATT-ACATTTTA
*
74160384 AAATAGTACATTTTA
1 AAATATTACATTTTA
74160399 AAATAT
1 AAATAT
74160405 CTTAATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATATTACATTTTA
Found at i:74164419 original size:49 final size:49
Alignment explanation
Indices: 74164362--74164662 Score: 325
Period size: 49 Copynumber: 6.1 Consensus size: 49
74164352 ATATAGTGAT
* *
74164362 TGAAAACCATCGTTGTTGGGCCACTCAAGATGGTAGAATATGCAAATAG
1 TGAAAACCATCATTGTCGGGCCACTCAAGATGGTAGAATATGCAAATAG
* * *
74164411 TGAAAACCATTATTGTCGGGCCACCCAAGATGGTAGAATATGTAAATAG
1 TGAAAACCATCATTGTCGGGCCACTCAAGATGGTAGAATATGCAAATAG
* * ** **
74164460 TGAAAACTATCATTATCAAGCCAC-CTGGGATGGTAGAATATGCAAATAG
1 TGAAAACCATCATTGTCGGGCCACTC-AAGATGGTAGAATATGCAAATAG
* * * * * ***
74164509 TAAAAACCATTATTGTCGGACCACCCAGGATGGTAGAATACATAAATAG
1 TGAAAACCATCATTGTCGGGCCACTCAAGATGGTAGAATATGCAAATAG
* * * ** *
74164558 TGAAAACTATCATTGTCCGGTCACTCGGGATGGTAGACTATGCAAATAG
1 TGAAAACCATCATTGTCGGGCCACTCAAGATGGTAGAATATGCAAATAG
* * * *
74164607 TGGAAACCATCATTGTCGGGCCATTCGAGATGATAGAATATGCAAATAG
1 TGAAAACCATCATTGTCGGGCCACTCAAGATGGTAGAATATGCAAATAG
74164656 TGAAAAC
1 TGAAAAC
74164663 TATTATTTTT
Statistics
Matches: 205, Mismatches: 45, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
48 1 0.00
49 203 0.99
50 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (49 bp):
TGAAAACCATCATTGTCGGGCCACTCAAGATGGTAGAATATGCAAATAG
Found at i:74164533 original size:98 final size:98
Alignment explanation
Indices: 74164381--74164743 Score: 404
Period size: 98 Copynumber: 3.7 Consensus size: 98
74164371 TCGTTGTTGG
**
74164381 GCCACTCAAGATGGTAGAATATGCAAATAGTGAAAACCATTATTGTCGGGCCACCCAAGATGGTA
1 GCCACTCGGGATGGTAGAATATGCAAATAGTGAAAACCATTATTGTCGGGCCACCCAAGATGGTA
74164446 GAATATGTAAATAGTGAAAACTATCATTATCAA
66 GAATATGTAAATAGTGAAAACTATCATTATCAA
* * *
74164479 GCCAC-CTGGGATGGTAGAATATGCAAATAGTAAAAACCATTATTGTCGGACCACCCAGGATGGT
1 GCCACTC-GGGATGGTAGAATATGCAAATAGTGAAAACCATTATTGTCGGGCCACCCAAGATGGT
** * **
74164543 AGAATACATAAATAGTGAAAACTATCATTGTCCG
65 AGAATATGTAAATAGTGAAAACTATCATTATCAA
* * * * ** * *
74164577 GTCACTCGGGATGGTAGACTATGCAAATAGTGGAAACCATCATTGTCGGGCCATTCGAGATGATA
1 GCCACTCGGGATGGTAGAATATGCAAATAGTGAAAACCATTATTGTCGGGCCACCCAAGATGGTA
* * * **
74164642 GAATATGCAAATAGTGAAAACTATTATTTTTGA
66 GAATATGTAAATAGTGAAAACTATCATTATCAA
* * * * * * * * * **
74164675 GCCACTGGGGATGGTAGAATATGTAGATAATGAAAGCAATTGTTGCCGGGCCAACCGTGATGGTA
1 GCCACTCGGGATGGTAGAATATGCAAATAGTGAAAACCATTATTGTCGGGCCACCCAAGATGGTA
74164740 GAAT
66 GAAT
74164744 GTACAAGTTC
Statistics
Matches: 218, Mismatches: 45, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
97 1 0.00
98 216 0.99
99 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (98 bp):
GCCACTCGGGATGGTAGAATATGCAAATAGTGAAAACCATTATTGTCGGGCCACCCAAGATGGTA
GAATATGTAAATAGTGAAAACTATCATTATCAA
Found at i:74164693 original size:49 final size:48
Alignment explanation
Indices: 74164362--74164697 Score: 314
Period size: 49 Copynumber: 6.9 Consensus size: 48
74164352 ATATAGTGAT
* * **
74164362 TGAAAACCATCGTTGTTGGGCCACTCAAGATGGTAGAATATGCAAATAG
1 TGAAAACCATCATTG-TCGGCCACTCGGGATGGTAGAATATGCAAATAG
* * ** *
74164411 TGAAAACCATTATTGTCGGGCCACCCAAGATGGTAGAATATGTAAATAG
1 TGAAAACCATCATTGTC-GGCCACTCGGGATGGTAGAATATGCAAATAG
* * *
74164460 TGAAAACTATCATTATCAAGCCAC-CTGGGATGGTAGAATATGCAAATAG
1 TGAAAACCATCATTGTC-GGCCACTC-GGGATGGTAGAATATGCAAATAG
* * * * ***
74164509 TAAAAACCATTATTGTCGGACCACCCAGGATGGTAGAATACATAAATAG
1 TGAAAACCATCATTGTCGG-CCACTCGGGATGGTAGAATATGCAAATAG
* * *
74164558 TGAAAACTATCATTGTCCGGTCACTCGGGATGGTAGACTATGCAAATAG
1 TGAAAACCATCATTGT-CGGCCACTCGGGATGGTAGAATATGCAAATAG
* * * *
74164607 TGGAAACCATCATTGTCGGGCCATTCGAGATGATAGAATATGCAAATAG
1 TGAAAACCATCATTGTC-GGCCACTCGGGATGGTAGAATATGCAAATAG
* * * * *
74164656 TGAAAACTATTATTTTTGAGCCACTGGGGATGGTAGAATATG
1 TGAAAACCATCATTGTCG-GCCACTCGGGATGGTAGAATATG
74164698 TAGATAATGA
Statistics
Matches: 232, Mismatches: 48, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
48 5 0.02
49 223 0.96
50 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (48 bp):
TGAAAACCATCATTGTCGGCCACTCGGGATGGTAGAATATGCAAATAG
Found at i:74164709 original size:147 final size:147
Alignment explanation
Indices: 74164390--74164709 Score: 347
Period size: 147 Copynumber: 2.2 Consensus size: 147
74164380 GGCCACTCAA
* * * *
74164390 GATGGTAGAATATGCAAATAGTGAAAACCATTATTGTCGGGCCACCCAAGATGGTAGAATATGTA
1 GATGGTAGAATATGTAAATAGTGAAAACCATCATTGTCCGGCCACCCAAGATGGTAGAATATGCA
* * *
74164455 AATAGTGAAAACTATCATTATCAAGCCACCTGGGATGGTAGAATATGCAAATAGTAAAAACCATT
66 AATAGTGAAAACCATCATTATCAAGCCACCTGAGATGATAGAATATGCAAATAGTAAAAACCATT
74164520 ATTGTCGGACCACCCAG
131 ATTGTCGGACCACCCAG
** * * * ** *
74164537 GATGGTAGAATACATAAATAGTGAAAACTATCATTGTCCGGTCACTCGGGATGGTAGACTATGCA
1 GATGGTAGAATATGTAAATAGTGAAAACCATCATTGTCCGGCCACCCAAGATGGTAGAATATGCA
* * ** * * *
74164602 AATAGTGGAAACCATCATTGTCGGGCCA-TTCGAGATGATAGAATATGCAAATAGTGAAAACTAT
66 AATAGTGAAAACCATCATTATCAAGCCACCT-GAGATGATAGAATATGCAAATAGTAAAAACCAT
** ***
74164666 TATT-TTTGAGCCACTGGG
130 TATTGTCGGA-CCACCCAG
* *
74164684 GATGGTAGAATATGTAGATAATGAAA
1 GATGGTAGAATATGTAAATAGTGAAA
74164710 GCAATTGTTG
Statistics
Matches: 140, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
146 4 0.03
147 136 0.97
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (147 bp):
GATGGTAGAATATGTAAATAGTGAAAACCATCATTGTCCGGCCACCCAAGATGGTAGAATATGCA
AATAGTGAAAACCATCATTATCAAGCCACCTGAGATGATAGAATATGCAAATAGTAAAAACCATT
ATTGTCGGACCACCCAG
Found at i:74167531 original size:16 final size:16
Alignment explanation
Indices: 74167512--74167547 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
74167502 AGTATTTTTT
*
74167512 AAATTTTGAAAAAATA
1 AAATTTAGAAAAAATA
*
74167528 AAATTTAGTAAAAATA
1 AAATTTAGAAAAAATA
74167544 AAAT
1 AAAT
74167548 AAAATATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AAATTTAGAAAAAATA
Found at i:74168550 original size:9 final size:9
Alignment explanation
Indices: 74168536--74168563 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
74168526 TTTCTCTCCC
74168536 TTTTTCTTT
1 TTTTTCTTT
74168545 TTTTTCTTT
1 TTTTTCTTT
74168554 TTTTTCTTT
1 TTTTTCTTT
74168563 T
1 T
74168564 CTCCCTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:74169780 original size:3 final size:3
Alignment explanation
Indices: 74169772--74169797 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
74169762 GTCATTTTGC
74169772 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
74169798 TCGAACCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:74191529 original size:24 final size:24
Alignment explanation
Indices: 74191494--74191544 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
74191484 AAGTCTGTCA
* **
74191494 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAAGAGCAGATAAG
*
74191518 GGATAGGTTTTAAGAGCAGATAAG
1 GGATAGGATTTAAGAGCAGATAAG
74191542 GGA
1 GGA
74191545 GGAAATCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.25
Consensus pattern (24 bp):
GGATAGGATTTAAGAGCAGATAAG
Found at i:74193060 original size:27 final size:26
Alignment explanation
Indices: 74192959--74193070 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
74192949 AGGAAGCGTC
* *
74192959 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
74192986 CTGGTGGCTTTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
74193013 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
74193041 CTGGTGACTCCGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
74193067 CTGG
1 CTGG
74193071 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:74193065 original size:54 final size:54
Alignment explanation
Indices: 74192959--74193070 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
74192949 AGGAAGCGTC
* ** *
74192959 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCCGCCACATATATCTGTT
* * *
74193013 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCCGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCCGCCACATATATCTGTT
74193067 CTGG
1 CTGG
74193071 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.68
55 16 0.32
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCCGCCACATATATCTGTT
Found at i:74194059 original size:18 final size:17
Alignment explanation
Indices: 74194027--74194068 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
74194017 TTTTTAAGTT
74194027 TGTAA-TTTTTATATTA
1 TGTAATTTTTTATATTA
*
74194043 TGTTATTTTTATATATTA
1 TGTAATTTTT-TATATTA
74194061 TGTAATTT
1 TGTAATTT
74194069 ATAACATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 4 0.18
18 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:74196230 original size:40 final size:41
Alignment explanation
Indices: 74196186--74196272 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 41
74196176 TCAAATACAT
74196186 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
* * * * * *
74196226 TTAAAATAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
*
74196267 ATAAAA
1 TTAAAA
74196273 ATTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 24 0.62
41 15 0.38
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.24
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
Found at i:74199277 original size:40 final size:40
Alignment explanation
Indices: 74199233--74199390 Score: 210
Period size: 40 Copynumber: 4.0 Consensus size: 40
74199223 AAGTGCTACT
* *
74199233 AGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* * *
74199273 AGGGGTATCGAA-TACTAATAGGGGCACGTATGTGCAAAC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* * *
74199312 AGTGGTACCGAAGTACAAATAGGGGCACGTATATGCAATT
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* * *
74199352 AGGGGTACCGAAGTATAAATAGGGGCATGTATGTACAAT
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAT
74199391 AATTCAATAA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 33 0.33
40 68 0.67
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
Found at i:74199374 original size:20 final size:20
Alignment explanation
Indices: 74199315--74199376 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
74199305 TGCAAACAGT
*
74199315 GGTACCGAAGTACAAATAGG
1 GGTACCGAAGTATAAATAGG
* * *
74199335 GGCA-CGTA-TATGCAATTAGG
1 GGTACCGAAGTAT--AAATAGG
74199355 GGTACCGAAGTATAAATAGG
1 GGTACCGAAGTATAAATAGG
74199375 GG
1 GG
74199377 CATGTATGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
18 2 0.06
19 3 0.10
20 20 0.65
21 3 0.10
22 3 0.10
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.19
Consensus pattern (20 bp):
GGTACCGAAGTATAAATAGG
Found at i:74205722 original size:25 final size:27
Alignment explanation
Indices: 74205685--74205738 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
74205675 TCAAACATGC
74205685 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* *
74205711 ATTTCGGT-AATTTTACACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
74205737 AT
1 AT
74205739 AACAGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:74205746 original size:26 final size:25
Alignment explanation
Indices: 74205694--74205750 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
74205684 CATTTAGGTC
* ** *
74205694 AATTTAACCCTAGGGGTATTTCGGT
1 AATTTTACCCTAGGGGTATAACAGT
74205719 AATTTTACACCTAGGGGTATAACAGT
1 AATTTTAC-CCTAGGGGTATAACAGT
74205745 AATTTT
1 AATTTT
74205751 CCACTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (25 bp):
AATTTTACCCTAGGGGTATAACAGT
Found at i:74220192 original size:72 final size:72
Alignment explanation
Indices: 74220066--74220241 Score: 196
Period size: 72 Copynumber: 2.5 Consensus size: 72
74220056 GGCTTGAGTG
* * ** *
74220066 CTGAC-TTGTGTATAAACCCGTGAATAACTCGCTAAGCTAGCATATCATGTTAATGCTTTAAGGT
1 CTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCTAGCATATCATGATAATGCTTTAAGGT
74220130 CCGGGTA
66 CCGGGTA
* **
74220137 CTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGC-AGGCAT-TACATGATAATGCTTTGGG
1 CTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCTA-GCATAT-CATGATAATGCTTTAAG
* *
74220200 GTCTGGGTG
64 GTCCGGGTA
* * *
74220209 CTGACTTTGTGTACAGACCCATGAGTAGCTCAA
1 CTGACTTTGTGTATAAACCCGTGAGTAGCTCAA
74220242 ATGCGGGCAT
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
71 7 0.08
72 82 0.92
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (72 bp):
CTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCTAGCATATCATGATAATGCTTTAAGGT
CCGGGTA
Found at i:74222121 original size:22 final size:22
Alignment explanation
Indices: 74222096--74222152 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
74222086 GTGTCGAAGG
74222096 CACACGGGCGTGTTCCTGAGTC
1 CACACGGGCGTGTTCCTGAGTC
74222118 CACACGGGCGTGTTCCTGAGTC
1 CACACGGGCGTGTTCCTGAGTC
74222140 CACACGGGCGTGT
1 CACACGGGCGTGT
74222153 GACTTTGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.14, C:0.32, G:0.33, T:0.21
Consensus pattern (22 bp):
CACACGGGCGTGTTCCTGAGTC
Found at i:74223238 original size:41 final size:41
Alignment explanation
Indices: 74223177--74223261 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
74223167 TCGAAGCTCG
*
74223177 TCAGAAGTAGGTGCAGGTACTATAGCAAAAGTAGTTGTGAT
1 TCAGAAGTAGGTGCAAGTACTATAGCAAAAGTAGTTGTGAT
*
74223218 TCAGAAGTAGGTGCAAGTACTGTAGCAAAAGTAGTTGTGAT
1 TCAGAAGTAGGTGCAAGTACTATAGCAAAAGTAGTTGTGAT
74223259 TCA
1 TCA
74223262 CCTACTCCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (41 bp):
TCAGAAGTAGGTGCAAGTACTATAGCAAAAGTAGTTGTGAT
Found at i:74224449 original size:6 final size:6
Alignment explanation
Indices: 74224438--74224468 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
74224428 TCAACCACAA
*
74224438 ACATAT ACATAT ACATAT ACATAT CCATAT A
1 ACATAT ACATAT ACATAT ACATAT ACATAT A
74224469 TATAAATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:74226276 original size:27 final size:27
Alignment explanation
Indices: 74226235--74226288 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
74226225 TGTCATGTGA
* *
74226235 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
74226262 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
74226289 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:74226616 original size:49 final size:49
Alignment explanation
Indices: 74226544--74226717 Score: 217
Period size: 49 Copynumber: 3.5 Consensus size: 49
74226534 TGAGGTCACG
* *
74226544 TGTGTAGTACTAAGCGTAGGCTACTACGTGTACCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCA
* ** *
74226593 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCAG-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATT-GGTC-GCA
* * * *
74226643 TGTTTAGAACTAAGTGCAGGCTACTACGTATACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCA
74226692 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
74226718 TGCGTACCAA
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.02
49 63 0.61
50 38 0.37
51 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCA
Found at i:74226707 original size:99 final size:99
Alignment explanation
Indices: 74226536--74226717 Score: 301
Period size: 99 Copynumber: 1.8 Consensus size: 99
74226526 ATCTATTGTG
* * *
74226536 AGGTCACGTGTGTAGTACTAAGCGTAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGAACTAAGCGCAGGCTACTACGTATACCGAATAATTGGTCGCATGTGTAGT
74226601 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
* * * *
74226635 AGGTCAGGTGTTTAGAACTAAGTGCAGGCTACTACGTATACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGAACTAAGCGCAGGCTACTACGTATACCGAATAATTGGTCGCATGTGTAGT
74226700 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
74226718 TGCGTACCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 76 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (99 bp):
AGGTCACGTGTGTAGAACTAAGCGCAGGCTACTACGTATACCGAATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:74228718 original size:13 final size:13
Alignment explanation
Indices: 74228693--74228728 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
74228683 AGTCGTAAGC
74228693 TTTCTCTTC-TTCT
1 TTTCT-TTCTTTCT
74228706 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
74228719 TTTCTTTCTT
1 TTTCTTTCTT
74228729 AATGTTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:74228761 original size:3 final size:3
Alignment explanation
Indices: 74228753--74228797 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
74228743 TTGGTTTTAT
74228753 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
74228798 AATTTAACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:74231931 original size:39 final size:40
Alignment explanation
Indices: 74231825--74232014 Score: 201
Period size: 40 Copynumber: 4.8 Consensus size: 40
74231815 GTTATTTGAA
* *
74231825 TAATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC
1 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTAC
* * *
74231866 CATATT-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 TA-ATTCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTAC
*
74231906 TAATTCCGGGCTAAG-CCCCAAGGCATTTGTGCGAGTTAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* * *
74231945 TAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* *
74231985 T-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
74232015 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
39 38 0.31
40 74 0.60
41 10 0.08
42 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:74232036 original size:79 final size:79
Alignment explanation
Indices: 74231883--74232047 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
74231873 GGACTAAGAT
* * **
74231883 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCCAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCCAAGGCATTTGAACGAGTTACTAA
*
74231948 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
74231962 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCCAAGGCATTTGAACGAGTTA-C
* *
74232025 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
74232041 CCGAAGG
1 CCGAAGG
74232048 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCCAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:74239927 original size:79 final size:81
Alignment explanation
Indices: 74239791--74239975 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
74239781 TTGAATGATG
* *
74239791 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
74239855 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
74239870 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
74239932 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
74239950 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74239976 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:74239989 original size:40 final size:41
Alignment explanation
Indices: 74239791--74239975 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
74239781 TTGAATGATG
* * *
74239791 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
74239831 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
74239871 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
74239910 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
74239951 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74239976 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:74239998 original size:79 final size:79
Alignment explanation
Indices: 74239844--74240008 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
74239834 GGACTAAGAT
* * **
74239844 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
74239909 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* *
74239923 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
74239986 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
74240002 CCGAAGG
1 CCGAAGG
74240009 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:74246715 original size:36 final size:36
Alignment explanation
Indices: 74246695--74246776 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
74246685 GTAATATTGT
*
74246695 TGCTGGTATATTGTTGCTTATGTTGTTATACATGGC
1 TGCTGGTATATTGTTGCTTATGTTGTTATATATGGC
*
74246731 TCCTGGTATATTGTTGCTTATGTTGTTATATATGGC
1 TGCTGGTATATTGTTGCTTATGTTGTTATATATGGC
74246767 TGCTGGTATA
1 TGCTGGTATA
74246777 CATGGCTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.17, C:0.11, G:0.24, T:0.48
Consensus pattern (36 bp):
TGCTGGTATATTGTTGCTTATGTTGTTATATATGGC
Found at i:74266844 original size:23 final size:23
Alignment explanation
Indices: 74266814--74266859 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
74266804 GGGCACAATA
74266814 TCTCGAACTTCCAAATACCGGAT
1 TCTCGAACTTCCAAATACCGGAT
74266837 TCTCGAACTTCCAAATACCGGAT
1 TCTCGAACTTCCAAATACCGGAT
74266860 ATTGACTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (23 bp):
TCTCGAACTTCCAAATACCGGAT
Found at i:74267361 original size:3 final size:3
Alignment explanation
Indices: 74267353--74267573 Score: 80
Period size: 3 Copynumber: 73.7 Consensus size: 3
74267343 GGTGAAAACG
* * * * ** * *
74267353 ATA ATA ATA ATA ATA ATG TTG ATA ATA ATA ATA GTA GGA GTA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
74267401 ATA ATG CTA ATG ATA ATA ATA A-A AGTA ATA ATA AGA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
74267446 TTA GTA TTA ATA ATA ATG ATA ATA GTA ATA GA-A AAA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
74267489 ATA ATA ATA GTA ATA A-A GGTGA A-A ATA ATA GTA ATA ATA ATG GTA
1 ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* *
74267534 A-A TATAA ATA GTA ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA -AT-A ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA AT
74267574 CTAAAGTTTG
Statistics
Matches: 160, Mismatches: 43, Indels: 30
0.69 0.18 0.13
Matches are distributed among these distances:
2 12 0.08
3 137 0.86
4 9 0.06
5 2 0.01
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:74267760 original size:48 final size:46
Alignment explanation
Indices: 74267712--74267802 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 46
74267702 GGTATAAGTA
74267712 AATACAAAAAAAAGAAAATATAATAATAATAG-TAATAAT-ATAATAGT
1 AATA-AAAAAAAAGAAAA-ATAAT-ATAATAGATAATAATAATAATAGT
* * * *
74267759 AATAATAAAAAAGTATAATAATATATTAGATAATAATAATAATA
1 AATAAAAAAAAAGAAAAATAATATAATAGATAATAATAATAATA
74267803 ATAGTGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
44 6 0.16
45 12 0.32
46 16 0.42
47 4 0.11
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (46 bp):
AATAAAAAAAAAGAAAAATAATATAATAGATAATAATAATAATAGT
Found at i:74267848 original size:3 final size:3
Alignment explanation
Indices: 74267731--74267830 Score: 84
Period size: 3 Copynumber: 34.3 Consensus size: 3
74267721 AAAAGAAAAT
* *
74267731 ATA ATA ATA ATA GTA ATA AT- ATA ATA GTA ATA ATA A-A A-A AGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * *
74267773 ATA ATA AT- ATA TTA GATA ATA ATA ATA ATA ATA GTG ATA TTA GTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
74267818 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
74267831 CAACATAATG
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
2 9 0.12
3 67 0.86
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:74270229 original size:21 final size:22
Alignment explanation
Indices: 74270187--74270229 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
74270177 TAAACGAATT
* *
74270187 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
74270209 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
74270230 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:74270257 original size:21 final size:21
Alignment explanation
Indices: 74270233--74270274 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
74270223 TAAATAATTA
74270233 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
74270254 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
74270275 TATGCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
CATGTAAAGAACTATTTTAGG
Found at i:74273166 original size:36 final size:36
Alignment explanation
Indices: 74273126--74273199 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
74273116 AATTAAAGCG
74273126 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
74273162 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
74273198 TT
1 TT
74273200 ACTTATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.22
Consensus pattern (36 bp):
TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
Found at i:74273742 original size:46 final size:46
Alignment explanation
Indices: 74273687--74273780 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
74273677 TATATATAAT
74273687 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
1 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
74273733 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
1 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
74273779 AT
1 AT
74273781 GCATTAATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.31
Consensus pattern (46 bp):
ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
Found at i:74273827 original size:34 final size:36
Alignment explanation
Indices: 74273782--74273864 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 36
74273772 ATGCATAATG
*
74273782 CATTAATATATATGCGCATGAT-T-AATGAAGCAAAA
1 CATT-ATATATATGCGCATAATATAAATGAAGCAAAA
*
74273817 CATTATATATAT--GCATAATATAAATGAAGCTAAA
1 CATTATATATATGCGCATAATATAAATGAAGCAAAA
* *
74273851 CAGTATACATATGC
1 CATTATATATATGC
74273865 ATTATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
32 6 0.15
33 1 0.03
34 29 0.73
35 4 0.10
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (36 bp):
CATTATATATATGCGCATAATATAAATGAAGCAAAA
Found at i:74273865 original size:34 final size:34
Alignment explanation
Indices: 74273805--74273872 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
74273795 GCGCATGATT
* *
74273805 AATGAAGCAAAACATTATATATATGCATAATATA
1 AATGAAGCAAAACAGTATACATATGCATAATATA
* *
74273839 AATGAAGCTAAACAGTATACATATGCATTATATA
1 AATGAAGCAAAACAGTATACATATGCATAATATA
74273873 TATATATGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (34 bp):
AATGAAGCAAAACAGTATACATATGCATAATATA
Found at i:74274007 original size:43 final size:42
Alignment explanation
Indices: 74273917--74274049 Score: 109
Period size: 43 Copynumber: 3.3 Consensus size: 42
74273907 AATTATGATA
* ** **
74273917 TATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
1 TATATATATGCAACTATGCATGACTTAAATGAAGCAAAACAG
* *
74273959 AATATATATGC-ACTATGCGCATGACTTAAATGAAGCAAAACAT
1 TATATATATGCAACTAT--GCATGACTTAAATGAAGCAAAACAG
* *
74274002 TATATATATGC--CT-T-AAT-A-TTAAATGAAGCTAAACAG
1 TATATATATGCAACTATGCATGACTTAAATGAAGCAAAACAG
*
74274038 TATACATATGCA
1 TATATATATGCA
74274050 TTAATATATA
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
36 26 0.34
37 1 0.01
38 2 0.03
41 5 0.07
42 12 0.16
43 30 0.39
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (42 bp):
TATATATATGCAACTATGCATGACTTAAATGAAGCAAAACAG
Found at i:74274024 original size:36 final size:36
Alignment explanation
Indices: 74273984--74274056 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
74273974 TGCGCATGAC
* * *
74273984 TTAAATGAAGCAAAACATTATATATATGCCTTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
74274020 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
74274056 T
1 T
74274057 ATATTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:74274040 original size:184 final size:182
Alignment explanation
Indices: 74273792--74274138 Score: 567
Period size: 188 Copynumber: 1.9 Consensus size: 182
74273782 CATTAATATA
74273792 TATGCGCATGATTAATGAAGCAAAACATTATATATATGCATAATATAAATGAAGCTAAACAGTAT
1 TATGCGCATGATTAATGAAGCAAAACATTATATATATGCATAATATAAATGAAGCTAAACAGTAT
74273857 ACATATGCA-T-TATATA-TATATATGCTT-GCTTAACTCAAGCTAAACCTGCTAATTATGATAT
66 ACATATGCATTATATATATTATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATG--AT
74273918 ATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCAC
129 ATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCAC
*
74273972 TATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACA
1 TATGCGCATGA-TT-AATGAAGCAAAACATTATATATATG-CATAATA-TAAATGAAGCTAAACA
*
74274037 GTATACATATGCATTAATATATATTTATATATGCTTGGCTTAACTCAAGCTAAATCTGCTAATTA
62 GTATACATATGCATT-ATATATA-TTATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTA
*
74274102 TGGTATATATATGCAATTATGCATGACTTAAATGAAG
125 TGATATATATATGCAATTATGCATGACTTAAATGAAG
74274139 CAAAACATTA
Statistics
Matches: 154, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
180 11 0.07
181 2 0.01
182 25 0.16
183 6 0.04
184 29 0.19
185 1 0.01
187 6 0.04
188 34 0.22
189 11 0.07
190 29 0.19
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (182 bp):
TATGCGCATGATTAATGAAGCAAAACATTATATATATGCATAATATAAATGAAGCTAAACAGTAT
ACATATGCATTATATATATTATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATAT
ATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCAC
Found at i:74274136 original size:145 final size:139
Alignment explanation
Indices: 74273955--74274277 Score: 531
Period size: 139 Copynumber: 2.3 Consensus size: 139
74273945 ATGAAGTTAA
* *
74273955 ATGGAATATATATGC-ACTATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAAT
1 ATGGTATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAAT
*
74274019 ATTAAATGAAGCTAAACAGTATACATATGCATTAATATATATTTATATATGCTTGGCTTAACTCA
64 ATTAAATGAAGCTAAACAGTAAACATATGCA-T--TA-ATA--TATATATGCTTGGCTTAACTCA
*
74274084 AGCTAAATCTGCTAATT
123 AGCTAAACCTGCTAATT
74274101 ATGGTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATAT
1 ATGGTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATAT
74274166 TAAATGAAGCTAAACAGTAAACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAAC
66 TAAATGAAGCTAAACAGTAAACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAAC
74274231 CTGCTAATT
131 CTGCTAATT
74274240 ATGGTATATATATGCAATTATGCATGACTTAAATGAAG
1 ATGGTATATATATGCAATTATGCATGACTTAAATGAAG
74274278 TTAAATGGAA
Statistics
Matches: 172, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
139 76 0.44
141 3 0.02
142 2 0.01
144 1 0.01
145 72 0.42
146 14 0.08
147 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (139 bp):
ATGGTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATAT
TAAATGAAGCTAAACAGTAAACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAAC
CTGCTAATT
Found at i:74274171 original size:36 final size:36
Alignment explanation
Indices: 74274129--74274201 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
74274119 TATGCATGAC
* * * *
74274129 TTAAATGAAGCAAAACATTATATATATGCCTTAATA
1 TTAAATGAAGCAAAACAGTAAACATATGCATTAATA
*
74274165 TTAAATGAAGCTAAACAGTAAACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTAAACATATGCATTAATA
74274201 T
1 T
74274202 ATATATGCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTAAACATATGCATTAATA
Found at i:74274277 original size:327 final size:303
Alignment explanation
Indices: 74273797--74274442 Score: 949
Period size: 327 Copynumber: 2.1 Consensus size: 303
74273787 ATATATATGC
*
74273797 GCATGA-TT-AATGAAGCAAAACATTATATATATGCATAATATAAATGAAGCTAAACAGTATACA
1 GCATGACTTAAATGAAGCAAAACATTATATATATGCATAATATAAATGAAGCTAAACAGTAAACA
74273860 TATGCATTATATATATATATGCTTGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATATA
66 TATGCATTATATATATATATGCTTGCTTAACTCAAGCTAAACCTGCTAATTATGA-ATATATATA
74273925 TGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCACTATGCGCATGACTTAAAT
130 TGCAATTATGCATGACTTAAATGAAGTTAAATGGAA-ATATATGCACTATGCGCATGACTTAAA-
*
74273990 GAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATACATATGCATTAAT
193 -AA--AAAACATTA-ATATATG-ATTAATA-TAAATGAAGCTAAACA-TATACATA-GC------
* **
74274055 ATATATTTATATATGCTTGGCTTAACTCAAGCTAAATCTGCTAATTATGGTATATATATGCAATT
244 AT-TA--TATATATGC--GGCTT-ACTCAAGCT-AACCTGAAAATTATGGTATATATATGCAATT
74274120 AT
302 AT
*
74274122 GCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTAAA
1 GCATGACTTAAATGAAGCAAAACATTATATATATG-CATAATA-TAAATGAAGCTAAACAGTAAA
*
74274187 CATATGCATTA-ATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATG-GTATATA
64 CATATGCATTATATATATATATGCTT-GCTTAACTCAAGCTAAACCTGCTAATTATGAATATATA
*
74274250 TATGCAATTATGCATGACTTAAATGAAGTTAAATGGAAATATATGCATTATGCGCATGACTTAAA
128 TATGCAATTATGCATGACTTAAATGAAGTTAAATGGAAATATATGCACTATGCGCATGACTTAAA
74274315 AAAAAACATTAATATATGATTAATATAAATGAAGCTAAACATATACATAGCATTATATATATGCG
193 AAAAAACATTAATATATGATTAATATAAATGAAGCTAAACATATACATAGCATTATATATATGCG
74274380 GCTTACTCAAGCTAACCTGAAAATTATGGTATATATATGCAATTAT
258 GCTTACTCAAGCTAACCTGAAAATTATGGTATATATATGCAATTAT
74274426 GCATGACTTAAATGAAG
1 GCATGACTTAAATGAAG
74274443 TTAAATGGAA
Statistics
Matches: 308, Mismatches: 8, Indels: 31
0.89 0.02 0.09
Matches are distributed among these distances:
304 47 0.15
305 9 0.03
306 5 0.02
308 9 0.03
310 2 0.01
311 2 0.01
317 2 0.01
318 8 0.03
319 16 0.05
320 6 0.02
321 7 0.02
322 9 0.03
324 2 0.01
325 6 0.02
326 28 0.09
327 69 0.22
328 20 0.06
329 61 0.20
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (303 bp):
GCATGACTTAAATGAAGCAAAACATTATATATATGCATAATATAAATGAAGCTAAACAGTAAACA
TATGCATTATATATATATATGCTTGCTTAACTCAAGCTAAACCTGCTAATTATGAATATATATAT
GCAATTATGCATGACTTAAATGAAGTTAAATGGAAATATATGCACTATGCGCATGACTTAAAAAA
AAACATTAATATATGATTAATATAAATGAAGCTAAACATATACATAGCATTATATATATGCGGCT
TACTCAAGCTAACCTGAAAATTATGGTATATATATGCAATTAT
Found at i:74274416 original size:165 final size:176
Alignment explanation
Indices: 74274101--74274599 Score: 673
Period size: 165 Copynumber: 2.8 Consensus size: 176
74274091 TCTGCTAATT
* *
74274101 ATGGTATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAAT
1 ATGGAATATATATGC-ATTATGCGCATGACTTAAA-GAA-CAAAACATTATATATATGCATTAAT
*
74274164 ATTAAATGAAGCTAAACAGTAAACATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAA
63 ATTAAATGAAGCTAAACAGTATACATATGCA-T--TATATATATGC-TGGCTTAACTCAAGCTAA
**
74274229 ACCTGCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
124 ACCTGAAAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
74274282 ATGGAA-ATATATGCATTATGCGCATGACTTAAA-AA-AAAACATTA-ATATATG-ATTAATA-T
1 ATGGAATATATATGCATTATGCGCATGACTTAAAGAACAAAACATTATATATATGCATTAATATT
74274341 AAATGAAGCTAAACA-TATACATA-GCATTATATATATGC-GGCTT-ACTCAAGCT-AACCTGAA
66 AAATGAAGCTAAACAGTATACATATGCATTATATATATGCTGGCTTAACTCAAGCTAAACCTGAA
74274401 AATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
131 AATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
*
74274447 ATGGAATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACATTATGTATATGCATTAATA
1 ATGGAATATATATGCATTATGCGCATGACTTAAA-GAA-CAAAACATTATATATATGCATTAATA
* * * *
74274512 TTAAATGAAGCCTAAACAGTATACATATGCATTATATATATATGCTTGACTTAAATGAAGTTAAA
64 TTAAATGAAG-CTAAACAGTATACATATGCA-T-TATATATATGC-TGGCTTAACTCAAGCTAAA
** *
74274577 CCTGCTAATAATGGTATATATAT
125 CCTGAAAATTATGGTATATATAT
74274600 ATGCATGACT
Statistics
Matches: 286, Mismatches: 13, Indels: 37
0.85 0.04 0.11
Matches are distributed among these distances:
165 58 0.20
166 36 0.13
167 5 0.02
168 2 0.01
169 11 0.04
170 9 0.03
171 7 0.02
172 10 0.03
173 16 0.06
174 23 0.08
175 14 0.05
176 10 0.03
177 10 0.03
178 11 0.04
179 7 0.02
180 12 0.04
181 23 0.08
182 22 0.08
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (176 bp):
ATGGAATATATATGCATTATGCGCATGACTTAAAGAACAAAACATTATATATATGCATTAATATT
AAATGAAGCTAAACAGTATACATATGCATTATATATATGCTGGCTTAACTCAAGCTAAACCTGAA
AATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
Found at i:74274479 original size:43 final size:42
Alignment explanation
Indices: 74274405--74274485 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
74274395 CCTGAAAATT
*
74274405 ATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
1 ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
74274447 ATGGAATATATATGC-ATTATGCGCATGACTTAAATGAAG
1 ATGGAATATATATGCAATTAT--GCATGACTTAAATGAAG
74274486 CAAAACATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 5 0.14
42 14 0.39
43 17 0.47
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (42 bp):
ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
Found at i:74274516 original size:36 final size:38
Alignment explanation
Indices: 74274476--74274550 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
74274466 TGCGCATGAC
* **
74274476 TTAAATGAAG-CAAAACATTATGTATATGCATTA-ATA
1 TTAAATGAAGCCAAAACAGTATACATATGCATTATATA
*
74274512 TTAAATGAAGCCTAAACAGTATACATATGCATTATATA
1 TTAAATGAAGCCAAAACAGTATACATATGCATTATATA
74274550 T
1 T
74274551 ATATGCTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 10 0.30
37 19 0.58
38 4 0.12
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (38 bp):
TTAAATGAAGCCAAAACAGTATACATATGCATTATATA
Found at i:74274609 original size:47 final size:47
Alignment explanation
Indices: 74274544--74274638 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
74274534 ACATATGCAT
* **
74274544 TATATATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGG
1 TATATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
74274591 TATATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
1 TATATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
74274638 T
1 T
74274639 TAATTTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (47 bp):
TATATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
Found at i:74274737 original size:16 final size:16
Alignment explanation
Indices: 74274716--74274747 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74274706 ACAAGACAGG
*
74274716 CAGAAACATGGAAACT
1 CAGAAACATAGAAACT
74274732 CAGAAACATAGAAACT
1 CAGAAACATAGAAACT
74274748 TTGATTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (16 bp):
CAGAAACATAGAAACT
Found at i:74275289 original size:32 final size:34
Alignment explanation
Indices: 74275240--74275305 Score: 118
Period size: 32 Copynumber: 2.0 Consensus size: 34
74275230 GTAAAAAGAA
74275240 AGGAAAAATTGGGGAGGGGGTGGAA-TTGGAACG
1 AGGAAAAATTGGGGAGGGGGTGGAATTTGGAACG
74275273 AGGAAAAA-TGGGGAGGGGGTGGAATTTGGAACG
1 AGGAAAAATTGGGGAGGGGGTGGAATTTGGAACG
74275306 GCAGAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 16 0.50
33 16 0.50
ACGTcount: A:0.33, C:0.03, G:0.48, T:0.15
Consensus pattern (34 bp):
AGGAAAAATTGGGGAGGGGGTGGAATTTGGAACG
Found at i:74291242 original size:16 final size:16
Alignment explanation
Indices: 74291221--74291265 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
74291211 TTTTATATGT
74291221 TATAAATTACATAATA
1 TATAAATTACATAATA
*
74291237 TATAAAAATAACATAATA
1 TAT--AAATTACATAATA
*
74291255 TAAAAATTACA
1 TATAAATTACA
74291266 AACTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (16 bp):
TATAAATTACATAATA
Found at i:74291250 original size:18 final size:17
Alignment explanation
Indices: 74291224--74291260 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
74291214 TATATGTTAT
*
74291224 AAATTACATAATATATAA
1 AAATAACATAATATA-AA
74291242 AAATAACATAATATAAA
1 AAATAACATAATATAAA
74291259 AA
1 AA
74291261 TTACAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAACATAATATAAA
Found at i:74292257 original size:27 final size:26
Alignment explanation
Indices: 74292222--74292333 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
74292212 AGCATGGCTG
* * *
74292222 CCAGAACAGATAATGTGACGGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
74292248 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
74292276 CCAGAACAGAAATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
74292303 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
74292330 CCAG
1 CCAG
74292334 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:74293776 original size:24 final size:24
Alignment explanation
Indices: 74293749--74293799 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
74293739 CTAGATTTCC
** *
74293749 TCCCTTATCTGCTCTTAAAACCTA
1 TCCCTTATCAACTCCTAAAACCTA
*
74293773 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAAACCTA
74293797 TCC
1 TCC
74293800 TGACAGACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.37, G:0.02, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAAACCTA
Found at i:74310472 original size:27 final size:26
Alignment explanation
Indices: 74310437--74310548 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
74310427 AGCATGGCTG
* * *
74310437 CCAGAACAGATAATGTGACGGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
74310463 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
74310491 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
74310518 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
74310545 CCAG
1 CCAG
74310549 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:74310528 original size:54 final size:54
Alignment explanation
Indices: 74310437--74310548 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
74310427 AGCATGGCTG
* * *
74310437 CCAGAACAGATAATGTGACGGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
74310491 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
74310545 CCAG
1 CCAG
74310549 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:74311992 original size:24 final size:24
Alignment explanation
Indices: 74311965--74312015 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
74311955 CTAGATTTCC
** *
74311965 TCCCTTATCTGCTCCTAGATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
74311989 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
74312013 TCC
1 TCC
74312016 TGACAGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.39, G:0.04, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:74313112 original size:18 final size:16
Alignment explanation
Indices: 74313080--74313123 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
74313070 GAATTTGATT
74313080 TATTTTTATTTTTTAA
1 TATTTTTATTTTTTAA
74313096 TATTTTTATAATTTTTAA
1 TATTTTTAT--TTTTTAA
* *
74313114 AATATTTATT
1 TATTTTTATT
74313124 GATGTGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTATTTTTTAA
Found at i:74313272 original size:19 final size:20
Alignment explanation
Indices: 74313248--74313287 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
74313238 AAAGAATTAG
74313248 TTATATA-TATTTTTAAAAA
1 TTATATATTATTTTTAAAAA
*
74313267 TTATATATTATTTTTATAAA
1 TTATATATTATTTTTAAAAA
74313287 T
1 T
74313288 AATAAGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATATTATTTTTAAAAA
Found at i:74313281 original size:21 final size:20
Alignment explanation
Indices: 74313248--74313286 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
74313238 AAAGAATTAG
74313248 TTATATATATTTT-TAAAAA
1 TTATATATATTTTATAAAAA
74313267 TTATATATTATTTTTATAAA
1 TTATATA-TA-TTTTATAAA
74313287 TAATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 4 0.24
22 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATATATTTTATAAAAA
Found at i:74315420 original size:14 final size:14
Alignment explanation
Indices: 74315397--74315442 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
74315387 ATCTCACCCC
*
74315397 AAATATAGATACAA
1 AAATACAGATACAA
74315411 AAATACAGATAC-A
1 AAATACAGATACAA
**
74315424 GTATACAGATACAA
1 AAATACAGATACAA
74315438 AAATA
1 AAATA
74315443 ATAGATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.20
Consensus pattern (14 bp):
AAATACAGATACAA
Found at i:74317079 original size:15 final size:15
Alignment explanation
Indices: 74317059--74317089 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
74317049 GAGCTTGTCC
74317059 TTTTATCATCTACGA
1 TTTTATCATCTACGA
74317074 TTTTATCATCTACGA
1 TTTTATCATCTACGA
74317089 T
1 T
74317090 GAGTGCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (15 bp):
TTTTATCATCTACGA
Found at i:74323095 original size:14 final size:14
Alignment explanation
Indices: 74323076--74323112 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
74323066 GGTTAATTAC
74323076 TTCCATTTCACTCA
1 TTCCATTTCACTCA
74323090 TTCCATTTCACTCA
1 TTCCATTTCACTCA
74323104 TTCCATTTC
1 TTCCATTTC
74323113 CCCTCATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (14 bp):
TTCCATTTCACTCA
Found at i:74328896 original size:17 final size:17
Alignment explanation
Indices: 74328874--74328925 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
74328864 GAGAGTTGAG
74328874 AAAAGAATAAAGAAAAT
1 AAAAGAATAAAGAAAAT
74328891 AAAAGAGACTAAA-AAAAT
1 AAAAGA-A-TAAAGAAAAT
*
74328909 ACAATGAA-AAAGAAAAT
1 A-AAAGAATAAAGAAAAT
74328926 CATTTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 3 0.10
17 11 0.37
18 8 0.27
19 8 0.27
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAGAATAAAGAAAAT
Found at i:74329074 original size:16 final size:16
Alignment explanation
Indices: 74329053--74329083 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
74329043 ACGGTATTCT
74329053 ATATTTTATAGTAGCG
1 ATATTTTATAGTAGCG
74329069 ATATTTTATAGTAGC
1 ATATTTTATAGTAGC
74329084 AAAGCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (16 bp):
ATATTTTATAGTAGCG
Found at i:74329568 original size:15 final size:15
Alignment explanation
Indices: 74329544--74329577 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
74329534 AGTTATGTCT
* *
74329544 ATGTATGGAATTATA
1 ATGTAAGGAATTAGA
74329559 ATGTAAGGAATTAGA
1 ATGTAAGGAATTAGA
74329574 ATGT
1 ATGT
74329578 CAAAAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (15 bp):
ATGTAAGGAATTAGA
Found at i:74333897 original size:153 final size:152
Alignment explanation
Indices: 74333387--74333898 Score: 618
Period size: 153 Copynumber: 3.4 Consensus size: 152
74333377 CGGTGGAAGG
** * ** *
74333387 TAATGCAGACGTTGAAGCAGCCTCTCTTGACAGATGGACATGGCCTGTTGATTTAATGGTTGTCA
1 TAATGCAGACGTTGAAGCAGCCTCTCTTGACAGAAAGACATGGTCTGTCAATTCAATGGTTGTCA
* *** *
74333452 TTGTGGCTGCAGCTACTCCTGTTTCATCATCTTCATAGGAAGGAACTATAGCAACCGGTTCCACA
66 TTGTGGCTGCGGCTACTCCTGTTTCATCATCTTTGGAGGAAGGAATTATAGCAACCGGTTCCACA
* *
74333517 GTATCTATATCACTTGGTGTGGA
131 -CATCTATATCACTTGGCGTGGA
* ** * *
74333540 TAATGCAGACATTGAAGCAGCCTCTCTTGACAGATGGAAATGATCTGTCAATTCAATGGTTGTCA
1 TAATGCAGACGTTGAAGCAGCCTCTCTTGACAGAAAGACATGGTCTGTCAATTCAATGGTTGTCA
* * * * * * *
74333605 TTGCGGCTGAGGCTACTCCTGTATCATTATCTTTGGCGAAAGGAATTATAGCAACCGGTT--TCA
66 TTGTGGCTGCGGCTACTCCTGTTTCATCATCTTTGGAGGAAGGAATTATAGCAACCGGTTCCACA
* **
74333668 CATCT-TCATCACTTGGCATTAA
131 CATCTAT-ATCACTTGGCGTGGA
* ** *
74333690 TAATGCAGATGTTGAAGCAGCCTCTCTTGACAGATGGACATGGTCTGACAATTCAATGGTTGTCA
1 TAATGCAGACGTTGAAGCAGCCTCTCTTGACAGAAAGACATGGTCTGTCAATTCAATGGTTGTCA
* *
74333755 TTGTGGCTGCGGCTACTTCTGTTTCATCATGTTTGGAGGAAGGAATTATAGCAACCGGTTCCACT
66 TTGTGGCTGCGGCTACTCCTGTTTCATCATCTTTGGAGGAAGGAATTATAGCAACCGGTTCCAC-
* * *
74333820 ACATCTATATTACTAGGGGTGGA
130 ACATCTATATCACTTGGCGTGGA
*
74333843 TAATGCAGACGTGGAAGCAGCCTCTCTTGACAGACAAG-CATGGTCTGTCAATTCAA
1 TAATGCAGACGTTGAAGCAGCCTCTCTTGACAGA-AAGACATGGTCTGTCAATTCAA
74333899 GAACCTCAAC
Statistics
Matches: 304, Mismatches: 49, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
149 1 0.00
150 127 0.42
151 2 0.01
152 1 0.00
153 171 0.56
154 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (152 bp):
TAATGCAGACGTTGAAGCAGCCTCTCTTGACAGAAAGACATGGTCTGTCAATTCAATGGTTGTCA
TTGTGGCTGCGGCTACTCCTGTTTCATCATCTTTGGAGGAAGGAATTATAGCAACCGGTTCCACA
CATCTATATCACTTGGCGTGGA
Found at i:74334926 original size:3 final size:3
Alignment explanation
Indices: 74334918--74334942 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
74334908 GAGATTTATC
74334918 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
74334943 GCTTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:74335220 original size:19 final size:19
Alignment explanation
Indices: 74335196--74335233 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
74335186 TTTAAGTAAG
74335196 GCTTAAATGAAAAATTAGC
1 GCTTAAATGAAAAATTAGC
74335215 GCTTAAATGAAAAATTAGC
1 GCTTAAATGAAAAATTAGC
74335234 ACTAAGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
GCTTAAATGAAAAATTAGC
Found at i:74339543 original size:30 final size:30
Alignment explanation
Indices: 74339509--74339568 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
74339499 AGCAAAAAAC
*
74339509 AAGTTATCTTTTATGTATTTTCTAAAAAGA
1 AAGTTATATTTTATGTATTTTCTAAAAAGA
74339539 AAGTTATATTTTATGTATTTTCTAAAAAGA
1 AAGTTATATTTTATGTATTTTCTAAAAAGA
74339569 GCAAGAAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (30 bp):
AAGTTATATTTTATGTATTTTCTAAAAAGA
Done.