Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 102 of 145
Found at i:34159952 original size:3 final size:3
Alignment explanation
Indices: 34159805--34159938 Score: 216
Period size: 3 Copynumber: 44.7 Consensus size: 3
34159795 CTATGACAGA
34159805 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
34159853 AAT AAT AAT AAC AAT AAC AAC AAT AAT AAT AAT AAT AA- AGT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
34159898 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34159939 AAGGCTAATA
Statistics
Matches: 123, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
2 1 0.01
3 119 0.97
4 3 0.02
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:34159986 original size:23 final size:23
Alignment explanation
Indices: 34159807--34159986 Score: 62
Period size: 21 Copynumber: 7.9 Consensus size: 23
34159797 ATGACAGAAA
*
34159807 TAATAATAATAATAAT-AAT-AA-
1 TAATAATAAAAAT-ATCAATAAAC
*
34159828 TAATAATAATAATAAT-AAT-AA-
1 TAATAATAAAAAT-ATCAATAAAC
* *
34159849 TAATAATAATAATAACAATAACAAC
1 TAATAATAAAAATATCAAT-A-AAC
* *
34159874 -AATAAT-AATA-AT-AATAAAG
1 TAATAATAAAAATATCAATAAAC
* *
34159893 TAAGTAATAATAATAAT-AATAATAA
1 TAA-TAATAAAAAT-ATCAATAA-AC
*
34159918 TAATAATAATAATAAT-AATAAAAGGC
1 TAATAATAAAAAT-ATCAAT-AAA--C
*
34159944 TAATAATAAAAATATTAATAAAC
1 TAATAATAAAAATATCAATAAAC
*
34159967 TAATATTAAACAA-ATCAATA
1 TAATAATAAA-AATATCAATA
34159987 GAAAACAAAT
Statistics
Matches: 131, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.02
20 4 0.03
21 44 0.34
22 3 0.02
23 18 0.14
24 34 0.26
25 11 0.08
26 15 0.11
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
TAATAATAAAAATATCAATAAAC
Found at i:34160405 original size:16 final size:16
Alignment explanation
Indices: 34160384--34160414 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34160374 CGAAAAGAAA
34160384 AAAAATAAAATAAAAG
1 AAAAATAAAATAAAAG
34160400 AAAAATAAAATAAAA
1 AAAAATAAAATAAAA
34160415 AAACAAGAAC
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:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:34165924 original size:35 final size:35
Alignment explanation
Indices: 34165884--34165955 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
34165874 TTCAGCTCCA
34165884 TAGCAGTTTACTTACTTTTCATATTTTTGTCAGCC
1 TAGCAGTTTACTTACTTTTCATATTTTTGTCAGCC
34165919 TAGCAGTTTACTTACTTTTCATATTTTTGTCAGCC
1 TAGCAGTTTACTTACTTTTCATATTTTTGTCAGCC
34165954 TA
1 TA
34165956 TCTCCATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (35 bp):
TAGCAGTTTACTTACTTTTCATATTTTTGTCAGCC
Found at i:34168486 original size:21 final size:21
Alignment explanation
Indices: 34168444--34168486 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
34168434 GCATGGCATT
* *
34168444 TGTGGTGTTATATGTTTGTGG
1 TGTGGTGATATATGATTGTGG
34168465 TGTGGTTGATATATGATT-TGG
1 TGTGG-TGATATATGATTGTGG
34168486 T
1 T
34168487 ATAATATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (21 bp):
TGTGGTGATATATGATTGTGG
Found at i:34169111 original size:20 final size:20
Alignment explanation
Indices: 34169086--34169125 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34169076 AATATTTTCC
* *
34169086 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
34169106 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
34169126 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:34175911 original size:13 final size:13
Alignment explanation
Indices: 34175864--34175914 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
34175854 AGTTCTTCAT
*
34175864 TGCTTTTGAAAAG
1 TGCTGTTGAAAAG
*
34175877 TGCTGTGGAAAAG
1 TGCTGTTGAAAAG
34175890 TGCTGTTGAAAAG
1 TGCTGTTGAAAAG
* *
34175903 TGGTTTTGAAAA
1 TGCTGTTGAAAA
34175915 TTTTTAGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.33
Consensus pattern (13 bp):
TGCTGTTGAAAAG
Found at i:34182848 original size:64 final size:66
Alignment explanation
Indices: 34182767--34182946 Score: 238
Period size: 72 Copynumber: 2.7 Consensus size: 66
34182757 TTTAATAAAA
* * *
34182767 AAATAAGTGGAACATAAATTCAATATCTAAAGACCAAACATAAA-A-ATAAAACTAGATTACACA
1 AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACATATAAAACTAGATTACACA
34182830 T
66 T
* *
34182831 AAATAAGTAGAATATAAATTCAATATCCAAAAACCAAACATAAACAGCCATTGATAAAACTATAT
1 AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACAT-AA-A--CA-T-ATAAAACTAGAT
34182896 TACACAT
60 TACACAT
*
34182903 AAATAAGTATAACATAAATTCAATATCCAAAAACCAAACATAAA
1 AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAA
34182947 TAACTATTGA
Statistics
Matches: 101, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
64 37 0.37
65 2 0.02
66 1 0.01
69 1 0.01
70 1 0.01
71 2 0.02
72 57 0.56
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.22
Consensus pattern (66 bp):
AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACATATAAAACTAGATTACACA
T
Found at i:34182898 original size:72 final size:72
Alignment explanation
Indices: 34182812--34182965 Score: 254
Period size: 72 Copynumber: 2.1 Consensus size: 72
34182802 AAACATAAAA
*
34182812 ATAAAACTAGATTACACATAAATAAGTAGAATATAAATTCAATATCCAAAAACCAAACATAAACA
1 ATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACA
*
34182877 GCCATTG
66 ACCATTG
* * *
34182884 ATAAAACTATATTACACATAAATAAGTATAACATAAATTCAATATCCAAAAACCAAACATAAATA
1 ATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACA
*
34182949 ACTATTG
66 ACCATTG
34182956 ATAAAACTAG
1 ATAAAACTAG
34182966 TTTAGCATTC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (72 bp):
ATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACA
ACCATTG
Found at i:34183415 original size:18 final size:18
Alignment explanation
Indices: 34183394--34183441 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
34183384 TCCATCAATT
*
34183394 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
34183412 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
34183430 TGAACATCATTT
1 TGAACATCATTT
34183442 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:34186279 original size:12 final size:12
Alignment explanation
Indices: 34186262--34186286 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34186252 CTGGGGATCT
34186262 AGCAATCAGTAA
1 AGCAATCAGTAA
34186274 AGCAATCAGTAA
1 AGCAATCAGTAA
34186286 A
1 A
34186287 CTCTAAAATA
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AGCAATCAGTAA
Found at i:34189132 original size:96 final size:96
Alignment explanation
Indices: 34188955--34189145 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
34188945 TAAATAAGTG
* * * *
34188955 GAAAGTTTTTGTCTCAAGTGTAAATATTCAAAATTTCGGGGATCGAAGTGTAAAAATGAGAAAGT
1 GAAAATTTTTGGCTCAACTGTAAATATTCAAAATTTAGGGGATCGAAGTGTAAAAATGAGAAAGT
*
34189020 TAAAGGAACAACAGTGAAAATAATCCAATTA
66 TAAAGGAACAAAAGTGAAAATAATCCAATTA
*
34189051 GAAAATTTTTGGCTCAACTGTAAATATTCAAAATTTAGGGGATTGAAGTGTAAAAATGAGAAAGT
1 GAAAATTTTTGGCTCAACTGTAAATATTCAAAATTTAGGGGATCGAAGTGTAAAAATGAGAAAGT
* * *
34189116 TCAAGGACCAAAAGTGAAAATAATCTAATT
66 TAAAGGAACAAAAGTGAAAATAATCCAATT
34189146 TACTAAGATA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (96 bp):
GAAAATTTTTGGCTCAACTGTAAATATTCAAAATTTAGGGGATCGAAGTGTAAAAATGAGAAAGT
TAAAGGAACAAAAGTGAAAATAATCCAATTA
Found at i:34189419 original size:23 final size:23
Alignment explanation
Indices: 34189377--34189420 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34189367 TAAATATTAT
* *
34189377 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTCTACTTAGATA
*
34189400 TTTATTAATATTCTATTTAGA
1 TTTATTAATATTCTACTTAGA
34189421 AAAATGATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTATTAATATTCTACTTAGATA
Found at i:34189958 original size:53 final size:53
Alignment explanation
Indices: 34189900--34190005 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
34189890 TAAGAGAGAA
*
34189900 TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATATGTAATCTAC
1 TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATACGTAATCTAC
*
34189953 TGTGATTTGTATGGTGAAAAGTACTAAGATTAAGAAATGAATACGTAATCTAC
1 TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATACGTAATCTAC
34190006 ACATAAACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (53 bp):
TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATACGTAATCTAC
Found at i:34198695 original size:50 final size:50
Alignment explanation
Indices: 34198534--34198721 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 50
34198524 TATAAACACG
* * *
34198534 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAGAT-TTGATCACA
* * * * * * **
34198585 TGTGTAGTAGTATCTGCAGGCTACTATGTGTACCGGAAGGCTTTGATCATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAAGATTTGATCACA
*
34198636 TGTGTAGTACTATGTGCAGGCTACTACGTGAATCAGAAAG-TTTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAAGATTTGATCACA
*
34198686 TGTGTAGTACTATGTGAAGGCTACTAC-TGTATCGAA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAA
34198722 TGATAATAAT
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
48 3 0.03
49 5 0.04
50 34 0.30
51 68 0.60
52 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAGATTTGATCACA
Found at i:34206030 original size:117 final size:117
Alignment explanation
Indices: 34205824--34206058 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
34205814 TGAACGATTG
*
34205824 TATTCCCCAAGTACGAATCTAGCTCTGATACCAATTGTTATGCGGAAGCGTGTAAAAGAGTAAAA
1 TATTCCCCAAGTACAAATCTAGCTCTGATACCAATTGTTATGCGGAAGCGTGTAAAAGAGTAAAA
34205889 TTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGAGGTGGA
66 TTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGAGGTGGA
*
34205941 TATTCCCCAAGTACAAATCTAGCTCTGATACCAATTGTTGTGCGGAAGCGTGTAAAAGAGTAAAA
1 TATTCCCCAAGTACAAATCTAGCTCTGATACCAATTGTTATGCGGAAGCGTGTAAAAGAGTAAAA
34206006 TTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGAGGTGGA
66 TTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGAGGTGGA
34206058 T
1 T
34206059 CACAAGGATC
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (117 bp):
TATTCCCCAAGTACAAATCTAGCTCTGATACCAATTGTTATGCGGAAGCGTGTAAAAGAGTAAAA
TTATTGTACTAAAAAATCACACTAAGTTCAATTCCCAGGAAAGAGAGGTGGA
Found at i:34206455 original size:17 final size:17
Alignment explanation
Indices: 34206430--34206465 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
34206420 AAATCCCAGA
34206430 TTTTAATACCCATATCT
1 TTTTAATACCCATATCT
*
34206447 TTTTGATACCCATATCT
1 TTTTAATACCCATATCT
34206464 TT
1 TT
34206466 GACTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTAATACCCATATCT
Found at i:34211319 original size:24 final size:25
Alignment explanation
Indices: 34211271--34211320 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
34211261 ATATTTTACT
34211271 AAAAGTTAGGGTCCAACTAATGGAA
1 AAAAGTTAGGGTCCAACTAATGGAA
34211296 AAAAGTTAGGGTCCAACTAA-GGAA
1 AAAAGTTAGGGTCCAACTAATGGAA
34211320 A
1 A
34211321 TTTTCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.18
Consensus pattern (25 bp):
AAAAGTTAGGGTCCAACTAATGGAA
Found at i:34212053 original size:29 final size:29
Alignment explanation
Indices: 34212021--34212081 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
34212011 ATTTCGATTA
* *
34212021 TATTTTCTTTTTATTTCAAT-TTTTGTTGT
1 TATTTTATTTTTATTGC-ATGTTTTGTTGT
*
34212050 TATTTTATTTTTATTGCATGTTTTGTTTT
1 TATTTTATTTTTATTGCATGTTTTGTTGT
34212079 TAT
1 TAT
34212082 GTGTTTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (29 bp):
TATTTTATTTTTATTGCATGTTTTGTTGT
Found at i:34216777 original size:364 final size:365
Alignment explanation
Indices: 34216097--34216825 Score: 1442
Period size: 364 Copynumber: 2.0 Consensus size: 365
34216087 TACATGTCAT
34216097 GTTTCCAAAGTATTAATTGCAAAATACCAAAAAAGTTGATGATAGTGTGGATGATTATCTGACGT
1 GTTTCCAAAGTATTAATTGCAAAATACCAAAAAAGTTGATGATAGTGTGGATGATTATCTGACGT
34216162 CGTCCAAGTTCCGAGCTGACTGATGTCACTACAATCAAGGGAAAGTAAAAATGAGTAAGCATATA
66 CGTCCAAGTTCCGAGCTGACTGATGTCACTACAATCAAGGGAAAGTAAAAATGAGTAAGCATATA
34216227 GCTTAGTAAGTAAACATATGACCAATAAAAAAATTCCTCACATGATTACATAGTAACATAATTTT
131 GCTTAGTAAGTAAACATATGACCAATAAAAAAATTCCTCACATGATTACATAGTAACATAATTTT
34216292 AATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTTTTTTTCTGCGTCATGATAATT
196 AATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTTTTTTTCTGCGTCATGATAATT
34216357 AATTTATTTTTATCTAGAGATGAAGGGCTCCAAATTAAGTTCCGTAAATTTTCCCTGAAACTAGA
261 AATTTATTTTTATCTAGAGATGAAGGGCTCCAAATTAAGTTCCGTAAATTTTCCCTGAAACTAGA
34216422 TTCATATAAATTTCCACCATAAAATTTTCATAATTTTTGG
326 TTCATATAAATTTCCACCATAAAATTTTCATAATTTTTGG
34216462 GTTTCCAAAG-ATTAATTGCAAAATACCAAAAAAGTTGATGATAGTGTGGATGATTATCTGACGT
1 GTTTCCAAAGTATTAATTGCAAAATACCAAAAAAGTTGATGATAGTGTGGATGATTATCTGACGT
*
34216526 CGTCCAAGTTCCGAGCTGACTGATGTTACTACAATCAAGGGAAAGTAAAAATGAGTAAGCATATA
66 CGTCCAAGTTCCGAGCTGACTGATGTCACTACAATCAAGGGAAAGTAAAAATGAGTAAGCATATA
34216591 GCTTAGTAAGTAAACATATGACCAATAAAAAAATTCCTCACATGATTACATAGTAACATAATTTT
131 GCTTAGTAAGTAAACATATGACCAATAAAAAAATTCCTCACATGATTACATAGTAACATAATTTT
34216656 AATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTTTTTTTCTGCGTCATGATAATT
196 AATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTTTTTTTCTGCGTCATGATAATT
34216721 AATTTATTTTTATCTAGAGATGAAGGGCTCCAAATTAAGTTCCGTAAATTTTCCCTGAAACTAGA
261 AATTTATTTTTATCTAGAGATGAAGGGCTCCAAATTAAGTTCCGTAAATTTTCCCTGAAACTAGA
34216786 TTCATATAAATTTCCACCATAAAATTTTCATAATTTTTGG
326 TTCATATAAATTTCCACCATAAAATTTTCATAATTTTTGG
34216826 TTTGGAAAAT
Statistics
Matches: 363, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
364 353 0.97
365 10 0.03
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (365 bp):
GTTTCCAAAGTATTAATTGCAAAATACCAAAAAAGTTGATGATAGTGTGGATGATTATCTGACGT
CGTCCAAGTTCCGAGCTGACTGATGTCACTACAATCAAGGGAAAGTAAAAATGAGTAAGCATATA
GCTTAGTAAGTAAACATATGACCAATAAAAAAATTCCTCACATGATTACATAGTAACATAATTTT
AATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTTTTTTTCTGCGTCATGATAATT
AATTTATTTTTATCTAGAGATGAAGGGCTCCAAATTAAGTTCCGTAAATTTTCCCTGAAACTAGA
TTCATATAAATTTCCACCATAAAATTTTCATAATTTTTGG
Found at i:34217597 original size:42 final size:42
Alignment explanation
Indices: 34217538--34217679 Score: 176
Period size: 42 Copynumber: 3.6 Consensus size: 42
34217528 ACCCCTTGGG
34217538 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
* *
34217580 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
* * *
34217613 GAAATCAGCACTTAGCAACCCCTTTCACTTTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
34217655 GGAATCAGCACTTAGCAACCCCCTT
1 GGAATCAGCACTTAGCAACCCCCTT
34217680 TATATTCAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
33 17 0.21
34 5 0.06
35 1 0.01
36 5 0.06
38 1 0.01
39 5 0.06
40 1 0.01
41 6 0.07
42 41 0.50
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
Found at i:34218048 original size:30 final size:30
Alignment explanation
Indices: 34218007--34218063 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34217997 AGTCCTCCAC
*
34218007 CCAACTTTTTGAA-ATATTACAATTTTGCCT
1 CCAAATTTTTGAATAT-TTACAATTTTGCCT
*
34218037 CCAAATTTTTGAATATTTACACTTTTG
1 CCAAATTTTTGAATATTTACAATTTTG
34218064 TCCCTAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (30 bp):
CCAAATTTTTGAATATTTACAATTTTGCCT
Found at i:34225079 original size:102 final size:102
Alignment explanation
Indices: 34224949--34225150 Score: 343
Period size: 102 Copynumber: 2.0 Consensus size: 102
34224939 CAATGAGTCA
* * *
34224949 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCAC
1 GGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
34225014 CAATGA-TAAGGGGAATCAGCACTTAGAAACCCCTTGG
66 CAATGAGT-AGGGGAATCAGCACTTAGAAACCCCTTGG
34225051 GGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* *
34225116 CAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
66 CAATGAGTAGGGGAATCAGCACTTAGAAACCCCTT
34225151 TCACATTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 93 0.99
103 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAGTAGGGGAATCAGCACTTAGAAACCCCTTGG
Found at i:34225111 original size:42 final size:42
Alignment explanation
Indices: 34225052--34225188 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
34225042 ACCCCTTGGG
*
34225052 GGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
* *
34225094 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
*
34225127 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
34225169 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
34225189 ACCAATGAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
33 18 0.22
34 5 0.06
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 6 0.08
42 37 0.46
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.20
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
Found at i:34225224 original size:75 final size:75
Alignment explanation
Indices: 34225050--34225225 Score: 307
Period size: 75 Copynumber: 2.3 Consensus size: 75
34225040 AAACCCCTTG
* *
34225050 GGGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
34225115 CCAATGAGTC
66 CCAATGAATC
34225125 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
34225190 CCAATGAATT
66 CCAATGAATC
*
34225200 GGGGAATCATCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
34225226 GGGGGAATTA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:34225224 original size:177 final size:177
Alignment explanation
Indices: 34224914--34225251 Score: 588
Period size: 177 Copynumber: 1.9 Consensus size: 177
34224904 ATCCGTTATT
*
34224914 GGTGGATTCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTTCACA
*
34224979 TTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGATAAGGGGAATCAGCACTTAGAAAC
66 TTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGATAAGGGGAATCAGCACTTAGAAAC
34225044 CCCTTGGGGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATAC
131 CCCTTGGGGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATAC
*
34225091 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTTCACA
* * *
34225156 TTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA-ATTGGGGAATCATCACTTAGCAA
66 TTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGATA-AGGGGAATCAGCACTTAGAAA
* *
34225220 CCCCTTGGGGGAATTAGCACTTAGCAACCCCC
130 CCCCTTGGGGGAATCAGCACCTAGCAACCCCC
34225252 GTTATATTCA
Statistics
Matches: 152, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
176 1 0.01
177 151 0.99
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (177 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTTCACA
TTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGATAAGGGGAATCAGCACTTAGAAAC
CCCTTGGGGGAATCAGCACCTAGCAACCCCCTTCACATTTAAGATAC
Found at i:34232055 original size:85 final size:86
Alignment explanation
Indices: 34231912--34232078 Score: 273
Period size: 85 Copynumber: 2.0 Consensus size: 86
34231902 TAAACACCAA
***
34231912 TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCAATTGTTGTGCTTCTTATTGT
1 TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCAATTGCCATGCTTCTTATTGT
34231977 TCAACAGATTCC-AAGGGTTG
66 TCAACAGATTCCGAAGGGTTG
* *
34231997 TCTTATGTTGCATGTGAGATAGGTTTTGTATAAATTCAATATTCGATTGCCATGCTTCTTATTGT
1 TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCAATTGCCATGCTTCTTATTGT
*
34232062 TCAATAGATTCCGAAGG
66 TCAACAGATTCCGAAGG
34232079 CTGCCTTATG
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
85 71 0.95
86 4 0.05
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (86 bp):
TCTTATGTTGCATGTGAGATAGGTCTTGTATAAATTCAATATTCAATTGCCATGCTTCTTATTGT
TCAACAGATTCCGAAGGGTTG
Found at i:34234526 original size:49 final size:49
Alignment explanation
Indices: 34234469--34234611 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 49
34234459 TCTATATAGA
* *
34234469 ACTACACTTCTTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
* * * **
34234518 ACTACACTTCATCTATTTTATATTGATTAAAATAAGGTGTTGGAACCTT
1 ACTACACTTCTTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
*
34234567 ACTACAC-TCATTCTATTTTACATTGATTAGAATAAGGTTTTTCAA
1 ACTACACTTC-TTCTATTTTATATTGATTAGAATAAGGTTTTTCAA
34234612 ACTATAAATA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 2 0.03
49 78 0.98
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.45
Consensus pattern (49 bp):
ACTACACTTCTTCTATTTTATATTGATTAGAATAAGGTTTTTCAACCTT
Found at i:34239055 original size:49 final size:48
Alignment explanation
Indices: 34238993--34239118 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 48
34238983 ACTACACTTT
* *
34238993 TATTTTATTTTGATTAGAATAAGGTTTTTCAACCTTACTACACT-TAATC
1 TATTTGATATTGATTAGAATAAGGTTTTT-AACCTTACTACACTCT-ATC
* *
34239042 TATTTGATATTGATTAGAATAAGGTGTTTTAACCTTACTACACTCTTTT
1 TATTTGATATTGATTAGAATAAGGT-TTTTAACCTTACTACACTCTATC
34239091 TATTTGATATTGATTAGAATAAGGTTTT
1 TATTTGATATTGATTAGAATAAGGTTTT
34239119 CCATCCTATA
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
48 3 0.04
49 63 0.89
50 5 0.07
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (48 bp):
TATTTGATATTGATTAGAATAAGGTTTTTAACCTTACTACACTCTATC
Found at i:34240086 original size:17 final size:17
Alignment explanation
Indices: 34240061--34240095 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34240051 AGTTAACACT
*
34240061 AAAAAAGACTAAATTAC
1 AAAAAAGACAAAATTAC
*
34240078 AAAATAGACAAAATTAC
1 AAAAAAGACAAAATTAC
34240095 A
1 A
34240096 CAATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAAAGACAAAATTAC
Found at i:34241764 original size:15 final size:15
Alignment explanation
Indices: 34241726--34241796 Score: 103
Period size: 14 Copynumber: 4.9 Consensus size: 15
34241716 GTCGTAATTA
*
34241726 ACATATAGGGTTCTC
1 ACATATAGGGTTCGC
34241741 ACATA-AGGGTTCGC
1 ACATATAGGGTTCGC
*
34241755 ACATATAGGGTTCGT
1 ACATATAGGGTTCGC
34241770 ACATATA-GGTTCGC
1 ACATATAGGGTTCGC
34241784 ACATAT-GGGTTCG
1 ACATATAGGGTTCG
34241797 TATGTTTAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
14 31 0.61
15 20 0.39
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (15 bp):
ACATATAGGGTTCGC
Found at i:34241810 original size:29 final size:30
Alignment explanation
Indices: 34241726--34241798 Score: 109
Period size: 29 Copynumber: 2.5 Consensus size: 30
34241716 GTCGTAATTA
34241726 ACATATAGGGTTC-TCACATA-AGGGTTCGC
1 ACATATAGGGTTCGT-ACATATAGGGTTCGC
34241755 ACATATAGGGTTCGTACATATA-GGTTCGC
1 ACATATAGGGTTCGTACATATAGGGTTCGC
34241784 ACATAT-GGGTTCGTA
1 ACATATAGGGTTCGTA
34241799 TGTTTAGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
28 9 0.21
29 31 0.74
30 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (30 bp):
ACATATAGGGTTCGTACATATAGGGTTCGC
Found at i:34245352 original size:6 final size:6
Alignment explanation
Indices: 34245343--34245394 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
34245333 CAGGAGCAGG
34245343 AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT
1 AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT AGCATT
34245391 AGCA
1 AGCA
34245395 GATGGTGGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
AGCATT
Found at i:34247168 original size:14 final size:14
Alignment explanation
Indices: 34247149--34247178 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34247139 TGGAAATTCA
34247149 ATCTTGGGAGCTTG
1 ATCTTGGGAGCTTG
34247163 ATCTTGGGAGCTTG
1 ATCTTGGGAGCTTG
34247177 AT
1 AT
34247179 TTTCATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (14 bp):
ATCTTGGGAGCTTG
Found at i:34247268 original size:22 final size:20
Alignment explanation
Indices: 34247232--34247273 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34247222 TCATTGTTGA
*
34247232 GAAATTGATGAATTAGGCTT
1 GAAATTGATGAATTAAGCTT
34247252 GAAATTGATAGATATTAAGCTT
1 GAAATTGAT-GA-ATTAAGCTT
34247274 AGATAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:34248070 original size:19 final size:19
Alignment explanation
Indices: 34248043--34248079 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34248033 ATACAATTTG
*
34248043 TGTGTTAGGATGCACTTCC
1 TGTGCTAGGATGCACTTCC
34248062 TGTGCTAGGATGCACTTC
1 TGTGCTAGGATGCACTTC
34248080 GTGCACCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (19 bp):
TGTGCTAGGATGCACTTCC
Found at i:34248125 original size:19 final size:19
Alignment explanation
Indices: 34248052--34248113 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
34248042 GTGTGTTAGG
* * * *
34248052 ATGCACTTCCTGTGCTAGG
1 ATGCACTTCGTGCGCCAGA
*
34248071 ATGCACTTCGTGCACCAGA
1 ATGCACTTCGTGCGCCAGA
34248090 ATGCACTTCGTGCGCCAGA
1 ATGCACTTCGTGCGCCAGA
34248109 ATGCA
1 ATGCA
34248114 TTACGTGTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (19 bp):
ATGCACTTCGTGCGCCAGA
Found at i:34250220 original size:62 final size:59
Alignment explanation
Indices: 34250136--34250252 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
34250126 AGTGATTATC
* * *
34250136 TTAATATTAAATCTAATTTAATATTTATCTTGAAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATCTAATCTAATATTTATCTT--A-ATAAACATTATATTAATTTAATAAGAT
* *
34250198 TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATCTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATA
34250253 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 1 0.02
62 29 0.58
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATCTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:34252383 original size:32 final size:32
Alignment explanation
Indices: 34252342--34252405 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
34252332 CGTTCTTGAC
*
34252342 GAAATGTGCCCTCCTAAAGCTTAGCCCAAATT
1 GAAATGTGCCCTCCTAAAGCTCAGCCCAAATT
34252374 GAAATGTGCCCTCCTAAAGCTCAGCCCAAATT
1 GAAATGTGCCCTCCTAAAGCTCAGCCCAAATT
34252406 CGATGTTATA
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:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (32 bp):
GAAATGTGCCCTCCTAAAGCTCAGCCCAAATT
Found at i:34256223 original size:15 final size:15
Alignment explanation
Indices: 34256203--34256231 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34256193 TTCACTCTTA
34256203 TGTCTTTTATATTTC
1 TGTCTTTTATATTTC
34256218 TGTCTTTTATATTT
1 TGTCTTTTATATTT
34256232 TGCATAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (15 bp):
TGTCTTTTATATTTC
Found at i:34267945 original size:25 final size:25
Alignment explanation
Indices: 34267885--34267945 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
34267875 CTCCTAAATT
*
34267885 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
34267910 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
34267935 TTAATTAAATT
1 TTAATTAAATT
34267946 TTTTAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:34269341 original size:27 final size:27
Alignment explanation
Indices: 34269303--34269357 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34269293 TTTCTTTGCT
34269303 TAGGGTCTAGCAGCCGTCAAAGCAAAG
1 TAGGGTCTAGCAGCCGTCAAAGCAAAG
34269330 TAGGGTCTAGCAGCCGTCAAAGCAAAG
1 TAGGGTCTAGCAGCCGTCAAAGCAAAG
34269357 T
1 T
34269358 CTTTTTCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.29, T:0.16
Consensus pattern (27 bp):
TAGGGTCTAGCAGCCGTCAAAGCAAAG
Found at i:34285375 original size:17 final size:17
Alignment explanation
Indices: 34285339--34285382 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
34285329 ATTAAGGGGT
*
34285339 TTACATAATCTCCTAGA
1 TTACATAATCTCCGAGA
34285356 TTACATAATCTCTCGA-A
1 TTACATAATCTC-CGAGA
*
34285373 TTACAAAATC
1 TTACATAATC
34285383 AAATCTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (17 bp):
TTACATAATCTCCGAGA
Found at i:34286791 original size:30 final size:29
Alignment explanation
Indices: 34286757--34286820 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
34286747 TTGTATTTTA
* *
34286757 TTTATATTTATATT-GTAATTTTATATCATT
1 TTTATATTTAAATTAATAATTTTAT-T-ATT
*
34286787 TTTATTTTTAAATTAATAATTTTATTATT
1 TTTATATTTAAATTAATAATTTTATTATT
34286816 TTTAT
1 TTTAT
34286821 GACTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.27
30 13 0.43
31 9 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (29 bp):
TTTATATTTAAATTAATAATTTTATTATT
Found at i:34286829 original size:10 final size:9
Alignment explanation
Indices: 34286806--34286846 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
34286796 AAATTAATAA
*
34286806 TTTTATTAT
1 TTTTATGAT
34286815 TTTTATGACT
1 TTTTATGA-T
*
34286825 TTTTATAAT
1 TTTTATGAT
34286834 TTTTATGAT
1 TTTTATGAT
34286843 TTTT
1 TTTT
34286847 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (9 bp):
TTTTATGAT
Found at i:34286830 original size:19 final size:18
Alignment explanation
Indices: 34286806--34286856 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
34286796 AAATTAATAA
*
34286806 TTTTATTATTTTTATGACT
1 TTTTATAATTTTTATGA-T
34286825 TTTTATAATTTTTATGAT
1 TTTTATAATTTTTATGAT
* *
34286843 TTTTTTAAATTTTA
1 TTTTATAATTTTTA
34286857 AATATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (18 bp):
TTTTATAATTTTTATGAT
Found at i:34297416 original size:20 final size:22
Alignment explanation
Indices: 34297382--34297421 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34297372 AGTTTATTTA
34297382 TGTTATAATTGTTGC-AAATTG
1 TGTTATAATTGTTGCTAAATTG
*
34297403 TGTTA-AATTTTTGCTAAAT
1 TGTTATAATTGTTGCTAAAT
34297422 CTATTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (22 bp):
TGTTATAATTGTTGCTAAATTG
Found at i:34302608 original size:50 final size:50
Alignment explanation
Indices: 34302536--34302709 Score: 215
Period size: 50 Copynumber: 3.5 Consensus size: 50
34302526 TATCCCAAAT
** * ***
34302536 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCGTGCCATGTCCTAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGAC
** *
34302586 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGAC
** *
34302636 ATGGTCTTACATGGGACCTCTTGTCTCGGTGCCAACGCTATGTCCCT-GAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGT-CCTAGAC
*
34302686 ATGGTCTTATATGGGACCTCTCAT
1 ATGGTCTTACATGGGACCTCTCAT
34302710 GATCTCAAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 103 0.98
51 2 0.02
ACGTcount: A:0.18, C:0.29, G:0.25, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGAC
Found at i:34302665 original size:100 final size:103
Alignment explanation
Indices: 34302536--34302763 Score: 239
Period size: 100 Copynumber: 2.2 Consensus size: 103
34302526 TATCCCAAAT
** * *** *
34302536 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCGTGCCATGT-CCTAGACATGGTCTTACGGGG
1 ATGGTCTTACATGGGACCTCTTATATCGGTGCCAACGCCATGTCCCT-GACATGGTCTTACAGGG
* *
34302600 GACCTCTC-ATCTC-G-GTGCCAACGCCATGTCCCAGAC
65 GACCTCTCAATCTCAGAATGACAACGCCATGTCCCAGAC
* * * * *
34302636 ATGGTCTTACATGGGACCTCTTGTCTCGGTGCCAACGCTATGTCCCTGACATGGTCTTATATGGG
1 ATGGTCTTACATGGGACCTCTTATATCGGTGCCAACGCCATGTCCCTGACATGGTCTTACAGGGG
* *
34302701 ACCTCTCATGATCTCAAGAATGACAATGCCATGTCCCAGAT
66 ACCTCTCA--ATCTC-AGAATGACAACGCCATGTCCCAGAC
*
34302742 ATGGTCTTACATGGGATCTCTT
1 ATGGTCTTACATGGGACCTCTT
34302764 TACCCAAATG
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
100 56 0.54
101 3 0.03
103 5 0.05
105 1 0.01
106 39 0.38
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (103 bp):
ATGGTCTTACATGGGACCTCTTATATCGGTGCCAACGCCATGTCCCTGACATGGTCTTACAGGGG
ACCTCTCAATCTCAGAATGACAACGCCATGTCCCAGAC
Found at i:34306288 original size:20 final size:20
Alignment explanation
Indices: 34306263--34306308 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
34306253 CTAGTTATTT
34306263 TGTTAAATTTTAACTTTTTA
1 TGTTAAATTTTAACTTTTTA
*
34306283 TGTTAAATTTTAATTTTTTA
1 TGTTAAATTTTAACTTTTTA
34306303 TGTTAA
1 TGTTAA
34306309 TAAAGGGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (20 bp):
TGTTAAATTTTAACTTTTTA
Found at i:34312583 original size:15 final size:15
Alignment explanation
Indices: 34312563--34312591 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34312553 GTGCGTAACA
34312563 CATATCCTTCAAGAC
1 CATATCCTTCAAGAC
34312578 CATATCCTTCAAGA
1 CATATCCTTCAAGA
34312592 ATCAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.28
Consensus pattern (15 bp):
CATATCCTTCAAGAC
Found at i:34317460 original size:21 final size:21
Alignment explanation
Indices: 34317421--34317461 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34317411 TAGAAACAGG
* **
34317421 AATGATCTTAATGGCAATCCA
1 AATGATCATAATGAAAATCCA
34317442 AATGATCATAATGAAAATCC
1 AATGATCATAATGAAAATCC
34317462 TCTCATTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (21 bp):
AATGATCATAATGAAAATCCA
Found at i:34320489 original size:93 final size:93
Alignment explanation
Indices: 34320330--34320518 Score: 342
Period size: 93 Copynumber: 2.0 Consensus size: 93
34320320 GGTAAGGCAT
*
34320330 TTTATTGCTTCCTAGATGCTTATTCAGGATATAATCAAATTTCTATAGCACTTGAAGATCAAGAG
1 TTTATTGCTTCCTAGATGCTTATTCAGGATATAATCAAATTTCTATAGCACTTAAAGATCAAGAG
*
34320395 AAAATAACTTTCACGTGTCCATATGGTA
66 AAAACAACTTTCACGTGTCCATATGGTA
*
34320423 TTTATTGCTTCCTAGATGGTTATTCAGGATATAATCAAATTTCTATAGCACTTAAAGATCAAGAG
1 TTTATTGCTTCCTAGATGCTTATTCAGGATATAATCAAATTTCTATAGCACTTAAAGATCAAGAG
*
34320488 AAGACAACTTTCACGTGTCCATATGGTA
66 AAAACAACTTTCACGTGTCCATATGGTA
34320516 TTT
1 TTT
34320519 TTCTATTCAG
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (93 bp):
TTTATTGCTTCCTAGATGCTTATTCAGGATATAATCAAATTTCTATAGCACTTAAAGATCAAGAG
AAAACAACTTTCACGTGTCCATATGGTA
Found at i:34325387 original size:16 final size:16
Alignment explanation
Indices: 34325357--34325388 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
34325347 CGGTTTCCAT
34325357 TAAAAAAAGGAAAAAA
1 TAAAAAAAGGAAAAAA
34325373 TAAAGAAAAGGAAAAA
1 TAAA-AAAAGGAAAAA
34325389 GGAGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
TAAAAAAAGGAAAAAA
Found at i:34327474 original size:2 final size:2
Alignment explanation
Indices: 34327467--34327502 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
34327457 TTCTTAGGAT
34327467 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
34327503 GTCCTGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:34345311 original size:44 final size:44
Alignment explanation
Indices: 34345174--34345667 Score: 170
Period size: 44 Copynumber: 11.2 Consensus size: 44
34345164 AATAGCAGAT
* * *
34345174 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCAAAGACACTAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACACTAGC
* **** * * * * *
34345218 TTTGCCTCCCTGGGTTG-CAGCGGAGTAG-GCTAAAAATAGC-AGAT
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATC-AAAAACA-CTAG-C
* * *
34345262 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCAAAGACACTAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACACTAGC
**** * * * * * *
34345306 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTAAAAATAGC-AGAA
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACA-CTAG-C
* * *
34345350 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCAAATACACTAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACACTAGC
**** * * * * *
34345394 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGC-AGAT
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACA-CTAG-C
* * **
34345438 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACTAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACACTAGC
**** * * * *
34345482 CTTGCCTCCCTGGGTTG-CAGC-AGAGCAG-GCTAAAAATAGTAGAT
1 CTTGCCTCCCTGCACCGACAGCGA-AGCAGATC-AAAAACACTAG-C
* * * *
34345526 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAATACACCAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACACTAGC
* **** * * * *
34345570 TTTGCCTCCCTGGGTTG-CAGC-AGAGCAG-GCTAAAAATAGTAGAT
1 CTTGCCTCCCTGCACCGACAGCGA-AGCAGATC-AAAAACACTAG-C
* * *
34345614 ATTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACA-TCAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACACT-AGC
34345658 CTTGCCTCCC
1 CTTGCCTCCC
34345668 GGGGTTACAG
Statistics
Matches: 303, Mismatches: 120, Indels: 54
0.64 0.25 0.11
Matches are distributed among these distances:
42 5 0.02
43 82 0.27
44 131 0.43
45 80 0.26
46 5 0.02
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGCACCGACAGCGAAGCAGATCAAAAACACTAGC
Found at i:34345779 original size:88 final size:88
Alignment explanation
Indices: 34345163--34345732 Score: 899
Period size: 88 Copynumber: 6.5 Consensus size: 88
34345153 AGATCAGTAG
* *
34345163 AAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCAAAGACACTAGCTTTGCCTCCC
1 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCC
* *
34345228 TGGGTTGCAGCGGAGTAGGCTAA
66 TGGGTTGCAGCGGAGCAGGTTAA
*
34345251 AAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCAAAGACACTAGCCTTGCCTCCC
1 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCC
*
34345316 TGGGTTGCAGTGGAGCAGGTTAA
66 TGGGTTGCAGCGGAGCAGGTTAA
* * *
34345339 AAATAGCAGAACTTGCCTTCCTGCACCAACAGCGAAGCAGATCAAATACACTAGCCTTGCCTCCC
1 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCC
34345404 TGGGTTGCAGCGGAGCAGGTTAA
66 TGGGTTGCAGCGGAGCAGGTTAA
* *
34345427 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGTCACTAGCCTTGCCTCCC
1 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCC
* *
34345492 TGGGTTGCAGCAGAGCAGGCTAA
66 TGGGTTGCAGCGGAGCAGGTTAA
* * * * *
34345515 AAATAGTAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAATACACCAGCTTTGCCTCCC
1 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCC
* *
34345580 TGGGTTGCAGCAGAGCAGGCTAA
66 TGGGTTGCAGCGGAGCAGGTTAA
* *
34345603 AAATAGTAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACA-TCAGCCTTGCCTCC
1 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACT-AGCCTTGCCTCC
* *
34345667 CGGGGTTACAGCGGAGCAGGTTAA
65 CTGGGTTGCAGCGGAGCAGGTTAA
*
34345691 AAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGAT
1 AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
34345733 TGATGACCCC
Statistics
Matches: 446, Mismatches: 35, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
88 446 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
AAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCC
TGGGTTGCAGCGGAGCAGGTTAA
Found at i:34345814 original size:44 final size:44
Alignment explanation
Indices: 34345746--34346074 Score: 338
Period size: 44 Copynumber: 7.7 Consensus size: 44
34345736 TGACCCCAGC
* * *
34345746 CCTATCTCCCTGGACAACAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
34345790 CCTATCTCCCTAGTCAGCAATGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
34345834 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
34345872 --T-CCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGTTG-GT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTG-TGAAT
* * *
34345913 CCTATCTCCCTGGTCAGCAGTGGAATGGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
34345957 TCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGTTG-GT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTG-TGAAT
* * *
34346001 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
34346045 CCTATCTCCCTGAGCAGCAGTGGAGTAGGT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGT
34346075 GGAAAATAGC
Statistics
Matches: 234, Mismatches: 38, Indels: 26
0.79 0.13 0.09
Matches are distributed among these distances:
35 25 0.11
36 3 0.01
37 1 0.00
38 4 0.02
41 1 0.00
42 2 0.01
43 6 0.03
44 191 0.82
45 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:34345945 original size:123 final size:123
Alignment explanation
Indices: 34345764--34345992 Score: 370
Period size: 123 Copynumber: 1.9 Consensus size: 123
34345754 CCTGGACAAC
*
34345764 AGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAATGGAATAGGTTGAAGATTG
1 AGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAATGGAATAGGTTGAAGATTG
34345829 AGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAATTCCTCCCTGGGCAGT
66 AGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAATTCCTCCCTGGGCAGT
* * * * *
34345887 AGTGGAATAGATTGAAGATTGTTG-GTCCTATCTCCCTGGTCAGCAGTGGAATGGGTTGAAGATT
1 AGTGGAATAGATTAAAGATTG-TGAATCCTATCTCCCTAGTCAGCAATGGAATAGGTTGAAGATT
* *
34345951 GAGAATTCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGA
65 GAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGA
34345993 TTGTTGGTCC
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
123 95 0.98
124 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (123 bp):
AGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAATGGAATAGGTTGAAGATTG
AGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAATTCCTCCCTGGGCAGT
Found at i:34346473 original size:44 final size:44
Alignment explanation
Indices: 34346376--34346495 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
34346366 CAAGATGGCA
* *
34346376 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
* *
34346420 AAT-TCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TT
1 AATCT-TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
* * *
34346463 GGATCTTATCTCTCTGAAGTTGCAGAG-AGCAGA
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA
34346496 ACGCATCTAG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
43 7 0.11
44 57 0.88
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
Found at i:34346534 original size:128 final size:129
Alignment explanation
Indices: 34346378--34346631 Score: 325
Period size: 128 Copynumber: 2.0 Consensus size: 129
34346368 AGATGGCAAA
* ** * *
34346378 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AGCCGATAATTCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAC-A-AATCCTATCTCCCTAAAGTTG
* * *
34346441 CAGTGAAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAACGCATCTA
64 CAGTGAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGAACGCATCTA
34346505 G
129 G
* *
34346506 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCCTATCTCCCTAAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCCTATCTCCCTAAAGTTGCA
* * * ** *
34346571 GTGGAGTGGATTAGAATGATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGATCGCATC
66 GTGAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGAACGCATC
34346632 AAATTCATCT
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
128 87 0.81
129 18 0.17
130 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCCTATCTCCCTAAAGTTGCA
GTGAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGAACGCATCTAG
Found at i:34348088 original size:35 final size:35
Alignment explanation
Indices: 34348022--34348087 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
34348012 TTAAGCTTTA
34348022 ATTTTTATTTATTTATTATTATTATGATTTTTATG
1 ATTTTTATTTATTTATTATTATTATGATTTTTATG
* *
34348057 ATTTTTA-TTATCTTGTTATT-TTATTATTTTT
1 ATTTTTATTTAT-TTATTATTATTATGATTTTT
34348088 TTTAAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (35 bp):
ATTTTTATTTATTTATTATTATTATGATTTTTATG
Found at i:34348520 original size:45 final size:45
Alignment explanation
Indices: 34348469--34348566 Score: 196
Period size: 45 Copynumber: 2.2 Consensus size: 45
34348459 ATTTAAAAAT
34348469 AGAAAATTTTCAAAATAGAGATAATACTCGTATTTAGGGTTTTCA
1 AGAAAATTTTCAAAATAGAGATAATACTCGTATTTAGGGTTTTCA
34348514 AGAAAATTTTCAAAATAGAGATAATACTCGTATTTAGGGTTTTCA
1 AGAAAATTTTCAAAATAGAGATAATACTCGTATTTAGGGTTTTCA
34348559 AGAAAATT
1 AGAAAATT
34348567 GAGCCCTAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (45 bp):
AGAAAATTTTCAAAATAGAGATAATACTCGTATTTAGGGTTTTCA
Found at i:34348740 original size:42 final size:42
Alignment explanation
Indices: 34348681--34348764 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
34348671 GTGTCCTAAC
34348681 GTATTGGATGTGACACGTTGATTTCTCGAGATAAAGATTTTT
1 GTATTGGATGTGACACGTTGATTTCTCGAGATAAAGATTTTT
*
34348723 GTATTGGATGTGACACGTTGATTTCTCGAGATAAATATTTTT
1 GTATTGGATGTGACACGTTGATTTCTCGAGATAAAGATTTTT
34348765 TAAAATATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (42 bp):
GTATTGGATGTGACACGTTGATTTCTCGAGATAAAGATTTTT
Found at i:34357680 original size:152 final size:152
Alignment explanation
Indices: 34357404--34357700 Score: 594
Period size: 152 Copynumber: 2.0 Consensus size: 152
34357394 CTTACCATAG
34357404 AAATTTTAGAATTTTTGGTCTAGCCAATTAATACATTTTATTCATTAAATAATCCTCTATTTCAC
1 AAATTTTAGAATTTTTGGTCTAGCCAATTAATACATTTTATTCATTAAATAATCCTCTATTTCAC
34357469 TGCTTGATAGCTCTGACCCCTCTTCACTAAAAATTAATTATCTCTTTGCACAGAATTCAAATGAT
66 TGCTTGATAGCTCTGACCCCTCTTCACTAAAAATTAATTATCTCTTTGCACAGAATTCAAATGAT
34357534 GTCCCTATTTGTTTCATGCACA
131 GTCCCTATTTGTTTCATGCACA
34357556 AAATTTTAGAATTTTTGGTCTAGCCAATTAATACATTTTATTCATTAAATAATCCTCTATTTCAC
1 AAATTTTAGAATTTTTGGTCTAGCCAATTAATACATTTTATTCATTAAATAATCCTCTATTTCAC
34357621 TGCTTGATAGCTCTGACCCCTCTTCACTAAAAATTAATTATCTCTTTGCACAGAATTCAAATGAT
66 TGCTTGATAGCTCTGACCCCTCTTCACTAAAAATTAATTATCTCTTTGCACAGAATTCAAATGAT
34357686 GTCCCTATTTGTTTC
131 GTCCCTATTTGTTTC
34357701 TCTTGAAAAT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 145 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (152 bp):
AAATTTTAGAATTTTTGGTCTAGCCAATTAATACATTTTATTCATTAAATAATCCTCTATTTCAC
TGCTTGATAGCTCTGACCCCTCTTCACTAAAAATTAATTATCTCTTTGCACAGAATTCAAATGAT
GTCCCTATTTGTTTCATGCACA
Found at i:34358203 original size:45 final size:45
Alignment explanation
Indices: 34358134--34358323 Score: 163
Period size: 45 Copynumber: 4.2 Consensus size: 45
34358124 TACACGGTGG
* *
34358134 ATCAGCACACAGC-ACCACAC-TTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAGCAACCAC-CTTTATAATCAATAGTA-TCGGGTGAA
* * *
34358178 ATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
* * * * * *
34358223 TTCAGCACATAGCAATCA-CTTATATAACCATTGGTATCCGGTGAA
1 ATCAGCACATAGCAACCACCTT-TATAATCAATAGTATCGGGTGAA
* ** * * * *
34358268 ATCAGCACATAGCAATCACCTTTATTTTCATTAATATCTGGTGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
34358313 ATCAGCACATA
1 ATCAGCACATA
34358324 ACATCCATCT
Statistics
Matches: 122, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
44 17 0.14
45 102 0.84
46 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
Found at i:34362593 original size:2 final size:2
Alignment explanation
Indices: 34362586--34362616 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
34362576 GCTGATACTG
34362586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34362617 AGATTTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34369449 original size:19 final size:19
Alignment explanation
Indices: 34369425--34369497 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
34369415 AATCATATAT
34369425 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
34369444 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
**
34369463 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34369482 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
34369498 CTCAAAAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34369808 original size:44 final size:44
Alignment explanation
Indices: 34369747--34370274 Score: 261
Period size: 44 Copynumber: 12.2 Consensus size: 44
34369737 ACTAGATGCG
* * *
34369747 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATTTGTAATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTA
* * * ***
34369790 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTGTCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AATTTTA
* * * ** *
34369834 ATCTGCTCTACTGCAACTTTAGGAAGATAAGATTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAT-TTTA
* * * * *
34369879 GTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTA-CTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTG-TAATTTTA
* * * ***
34369923 GTAT-TG-TCCACCGCAACTTCAGGGAGATAAGACTAG--A-TGCG
1 --ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTA
* * * *
34369964 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTA
* * ***
34370007 ATCCGCTCCACTGCAACTTCAGGGAGATATGA-TTGTCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AATTTTA
* ** *
34370051 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAT-TTTA
* * * * * *
34370096 GTCTGC-CTCACTGTAACTTTA-GAAGGATAAGACTTGCTAA-CTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTG-TAATTTTA
* * * ***
34370140 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTA
* * * *
34370181 ATTTGCT-CTCTGCAACTTCAGAGG-GATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTTGTAATTTTA
* * *
34370224 ATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGTCAACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AATTTTA
34370268 ATCTGCT
1 ATCTGCT
34370275 TCCCACTATC
Statistics
Matches: 357, Mismatches: 96, Indels: 63
0.69 0.19 0.12
Matches are distributed among these distances:
39 2 0.01
40 44 0.12
41 10 0.03
42 2 0.01
43 31 0.09
44 193 0.54
45 72 0.20
46 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTA
Found at i:34370084 original size:217 final size:216
Alignment explanation
Indices: 34369709--34370274 Score: 961
Period size: 217 Copynumber: 2.6 Consensus size: 216
34369699 TGCTTCAATC
*
34369709 TTGTCCACCGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGAT
1 TTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGAT
* *
34369774 AAGATTTGTAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTG
66 AAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTG
* * *
34369839 CTCTACTGCAACTTTAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCAGGAG
131 CTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCAGAAG
*
34369904 GATAAGACTTGCTTACTTAGT
196 GATAAGACTTGCTAACTTAGT
34369925 ATTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGA
1 -TTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGA
*
34369990 TAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTGTCGGCTTTAATCT
65 TAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCT
*
34370055 GCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTTAGAA
130 GCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCAGAA
34370120 GGATAAGACTTGCTAACTTAGT
195 GGATAAGACTTGCTAACTTAGT
* * * * *
34370142 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTCAGAGGGA
1 TTG-TCCACCGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGA
* **
34370207 TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCAACTTTAATCT
65 TAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCT
34370272 GCT
130 GCT
34370275 TCCCACTATC
Statistics
Matches: 330, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
216 2 0.01
217 328 0.99
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (216 bp):
TTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGAT
AAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTG
CTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCAGAAG
GATAAGACTTGCTAACTTAGT
Found at i:34370345 original size:44 final size:44
Alignment explanation
Indices: 34370297--34370475 Score: 116
Period size: 44 Copynumber: 4.1 Consensus size: 44
34370287 GGAAATATAT
*
34370297 GATTTGTCGTATTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 GATTTGTCGTATTCAATCTGCTCCACTACTGCTTAGGGAGATAA
* * * * * * * * * *
34370341 GATTT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAAACAA
1 GATTTGTC-GTATTCAATCTGCTCCACTACTGCTTAGGGAGATAA
* * ** * *
34370385 GGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAA
1 -GATTTGTCGTATTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAA
*
34370429 GATTTGTCGTATTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 GATTTGTCGTATTCAATCTGCTCCACTACTGCTTAGGGAGATAA
34370473 GAT
1 GAT
34370476 CTACAATTTT
Statistics
Matches: 93, Mismatches: 32, Indels: 20
0.64 0.22 0.14
Matches are distributed among these distances:
42 6 0.06
43 10 0.11
44 66 0.71
45 7 0.08
46 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
GATTTGTCGTATTCAATCTGCTCCACTACTGCTTAGGGAGATAA
Found at i:34370418 original size:132 final size:132
Alignment explanation
Indices: 34370267--34370722 Score: 707
Period size: 132 Copynumber: 3.5 Consensus size: 132
34370257 TGTCAACTTT
* * *
34370267 AATCTGCTTCCCACTATCTTGGAAATATATGATTTGTCGTATTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTATTCGATCTGCTCCACTACTGCTTA
* * * *
34370332 GGGAGATAAGATTTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
34370397 TA
131 TA
*
34370399 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTATTCGATCTGCTCCACTACTGCTTA
34370464 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
34370529 TA
131 TA
* * ** * * *
34370531 AATCTGCTTCCCAATATCTTGGAAATATAAGATTCACCGTCTTTGATATGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTATTCGATCTGCTCCACTACTGCTTA
* * *
34370596 GGGAGATAAAATCTACAATTTTCAACCTTCTTCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
34370661 TA
131 TA
* * *
34370663 AATTTGCTTCCCACTATCTTGGATAGATAAGATTCG-CTGTCTTCGATCTGCTCCACTACT
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTC-GTATTCGATCTGCTCCACTACT
34370723 TACAATCTTC
Statistics
Matches: 299, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 298 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTATTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:34370557 original size:264 final size:246
Alignment explanation
Indices: 34370267--34370865 Score: 813
Period size: 264 Copynumber: 2.4 Consensus size: 246
34370257 TGTCAACTTT
* * *
34370267 AATCTGCTTCCCACTATCTTGGAAATATATGATTTGTCGTATTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
* * *
34370332 GGGAGATAAGATTTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACTGCTCAGGGAAACAAGGCTTGGTGGCT
*
34370397 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTG-TCGTATTCGATCTGCTCCACTACTGC
131 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCT-GTATTCGATCTGCTCCACTA---C
*
34370461 TTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
192 --------------T-TACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
34370526 GCTTA
242 GCTTA
* ** * *
34370531 AATCTGCTTCCCAATATCTTGGAAATATAAGATTCACCGTCTTTGATATGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
* * * *
34370596 GGGAGATAAAATCTACAATTTTCAACCTTCTTCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACTGCTCAGGGAAACAAGGCTTGGTGGCT
* * *
34370661 TAAATTTGCTTCCCACTATCTTGGATAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTTAC
131 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCTGTATTCGATCTGCTCCACTACTTAC
34370726 AATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
196 AATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
* * *
34370777 AATTTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
34370842 GGGAGATAAGATCTACAATTTTCA
66 GGGAGATAAGATCTACAATTTTCA
34370866 CTGATCTGTT
Statistics
Matches: 305, Mismatches: 29, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
246 133 0.44
247 1 0.00
261 1 0.00
264 169 0.55
265 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (246 bp):
AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACTGCTCAGGGAAACAAGGCTTGGTGGCT
TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCTGTATTCGATCTGCTCCACTACTTAC
AATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
Found at i:34370809 original size:114 final size:114
Alignment explanation
Indices: 34370609--34370836 Score: 404
Period size: 114 Copynumber: 2.0 Consensus size: 114
34370599 AGATAAAATC
* *
34370609 TACAATTTTCAACCTTCTTCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCC
1 TACAATCTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCC
*
34370674 CACTATCTTGGATAGATAAGATTCG-CTGTCTTCGATCTGCTCCACTACT
66 CACTATCTTGGAAAGATAAGATTCGTC-GTCTTCGATCTGCTCCACTACT
*
34370723 TACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCC
1 TACAATCTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCC
34370788 CACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACT
66 CACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACT
34370837 GTTTAGGGAG
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
114 108 0.99
115 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (114 bp):
TACAATCTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCC
CACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACT
Found at i:34372103 original size:20 final size:20
Alignment explanation
Indices: 34372075--34372117 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
34372065 TTGCCTCTCC
*
34372075 TTTTACTTTTACTTTTACTT
1 TTTTACTTTTACCTTTACTT
* *
34372095 TTTTCCTTTTTCCTTTACTT
1 TTTTACTTTTACCTTTACTT
34372115 TTT
1 TTT
34372118 CCTCTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTACTTTTACCTTTACTT
Found at i:34372110 original size:21 final size:21
Alignment explanation
Indices: 34372081--34372126 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
34372071 CTCCTTTTAC
*
34372081 TTTTACTTTTACTTTTTTC-CT
1 TTTTAC-TTTACTTTTTCCTCT
*
34372102 TTTTCCTTTACTTTTTCCTCT
1 TTTTACTTTACTTTTTCCTCT
34372123 TTTT
1 TTTT
34372127 TTTTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTACTTTACTTTTTCCTCT
Found at i:34378069 original size:19 final size:19
Alignment explanation
Indices: 34378042--34378116 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
34378032 AAATTAAATC
*
34378042 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34378061 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
34378082 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34378101 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
34378117 CTCAAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 32 0.65
21 17 0.35
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34378077 original size:21 final size:21
Alignment explanation
Indices: 34378053--34378115 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
34378043 CTAGGATTGC
34378053 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
**
34378074 ATATCATATCTTGGATTGC--
1 ATATCATATCTAAGATTGCAT
34378093 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
34378114 AT
1 AT
34378116 CCTCAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.47
21 19 0.53
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:34384199 original size:19 final size:19
Alignment explanation
Indices: 34384175--34384217 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
34384165 CGATTTAATT
34384175 TTGGATATAATTGAATATC
1 TTGGATATAATTGAATATC
*
34384194 TTGGATATGATTGAATATC
1 TTGGATATAATTGAATATC
34384213 TTGGA
1 TTGGA
34384218 AATGATTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (19 bp):
TTGGATATAATTGAATATC
Found at i:34384222 original size:19 final size:19
Alignment explanation
Indices: 34384184--34384225 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
34384174 TTTGGATATA
*
34384184 ATTGAATATCTTGGATATG
1 ATTGAATATCTTGGAAATG
34384203 ATTGAATATCTTGGAAATG
1 ATTGAATATCTTGGAAATG
34384222 ATTG
1 ATTG
34384226 TAATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (19 bp):
ATTGAATATCTTGGAAATG
Found at i:34387652 original size:44 final size:44
Alignment explanation
Indices: 34387585--34387763 Score: 279
Period size: 44 Copynumber: 4.1 Consensus size: 44
34387575 GTAGATAAAA
* *
34387585 TAATATTAAAATAACCTACACTAATTAGAGTTTAAATGAGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGAGAAAC
* * *
34387629 TAATATTAAAATAACCTATACTAATCAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGAGAAAC
*
34387673 TAATATTAAAATAACCTACAATAATCAAAGTTTAAAT-AGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGA-GAAAC
*
34387717 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGAGAAAC
34387761 TAA
1 TAA
34387764 AAACAGAGTT
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
44 123 0.99
45 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAAGTTTAAATGAGAAAC
Found at i:34399267 original size:44 final size:45
Alignment explanation
Indices: 34399190--34399277 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
34399180 ATAACTGTAA
* ** *
34399190 ATTAAATTATAGTTATTTTTAAATGTGCGATTATCA-AAATTTTT
1 ATTAAATTATAATTATTTTTAAATGAACAATTATCACAAATTTTT
*
34399234 ATTAAATTATAATTATTTTTAAATGAATAATTATCACAAATTTT
1 ATTAAATTATAATTATTTTTAAATGAACAATTATCACAAATTTT
34399278 AATTTACATC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 31 0.82
45 7 0.18
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.49
Consensus pattern (45 bp):
ATTAAATTATAATTATTTTTAAATGAACAATTATCACAAATTTTT
Found at i:34399778 original size:14 final size:14
Alignment explanation
Indices: 34399727--34399780 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
34399717 AAAAAATATA
34399727 TATTTA-TA-TTA-
1 TATTTATTATTTAC
34399738 TATTATATTATATTAC
1 TATT-TATTAT-TTAC
*
34399754 TATTTACTATTTAC
1 TATTTATTATTTAC
*
34399768 TATTTTTTATTTA
1 TATTTATTATTTA
34399781 TTAAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
11 4 0.11
12 2 0.06
13 2 0.06
14 15 0.43
15 8 0.23
16 4 0.11
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTTATTATTTAC
Found at i:34401658 original size:20 final size:20
Alignment explanation
Indices: 34401621--34401658 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34401611 AAAAACTCAT
* *
34401621 CAAAACCTAGTTTTCGACGA
1 CAAAACCTAGATTCCGACGA
34401641 CAAAACCTAGATTCCGAC
1 CAAAACCTAGATTCCGAC
34401659 AAGCTTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (20 bp):
CAAAACCTAGATTCCGACGA
Found at i:34402830 original size:59 final size:60
Alignment explanation
Indices: 34402677--34402845 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 60
34402667 AGCACCGAAT
* * *
34402677 TTTTTAACGAATAACTGTAAATTAAATTATAATTATAATCATCACACTTTATCATCAAAA
1 TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATCATCACAATTTATCAGCAAAA
* * * *
34402737 CTTTTAACTAATAACTGTAAATTAAATTATAATTATAGTCATCACAATTTA-GAGCCAAA
1 TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATCATCACAATTTATCAGCAAAA
** * * *
34402796 TTTTTAACTAATAGTTGTGAATTAAATTATAATTATAATTATCTCAATTT
1 TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATCATCACAATTT
34402846 TTCCTATATT
Statistics
Matches: 95, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 48 0.51
60 47 0.49
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (60 bp):
TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATCATCACAATTTATCAGCAAAA
Found at i:34405926 original size:17 final size:17
Alignment explanation
Indices: 34405896--34405950 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
34405886 TGCAATTTGT
34405896 AATAA-AATACATAAATA
1 AATAATAATA-ATAAATA
*
34405913 GATAATAATAATAAATA
1 AATAATAATAATAAATA
34405930 AATAAATAA-AATAAATA
1 AAT-AATAATAATAAATA
34405947 AATA
1 AATA
34405951 GATGCCCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.03
17 24 0.71
18 9 0.26
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
AATAATAATAATAAATA
Found at i:34405931 original size:4 final size:4
Alignment explanation
Indices: 34405900--34405950 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
34405890 ATTTGTAATA
* *
34405900 AAAT ACAT AAAT AGAT -AAT -AAT -AAT AAAT AAAT AAAT AAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT
34405946 AAAT A
1 AAAT A
34405951 GATGCCCGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 8 0.20
4 29 0.71
5 4 0.10
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:34406026 original size:13 final size:13
Alignment explanation
Indices: 34406008--34406033 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34405998 AAAAAGTACT
34406008 AAATAAATAAATA
1 AAATAAATAAATA
34406021 AAATAAATAAATA
1 AAATAAATAAATA
34406034 GATGCCCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:34406109 original size:13 final size:13
Alignment explanation
Indices: 34406091--34406116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34406081 AAAAAGTACT
34406091 AAATAAATAAATA
1 AAATAAATAAATA
34406104 AAATAAATAAATA
1 AAATAAATAAATA
34406117 GATGCCCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:34406192 original size:13 final size:13
Alignment explanation
Indices: 34406174--34406199 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34406164 AAAAAGTACT
34406174 AAATAAATAAATA
1 AAATAAATAAATA
34406187 AAATAAATAAATA
1 AAATAAATAAATA
34406200 GATGCCCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:34406282 original size:83 final size:83
Alignment explanation
Indices: 34405924--34406270 Score: 694
Period size: 83 Copynumber: 4.2 Consensus size: 83
34405914 ATAATAATAA
34405924 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
1 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
34405989 AAAAAAGTAAAAAAGTAC
66 AAAAAAGTAAAAAAGTAC
34406007 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
1 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
34406072 AAAAAAGTAAAAAAGTAC
66 AAAAAAGTAAAAAAGTAC
34406090 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
1 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
34406155 AAAAAAGTAAAAAAGTAC
66 AAAAAAGTAAAAAAGTAC
34406173 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
1 TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
34406238 AAAAAAGTAAAAAAGTAC
66 AAAAAAGTAAAAAAGTAC
34406256 TAAATAAATAAATAA
1 TAAATAAATAAATAA
34406271 TTAAAATAAA
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 264 1.00
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.22
Consensus pattern (83 bp):
TAAATAAATAAATAAAATAAATAAATAGATGCCCGATGAAAAAAATAAAGAAAATATTTGAATAT
AAAAAAGTAAAAAAGTAC
Found at i:34407940 original size:94 final size:95
Alignment explanation
Indices: 34407774--34408303 Score: 236
Period size: 94 Copynumber: 5.8 Consensus size: 95
34407764 GTGTTACTTC
* * * *
34407774 AATCTACTCCACTGCAATTTCAGGGAGATTAGACTTATAGCTTTAATCTACTCCACTGTAACTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCCACTGCAACTTC
*
34407839 AGGGAGATGAGATTTGTAATTTTTCGTTTT
66 AGGGAGATAAGATTTGTAATTTTTCGTTTT
* * * * *
34407869 AATCTATTCTACTACAACTTCAGGGA-ATAAGATTTGTAGCCTTT-ATCTGCTCCACTGCAACTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTATAG-CTTTAATCTACTCCACTGCAACTT
* * * * * * * *
34407932 TATGGAGATAAGATTTGTTACTTGTAGCTTC
65 CAGGGAGATAAGATTTGTAATTTTTCGTTTT
* * * * * * * * * * * * * *
34407963 AAT-AAGTTCCA-TGCAACTTTAAGGAAATGAGATTTGTAGCTTTAATTTGCTCTAGTACAACTT
1 AATCTA-CTCCACTACAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCCACTGCAACTT
* * * * *
34408026 TAGAGAGATAAG----G---TTTATAGCTTT
65 CAGGGAGATAAGATTTGTAATTTTTCGTTTT
* * * * * * ** *
34408050 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTCAATCTACTTTACTGTAACT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTT-A-TAGCTTTAATCTACTCCACTGCAACT
*
34408114 TCAGGAAGATAAGATTTGTAA-----C--TTT
64 TCAGGGAGATAAGATTTGTAATTTTTCGTTTT
* * * * * * * *
34408139 AATCTACTCCACTACGACTTCAGGGAGATAAGATTTGT-GTTTTTAGTTTACTCCACTACAAGTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTATAG-CTTTAATCTACTCCACTGCAACTT
* *
34408203 CAGGGAGATAAGATTAGT-A----TC--TTC
65 CAGGGAGATAAGATTTGTAATTTTTCGTTTT
* * * * * * *
34408227 AATCTAATCCACTGCAACCTCAGGGAG--AAGATTTCTGGCTTTAATCTACTCCACTACAACTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCCACTGCAACTTC
34408290 AGGGAGATAAGATT
66 AGGGAGATAAGATT
34408304 CACCACGATG
Statistics
Matches: 333, Mismatches: 83, Indels: 47
0.72 0.18 0.10
Matches are distributed among these distances:
86 43 0.13
87 18 0.05
88 74 0.22
89 59 0.18
90 3 0.01
93 17 0.05
94 93 0.28
95 26 0.08
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (95 bp):
AATCTACTCCACTACAACTTCAGGGAGATAAGACTTATAGCTTTAATCTACTCCACTGCAACTTC
AGGGAGATAAGATTTGTAATTTTTCGTTTT
Found at i:34408159 original size:44 final size:44
Alignment explanation
Indices: 34407774--34408718 Score: 422
Period size: 44 Copynumber: 20.8 Consensus size: 44
34407764 GTGTTACTTC
* * * * * *
34407774 AATCTACTCCACTGCAATTTCAGGGAGATTAGACTTATAGCTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
** *
34407818 AATCTACTCCACTGTAACTTCAGGGAGATGAGATTTGTAATTTTTCGTTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGT-A----TC--TTT
* * *
34407869 AATCTATTCTACTACAACTTCAGGGA-ATAAGATTTGTAGCCTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTA-TCTTT
* * * *
34407913 -ATCTGCTCCACTGCAACTTTATGGAGATAAGATTTGT-TACTTGT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTAT-CTT-T
* * * * * * * *
34407957 AGCTTCAATAAGTTCCA-TGCAACTTTAAGGAAATGAGATTTGTAGCTTT
1 A--ATC--T-A-CTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* * * * * * * * *
34408006 AATTTGCTCTAGTACAACTTTAGAGAGATAAGGTTTATAGCTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* * * * ** *
34408050 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATT-TGTATCTTT
** ** * *
34408095 AATCTACTTTACTGTAACTTCAGGAAGATAAGATTTGTAACTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* * *
34408139 AATCTACTCCACTACGACTTCAGGGAGATAAGATTTGTGTTTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* * * * *
34408183 AGTTTACTCCACTACAAGTTCAGGGAGATAAGATTAGTATCTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* * * * **
34408227 AATCTAATCCACTGCAACCTCAGGGAG--AAGATTTCTGGCTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* *
34408269 AATCTACTCCACTACAACTTCAGGGAGATAAGATTCACCACG-ATGACTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATT-----TGTAT--CTTT
** * * *
34408319 AATC--CGTCCCACTACAACTTCAAGGGTATAGGATTTGTGGTTTGTAGCATT
1 AATCTAC-T-CCACTACAACTTC-AGGG---A-GA--TAAGATTTGTATCTTT
* * * * * * *
34408370 AATCTATTCCATTGCAATTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTG-TATCTTT
* * * *
34408415 AATCTGCTCCACTGCATCTTCAGGGAGATAACATTTGTTATCTTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTG-TATCTTT
* * * * *
34408460 AACCTGCTCCACTACAATTTTAGGGAGATAAGGTTTGTAGT-TTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTA-TCTTT
* * * * * * *
34408504 AATCTGCTCTACTGCCACTTCAGAGAGATAAGATTCAT-TGTCTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATT--TGTATCTTT
* * * *
34408549 AATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
1 AA-TCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* * * * * *
34408594 AATTTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTAT-TTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTG-TATCTTT
* ** * * *
34408638 CAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTAGT-TCTTC
1 -AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
* * * * * *
34408682 AATTTGCTCCACTGCAATTTCAAGGAGGTAAGATTTG
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTG
34408719 CCATGGTGAC
Statistics
Matches: 689, Mismatches: 161, Indels: 103
0.72 0.17 0.11
Matches are distributed among these distances:
42 34 0.05
43 56 0.08
44 283 0.41
45 152 0.22
46 34 0.05
47 4 0.01
48 1 0.00
49 6 0.01
50 60 0.09
51 49 0.07
52 2 0.00
53 1 0.00
54 1 0.00
55 2 0.00
57 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (44 bp):
AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTT
Found at i:34408564 original size:46 final size:46
Alignment explanation
Indices: 34408410--34408717 Score: 233
Period size: 45 Copynumber: 6.9 Consensus size: 46
34408400 AGATTCGCTA
* * * * *
34408410 TCTTCAA-TCTGCTCCACTGCATCTTCAGGGAGATAACATTTGTTA
1 TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATTG
* * * * * * * * *
34408455 TCTTTAA-CCTGCTCCACTACAATTTTAGGGAGATAAGGTTTGTAG
1 TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATTG
* * * *
34408500 T-TTTAA-TCTGCTCTACTGCCACTTCAGAGAGATAAGATTCATTG
1 TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATTG
* *
34408544 TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAG
1 TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATTG
* * * ** *
34408590 -CTTTAATT-TGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTA
1 TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATTG
* * * * *
34408634 TTTTCAA-TCTGCTCCACTGTAACTTTAGGGAGATAAGA-TTAGT-
1 TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATTG
* *
34408677 TCTTCAATT-TGCTCCACTGCAATTTCA-AGGAGGTAAGATTT
1 TCTTCAATTCTGCTCCACTGCAACTTCAGA-GAGATAAGATTT
34408718 GCCATGGTGA
Statistics
Matches: 210, Mismatches: 46, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
43 29 0.14
44 71 0.34
45 77 0.37
46 33 0.16
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (46 bp):
TCTTCAATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATTG
Found at i:34415725 original size:15 final size:14
Alignment explanation
Indices: 34415703--34415750 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
34415693 TACACTTTTT
*
34415703 AGTTTAGGGTTTAT
1 AGTTTAGGGTTTAA
* *
34415717 GGTTTTAGGATTTAA
1 AG-TTTAGGGTTTAA
34415732 AGTTTAGGGTTTAA
1 AGTTTAGGGTTTAA
34415746 GAGTT
1 -AGTT
34415751 AGTATTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (14 bp):
AGTTTAGGGTTTAA
Found at i:34415790 original size:14 final size:14
Alignment explanation
Indices: 34415704--34415786 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 14
34415694 ACACTTTTTA
*
34415704 GTTTAGGGTTTATG
1 GTTTAGGGTTTAAG
* *
34415718 GTTTTAGGATTTAAA
1 G-TTTAGGGTTTAAG
34415733 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
**
34415747 AG-TTAGTATTTAAG
1 -GTTTAGGGTTTAAG
** * *
34415761 GTTTAATGTCTATG
1 GTTTAGGGTTTAAG
34415775 GTTTAGGGTTTA
1 GTTTAGGGTTTA
34415787 TGGTGTAATG
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
13 1 0.02
14 39 0.75
15 12 0.23
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:34415978 original size:7 final size:7
Alignment explanation
Indices: 34415951--34416001 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
34415941 GTATGATTAT
*
34415951 GGTTTGG
1 GGTTTAG
*
34415958 GGTTTAA
1 GGTTTAG
34415965 GGTTTAG
1 GGTTTAG
34415972 GGTTTAG
1 GGTTTAG
*
34415979 GATTTTAG
1 G-GTTTAG
34415987 GGTTTAG
1 GGTTTAG
*
34415994 AGTTTAG
1 GGTTTAG
34416001 G
1 G
34416002 TAATGCAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:34415990 original size:22 final size:22
Alignment explanation
Indices: 34415960--34416001 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34415950 TGGTTTGGGG
*
34415960 TTTAAGGTTTAGGGTTTAGGAT
1 TTTAAGGTTTAGAGTTTAGGAT
*
34415982 TTTAGGGTTTAGAGTTTAGG
1 TTTAAGGTTTAGAGTTTAGG
34416002 TAATGCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (22 bp):
TTTAAGGTTTAGAGTTTAGGAT
Found at i:34416446 original size:154 final size:155
Alignment explanation
Indices: 34416270--34416578 Score: 611
Period size: 154 Copynumber: 2.0 Consensus size: 155
34416260 AAAACTAATT
34416270 TTAAAATAATTAATAGAATTATTAAAATTTTAAGATACCCAATTTAAATTATATTTTAATAGTAG
1 TTAAAATAATTAATAGAATTATTAAAATTTTAAGATACCCAATTTAAATTATATTTTAATAGTAG
34416335 AGGAAGAATTGTCTTCCATCATTATATTCAATTTTAAAATTGAACAATTAAATAATGTCATATTA
66 AGGAAGAATTGTCTTCCATCATTATATTCAATTTTAAAATTGAACAATTAAATAATGTCATATTA
34416400 AAAATTTTAAAAATTTAACAATTAA
131 AAAATTTTAAAAATTTAACAATTAA
34416425 TTAAAATAA-TAATAGAATTATTAAAATTTTAAGATACCCAATTTAAATTATATTTTAATAGTAG
1 TTAAAATAATTAATAGAATTATTAAAATTTTAAGATACCCAATTTAAATTATATTTTAATAGTAG
34416489 AGGAAGAATTGTCTTCCATCATTATATTCAATTTTAAAATTGAACAATTAAATAATGTCATATTA
66 AGGAAGAATTGTCTTCCATCATTATATTCAATTTTAAAATTGAACAATTAAATAATGTCATATTA
34416554 AAAATTTTAAAAATTTAACAATTAA
131 AAAATTTTAAAAATTTAACAATTAA
34416579 AAATAATGTC
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 145 0.94
155 9 0.06
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.39
Consensus pattern (155 bp):
TTAAAATAATTAATAGAATTATTAAAATTTTAAGATACCCAATTTAAATTATATTTTAATAGTAG
AGGAAGAATTGTCTTCCATCATTATATTCAATTTTAAAATTGAACAATTAAATAATGTCATATTA
AAAATTTTAAAAATTTAACAATTAA
Found at i:34416574 original size:39 final size:39
Alignment explanation
Indices: 34416518--34416595 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 39
34416508 CATTATATTC
34416518 AATTTTAAAATTGAACAATT-AAATAATGTCATATTAAA
1 AATTTTAAAATTGAACAATTAAAATAATGTCATATTAAA
* *
34416556 AATTTTAAAAATTTAACAATTAAAAATAATGTCATTTTAA
1 AATTTT-AAAATTGAACAATT-AAAATAATGTCATATTAA
34416596 TGTATCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 6 0.17
39 13 0.37
41 16 0.46
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (39 bp):
AATTTTAAAATTGAACAATTAAAATAATGTCATATTAAA
Found at i:34416797 original size:124 final size:126
Alignment explanation
Indices: 34416655--34416933 Score: 350
Period size: 126 Copynumber: 2.2 Consensus size: 126
34416645 CGTTTGGACC
* * * * *
34416655 AAAAATGCCACAACAATGTCTTAAAAATTATAC-AAAACGGCGCCGTTTGGTTACAGGAATTTGA
1 AAAAACGCCACAACAATGTATTAAAAATTATACAAAAACGACGCCGTTTGCTTACAGGAATTTAA
* *
34416719 -TTTTTAGTGGCATTTTTCTCCACAAT-GCCGCAAAAGGTATGGAATAGCGGCG-TTTGTTAT
66 CTTTTTAGTGGCATTTTTCT-CACAATCGCCGCAAAAGGTAAGCAATAGCGGCGTTTTG-TAT
** * * * * *
34416779 AAAAACGCCGTAACAATGTATTAAAAAGTGTACAAAAACTACGTCGTTTGCTTACAGGATTTTAA
1 AAAAACGCCACAACAATGTATTAAAAATTATACAAAAACGACGCCGTTTGCTTACAGGAATTTAA
* * *
34416844 CTTTTTAGTGGCATTTTTCTCAGAATCGCCGCAAAAGGTAAGCATTAGCGGCGTTTTGTCT
66 CTTTTTAGTGGCATTTTTCTCACAATCGCCGCAAAAGGTAAGCAATAGCGGCGTTTTGTAT
*
34416905 AAAAACGCTACAACAATGTATTAAAAATT
1 AAAAACGCCACAACAATGTATTAAAAATT
34416934 GTTCAGAATG
Statistics
Matches: 130, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
124 27 0.21
125 30 0.23
126 69 0.53
127 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (126 bp):
AAAAACGCCACAACAATGTATTAAAAATTATACAAAAACGACGCCGTTTGCTTACAGGAATTTAA
CTTTTTAGTGGCATTTTTCTCACAATCGCCGCAAAAGGTAAGCAATAGCGGCGTTTTGTAT
Found at i:34417057 original size:20 final size:20
Alignment explanation
Indices: 34417034--34417074 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
34417024 TGCACTCAGC
34417034 CCCTAATTCCCCTTCCAAAT
1 CCCTAATTCCCCTTCCAAAT
*
34417054 CCCTAATTCCCCTTCTAAAT
1 CCCTAATTCCCCTTCCAAAT
34417074 C
1 C
34417075 TCTTCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (20 bp):
CCCTAATTCCCCTTCCAAAT
Found at i:34417942 original size:13 final size:13
Alignment explanation
Indices: 34417926--34417966 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
34417916 GCTATAAGTT
34417926 TTGGTTAATGTTG
1 TTGGTTAATGTTG
34417939 TTGGTTAATGTT-
1 TTGGTTAATGTTG
*
34417951 CTGGTTAATGTTG
1 TTGGTTAATGTTG
34417964 TTG
1 TTG
34417967 CAAGTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.15, C:0.02, G:0.29, T:0.54
Consensus pattern (13 bp):
TTGGTTAATGTTG
Found at i:34417957 original size:12 final size:13
Alignment explanation
Indices: 34417927--34417963 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
34417917 CTATAAGTTT
*
34417927 TGGTTAATGTTGT
1 TGGTTAATGTTGC
34417940 TGGTTAATGTT-C
1 TGGTTAATGTTGC
34417952 TGGTTAATGTTG
1 TGGTTAATGTTG
34417964 TTGCAAGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.16, C:0.03, G:0.30, T:0.51
Consensus pattern (13 bp):
TGGTTAATGTTGC
Found at i:34418660 original size:33 final size:33
Alignment explanation
Indices: 34418620--34418685 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
34418610 GTCAATTTTT
*
34418620 TTAATTTCCATTTTAAAATTGCCGCAAAAACAA
1 TTAATTTCCATTTTAAAATTGCAGCAAAAACAA
34418653 TTAATTTCCATTTTAAAATTGCAGCAAAAACAA
1 TTAATTTCCATTTTAAAATTGCAGCAAAAACAA
34418686 CTCTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (33 bp):
TTAATTTCCATTTTAAAATTGCAGCAAAAACAA
Found at i:34419013 original size:20 final size:20
Alignment explanation
Indices: 34418990--34419028 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34418980 AGAACGAAAA
*
34418990 TATCTATATTATAATATTTG
1 TATCTATATAATAATATTTG
*
34419010 TATCTATATAATATTATTT
1 TATCTATATAATAATATTT
34419029 TAGTGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
TATCTATATAATAATATTTG
Found at i:34419116 original size:9 final size:9
Alignment explanation
Indices: 34419098--34419396 Score: 139
Period size: 9 Copynumber: 33.0 Consensus size: 9
34419088 AAATATATAT
34419098 CATAACTTA
1 CATAACTTA
*
34419107 CATAATTTA
1 CATAACTTA
*
34419116 CATAACTCA
1 CATAACTTA
34419125 CATAACTTA
1 CATAACTTA
34419134 CATAACTTA
1 CATAACTTA
34419143 -ATAACTTA
1 CATAACTTA
* *
34419151 TATATATCATA
1 CATA-A-CTTA
34419162 CCATAACTTA
1 -CATAACTTA
* *
34419172 AATAACTCA
1 CATAACTTA
*
34419181 AATAACTTA
1 CATAACTTA
*
34419190 CTTAACTTA
1 CATAACTTA
34419199 C-TAACTTA
1 CATAACTTA
* *
34419207 TAT-ACAT-
1 CATAACTTA
* *
34419214 CATATCATA
1 CATAACTTA
*
34419223 TCATAATTTA
1 -CATAACTTA
*
34419233 CATAACTCA
1 CATAACTTA
34419242 CATAACTTA
1 CATAACTTA
* *
34419251 CTTAGCTTA
1 CATAACTTA
*
34419260 -ATAGCTTA
1 CATAACTTA
* *
34419268 TATATATCATA
1 CATA-A-CTTA
*
34419279 TCATAATTTA
1 -CATAACTTA
**
34419289 CATAACTCG
1 CATAACTTA
34419298 CATAACTTA
1 CATAACTTA
*
34419307 CCTAACTTA
1 CATAACTTA
*
34419316 -ACAACTTA
1 CATAACTTA
* * *
34419324 TGTATATCATA
1 --CATAACTTA
34419335 TCATAACTTA
1 -CATAACTTA
*
34419345 CATAACTTG
1 CATAACTTA
34419354 CATAA--TA
1 CATAACTTA
*
34419361 CATAA-ATA
1 CATAACTTA
* * *
34419369 TATATCATA
1 CATAACTTA
*
34419378 TCATAAGTTA
1 -CATAACTTA
34419388 CATAACTTA
1 CATAACTTA
34419397 ATTATACTTA
Statistics
Matches: 218, Mismatches: 54, Indels: 36
0.71 0.18 0.12
Matches are distributed among these distances:
7 8 0.04
8 39 0.18
9 129 0.59
10 23 0.11
11 13 0.06
12 6 0.03
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:34419177 original size:56 final size:56
Alignment explanation
Indices: 34419107--34419351 Score: 328
Period size: 56 Copynumber: 4.3 Consensus size: 56
34419097 TCATAACTTA
* *
34419107 CATAATTTACATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAATTTACATAACTCACATAACTTACTTAACTTAATAACTTATATATATCATAT
* * * *
34419163 CATAACTTAAATAACTCAAATAACTTACTTAACTTACTAACTTATATACATCATATCATAT
1 CATAATTTACATAACTCACATAACTTACTTAACTTAATAAC-T-TAT--AT-ATATCATAT
* *
34419224 CATAATTTACATAACTCACATAACTTACTTAGCTTAATAGCTTATATATATCATAT
1 CATAATTTACATAACTCACATAACTTACTTAACTTAATAACTTATATATATCATAT
* * * *
34419280 CATAATTTACATAACTCGCATAACTTACCTAACTTAACAACTTATGTATATCATAT
1 CATAATTTACATAACTCACATAACTTACTTAACTTAATAACTTATATATATCATAT
*
34419336 CATAACTTACATAACT
1 CATAATTTACATAACT
34419352 TGCATAATAC
Statistics
Matches: 165, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
56 110 0.67
57 3 0.02
58 3 0.02
59 3 0.02
60 3 0.02
61 43 0.26
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (56 bp):
CATAATTTACATAACTCACATAACTTACTTAACTTAATAACTTATATATATCATAT
Found at i:34419186 original size:65 final size:61
Alignment explanation
Indices: 34419094--34419339 Score: 209
Period size: 61 Copynumber: 4.0 Consensus size: 61
34419084 TACAAAATAT
* * *
34419094 ATATCATAACTTACATAATTTACATAACTCACATAACTTACATAACTTA-ATAACTTATATATAT
1 ATATCATAACTTACATAACTCACATAACTCACATAACTTAC-TAACTTATAT-AC--AT-CATAT
34419158 C
61 C
* * * * *
34419159 ATACCATAACTTAAATAACTCAAATAACTTACTTAACTTACTAACTTATATACATCATATC
1 ATATCATAACTTACATAACTCACATAACTCACATAACTTACTAACTTATATACATCATATC
* * * * * *
34419220 ATATCATAATTTACATAACTCACATAACTTACTTAGCTTAATAGC-T-TAT--AT-ATATC
1 ATATCATAACTTACATAACTCACATAACTCACATAACTTACTAACTTATATACATCATATC
* * * * * *
34419276 ATATCATAATTTACATAACTCGCATAACTTACCTAACTTAAC-AACTTATGTATATCATATC
1 ATATCATAACTTACATAACTCACATAACTCACATAACTT-ACTAACTTATATACATCATATC
34419337 ATA
1 ATA
34419340 ACTTACATAA
Statistics
Matches: 153, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
56 43 0.28
57 4 0.03
58 2 0.01
59 3 0.02
60 3 0.02
61 51 0.33
62 2 0.01
64 9 0.06
65 36 0.24
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.37
Consensus pattern (61 bp):
ATATCATAACTTACATAACTCACATAACTCACATAACTTACTAACTTATATACATCATATC
Found at i:34419240 original size:117 final size:116
Alignment explanation
Indices: 34419090--34419339 Score: 358
Period size: 117 Copynumber: 2.1 Consensus size: 116
34419080 AACTTACAAA
* *
34419090 ATATATATCATAACTTACATAATTTACATAACTCACATAACTTACATAACTTAATAACTTATATA
1 ATATATATCATATCATACATAATTTACATAACTCACATAACTTACATAACTTAATAACTTATATA
*
34419155 TATCATACCATAACTTAAATAACTCAAATAACTTACTTAACTT-ACTAACTT
66 TATCATACCATAACTTAAATAACTCAAATAACTTACCTAACTTAAC-AACTT
* * * *
34419206 ATATACATCATATCATATCATAATTTACATAACTCACATAACTTACTTAGCTTAATAGCTTATAT
1 ATATATATCATATCATA-CATAATTTACATAACTCACATAACTTACATAACTTAATAACTTATAT
* * * **
34419271 ATATCATATCATAATTTACATAACTCGCATAACTTACCTAACTTAACAACTT
65 ATATCATACCATAACTTAAATAACTCAAATAACTTACCTAACTTAACAACTT
*
34419323 ATGTATATCATATCATA
1 ATATATATCATATCATA
34419340 ACTTACATAA
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
116 14 0.12
117 102 0.86
118 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (116 bp):
ATATATATCATATCATACATAATTTACATAACTCACATAACTTACATAACTTAATAACTTATATA
TATCATACCATAACTTAAATAACTCAAATAACTTACCTAACTTAACAACTT
Found at i:34425206 original size:446 final size:446
Alignment explanation
Indices: 34424373--34425264 Score: 1784
Period size: 446 Copynumber: 2.0 Consensus size: 446
34424363 AAATTATGGT
34424373 GTTTAATTATAATGGTTTTATTCATCGTTTTTAATGGAAATAATGTTAATTTATGTTGCATTTGT
1 GTTTAATTATAATGGTTTTATTCATCGTTTTTAATGGAAATAATGTTAATTTATGTTGCATTTGT
34424438 TTTTTTATATATTTCGTTTCTAACTCTTTGATTAATTTATTAGGAGAAACTAAAGGATAAAAAGG
66 TTTTTTATATATTTCGTTTCTAACTCTTTGATTAATTTATTAGGAGAAACTAAAGGATAAAAAGG
34424503 CGAAGAATGAAGCGATTGCTCCAAGTGATAGTTCTGTTAATGTTGACAACATTAATAATTAGATT
131 CGAAGAATGAAGCGATTGCTCCAAGTGATAGTTCTGTTAATGTTGACAACATTAATAATTAGATT
34424568 ATTATTGAAGTTTTGGGACCTAAAAGGTATGGTCAGGTTCGATTTTAAGGATCTTTTGTTAACCC
196 ATTATTGAAGTTTTGGGACCTAAAAGGTATGGTCAGGTTCGATTTTAAGGATCTTTTGTTAACCC
34424633 AACCCAATATTTTGGATCCAGCTCGTAGTAATACATGTCTTCGGGGAGTCAGGCTCAAGTTGAAG
261 AACCCAATATTTTGGATCCAGCTCGTAGTAATACATGTCTTCGGGGAGTCAGGCTCAAGTTGAAG
34424698 TTTAGAGGTTAAGAGACCAGATGGCTTAGATGCAAGTGAGCATAGTTGAGCAAATTACTCAATTT
326 TTTAGAGGTTAAGAGACCAGATGGCTTAGATGCAAGTGAGCATAGTTGAGCAAATTACTCAATTT
34424763 AAAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAAAAATATGAAGAACTCCAG
391 AAAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAAAAATATGAAGAACTCCAG
34424819 GTTTAATTATAATGGTTTTATTCATCGTTTTTAATGGAAATAATGTTAATTTATGTTGCATTTGT
1 GTTTAATTATAATGGTTTTATTCATCGTTTTTAATGGAAATAATGTTAATTTATGTTGCATTTGT
34424884 TTTTTTATATATTTCGTTTCTAACTCTTTGATTAATTTATTAGGAGAAACTAAAGGATAAAAAGG
66 TTTTTTATATATTTCGTTTCTAACTCTTTGATTAATTTATTAGGAGAAACTAAAGGATAAAAAGG
34424949 CGAAGAATGAAGCGATTGCTCCAAGTGATAGTTCTGTTAATGTTGACAACATTAATAATTAGATT
131 CGAAGAATGAAGCGATTGCTCCAAGTGATAGTTCTGTTAATGTTGACAACATTAATAATTAGATT
34425014 ATTATTGAAGTTTTGGGACCTAAAAGGTATGGTCAGGTTCGATTTTAAGGATCTTTTGTTAACCC
196 ATTATTGAAGTTTTGGGACCTAAAAGGTATGGTCAGGTTCGATTTTAAGGATCTTTTGTTAACCC
34425079 AACCCAATATTTTGGATCCAGCTCGTAGTAATACATGTCTTCGGGGAGTCAGGCTCAAGTTGAAG
261 AACCCAATATTTTGGATCCAGCTCGTAGTAATACATGTCTTCGGGGAGTCAGGCTCAAGTTGAAG
34425144 TTTAGAGGTTAAGAGACCAGATGGCTTAGATGCAAGTGAGCATAGTTGAGCAAATTACTCAATTT
326 TTTAGAGGTTAAGAGACCAGATGGCTTAGATGCAAGTGAGCATAGTTGAGCAAATTACTCAATTT
34425209 AAAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAAAAATATGAAGAACTCCAG
391 AAAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAAAAATATGAAGAACTCCAG
34425265 CTACAACTTA
Statistics
Matches: 446, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
446 446 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (446 bp):
GTTTAATTATAATGGTTTTATTCATCGTTTTTAATGGAAATAATGTTAATTTATGTTGCATTTGT
TTTTTTATATATTTCGTTTCTAACTCTTTGATTAATTTATTAGGAGAAACTAAAGGATAAAAAGG
CGAAGAATGAAGCGATTGCTCCAAGTGATAGTTCTGTTAATGTTGACAACATTAATAATTAGATT
ATTATTGAAGTTTTGGGACCTAAAAGGTATGGTCAGGTTCGATTTTAAGGATCTTTTGTTAACCC
AACCCAATATTTTGGATCCAGCTCGTAGTAATACATGTCTTCGGGGAGTCAGGCTCAAGTTGAAG
TTTAGAGGTTAAGAGACCAGATGGCTTAGATGCAAGTGAGCATAGTTGAGCAAATTACTCAATTT
AAAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAAAAATATGAAGAACTCCAG
Found at i:34425701 original size:43 final size:43
Alignment explanation
Indices: 34425653--34425906 Score: 370
Period size: 43 Copynumber: 5.9 Consensus size: 43
34425643 AGATCATTCT
* * * *
34425653 TATAAAAGCGTCGCTAAAGAACATAACCTTTAGCGGCATTTGC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTAGC
* *
34425696 TATAAAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTT-TC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTAGC
34425738 TTATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTAGC
1 -TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTAGC
34425782 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTAGC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTAGC
* *
34425825 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGCCTATC
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCG-TTAGC
* * *
34425869 T-TTAAA-CGCCGCTAAAGGACATGATCTTTAGCGGCGTT
1 TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTT
34425907 TATGTGAGAA
Statistics
Matches: 195, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.01
42 29 0.15
43 160 0.82
44 5 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (43 bp):
TATAAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTAGC
Found at i:34426102 original size:4 final size:4
Alignment explanation
Indices: 34426093--34426129 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
34426083 AAGGACAAGA
* *
34426093 AAAT AAAT AAAT AAAT AAAT ACAT AAAT AAAT GAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
34426130 TAGAGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:34426244 original size:19 final size:19
Alignment explanation
Indices: 34426206--34426263 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
34426196 ATGCAATTTG
34426206 TAATAAAATACATAAATAGA
1 TAATAAAATA-ATAAATAGA
34426226 TAATAATAATAAT-AATAGA
1 TAATAA-AATAATAAATAGA
34426245 TAAATAAAATAAATAAATA
1 T-AATAAAAT-AATAAATA
34426264 TATGCCCGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.29
20 16 0.47
21 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (19 bp):
TAATAAAATAATAAATAGA
Found at i:34426318 original size:18 final size:19
Alignment explanation
Indices: 34426296--34426346 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
34426286 GAAAAGATTT
34426296 GAATATAAAAAAAGTAAAA
1 GAATATAAAAAAAGTAAAA
*
34426315 -AATACTAAATAAA-TAAAA
1 GAATA-TAAAAAAAGTAAAA
34426333 GAAT-TAAAATAAAG
1 GAATATAAAA-AAAG
34426347 AAAGGACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
17 4 0.15
18 12 0.46
19 10 0.38
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.20
Consensus pattern (19 bp):
GAATATAAAAAAAGTAAAA
Found at i:34434150 original size:10 final size:10
Alignment explanation
Indices: 34434135--34434159 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34434125 CATGTAAAAT
34434135 ATAAAAAACA
1 ATAAAAAACA
34434145 ATAAAAAACA
1 ATAAAAAACA
34434155 ATAAA
1 ATAAA
34434160 TGAATCACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (10 bp):
ATAAAAAACA
Found at i:34442082 original size:17 final size:17
Alignment explanation
Indices: 34442046--34442092 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
34442036 AATTTAGAAT
*
34442046 AATTTT-TGAATTAGTG
1 AATTTTGTGATTTAGTG
*
34442062 AATTTTGTGATTTATTG
1 AATTTTGTGATTTAGTG
34442079 AATTTTGTGATTTA
1 AATTTTGTGATTTA
34442093 AAAAGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (17 bp):
AATTTTGTGATTTAGTG
Found at i:34443394 original size:45 final size:46
Alignment explanation
Indices: 34443298--34443481 Score: 282
Period size: 46 Copynumber: 4.0 Consensus size: 46
34443288 CATGGAAAAG
* * *
34443298 TGTGAAACGTAGGTATGGTATTTTAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
34443344 TGTGAAAATTAGGTATGGTGTTTCAATGAAG-AAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
34443389 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
34443435 TGTAAAAAGTAGGTATGGTATTTTC-GTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGT-GTTTCAGTGAAGAAAACCATACTGAGT
34443481 T
1 T
34443482 ATAGCATTGT
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 43 0.34
46 80 0.63
47 4 0.03
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:34443453 original size:91 final size:92
Alignment explanation
Indices: 34443298--34443481 Score: 282
Period size: 91 Copynumber: 2.0 Consensus size: 92
34443288 CATGGAAAAG
* * * *
34443298 TGTGAAACGTAGGTATGGTATTTTAGTGAAGAAAACCATACTGAGTTGTGAAAATTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTGTAAAAAGTAGGTATGGT
34443363 -GTTTCAATGAAG-AAACCATACTGAGT
66 AGTTTC-ATGAAGAAAACCATACTGAGT
*
34443389 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTAAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTGTAAAAAGTAGGTATGGT
* *
34443454 ATTTTCGTGAAGAAAACCATACTGAGT
66 AGTTTCATGAAGAAAACCATACTGAGT
34443481 T
1 T
34443482 ATAGCATTGT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
91 65 0.77
92 19 0.23
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (92 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTGTAAAAAGTAGGTATGGT
AGTTTCATGAAGAAAACCATACTGAGT
Found at i:34445382 original size:6 final size:6
Alignment explanation
Indices: 34445371--34445405 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
34445361 ATGGATCTTA
34445371 ACATAC ACATAC ACATAC ACATAC ACATAC ACATA
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATA
34445406 TATCACATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (6 bp):
ACATAC
Done.