Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 17 of 120
Found at i:4633197 original size:58 final size:58
Alignment explanation
Indices: 4633068--4633187 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
4633058 GGGCTTCAAC
*
4633068 AACTATATATGTATCATGTCTCCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
1 AACTATATCTGTATCATGTCTCCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
*
4633126 AACTATATCTGTATCATGTCTGCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
1 AACTATATCTGTATCATGTCTCCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
4633184 AACT
1 AACT
4633188 GTACTTGTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (58 bp):
AACTATATCTGTATCATGTCTCCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
Found at i:4633220 original size:58 final size:58
Alignment explanation
Indices: 4633068--4633205 Score: 188
Period size: 58 Copynumber: 2.4 Consensus size: 58
4633058 GGGCTTCAAC
* * * *
4633068 AACTATATATGTATCATGTCTCCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
1 AACTATATCTGTATCATATCTGCATCTAGAACTGTATCTGTATCATGTTTGCATCTGT
* *
4633126 AACTATATCTGTATCATGTCTGCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
1 AACTATATCTGTATCATATCTGCATCTAGAACTGTATCTGTATCATGTTTGCATCTGT
* *
4633184 AACTGTA-CTTGTATTATATCTG
1 AACTATATC-TGTATCATATCTG
4633206 TATTTGGAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
57 1 0.01
58 73 0.99
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (58 bp):
AACTATATCTGTATCATATCTGCATCTAGAACTGTATCTGTATCATGTTTGCATCTGT
Found at i:4633230 original size:58 final size:58
Alignment explanation
Indices: 4633068--4633232 Score: 170
Period size: 58 Copynumber: 2.8 Consensus size: 58
4633058 GGGCTTCAAC
* * * * *
4633068 AACTATATATGTATCATGTCTCCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
1 AACTATATCTGTATCATATCTGCATCTAGAACTGTATCTATATCATGTTTGCATCTGT
* * *
4633126 AACTATATCTGTATCATGTCTGCATCTATAACTGTATCTGTATCATGTTTGCATCTGT
1 AACTATATCTGTATCATATCTGCATCTAGAACTGTATCTATATCATGTTTGCATCTGT
* * * * * * * *
4633184 AACTGTA-CTTGTATTATATCTGTATTTGGAATTGTATTTATCTCATGTT
1 AACTATATC-TGTATCATATCTGCATCTAGAACTGTATCTATATCATGTT
4633233 CGACCTTCTG
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 1 0.01
58 92 0.99
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (58 bp):
AACTATATCTGTATCATATCTGCATCTAGAACTGTATCTATATCATGTTTGCATCTGT
Found at i:4645527 original size:17 final size:17
Alignment explanation
Indices: 4645505--4645552 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
4645495 ACGTGTTAAG
4645505 GAAAAATAAAAAAAGAA
1 GAAAAATAAAAAAAGAA
* *
4645522 GAAAAA-AGAAAAACAA
1 GAAAAATAAAAAAAGAA
4645538 -AACAAATAAAAAAAG
1 GAA-AAATAAAAAAAG
4645553 GGGGGGTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 2 0.08
16 11 0.44
17 12 0.48
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.04
Consensus pattern (17 bp):
GAAAAATAAAAAAAGAA
Found at i:4646514 original size:18 final size:19
Alignment explanation
Indices: 4646491--4646559 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
4646481 AAAATATATA
* *
4646491 AAAAAG-AAAGTAAAGAAG
1 AAAAAGAAAAGGAAAAAAG
4646509 AAAAAGAAAAGGAAAAAAG
1 AAAAAGAAAAGGAAAAAAG
* *
4646528 AAAACAGGAAATAGGAAATAGG
1 AAAA-A-GAAA-AGGAAAAAAG
*
4646550 AAATAGAAAA
1 AAAAAGAAAA
4646560 AACGGGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 6 0.14
19 15 0.36
20 5 0.12
21 5 0.12
22 11 0.26
ACGTcount: A:0.71, C:0.01, G:0.22, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAGGAAAAAAG
Found at i:4647582 original size:50 final size:50
Alignment explanation
Indices: 4647528--4647647 Score: 177
Period size: 50 Copynumber: 2.4 Consensus size: 50
4647518 AAGATTTGAA
* * **
4647528 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATGAGAT
1 GGGAAAGATTGAGGCCGCAACAGCAAACCCGATACCTTAAAAGATGAGAT
* *
4647578 GGGAAAGATTGAGGCCGCAACAGCAAACCCGATACCTTAGAAGATGTGAT
1 GGGAAAGATTGAGGCCGCAACAGCAAACCCGATACCTTAAAAGATGAGAT
*
4647628 GGGAAAGATTGAAGCCGCAA
1 GGGAAAGATTGAGGCCGCAA
4647648 TAGCGAATCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.36, C:0.18, G:0.31, T:0.15
Consensus pattern (50 bp):
GGGAAAGATTGAGGCCGCAACAGCAAACCCGATACCTTAAAAGATGAGAT
Found at i:4647843 original size:40 final size:41
Alignment explanation
Indices: 4647773--4647898 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 41
4647763 TTACATCATC
* * * * ** *
4647773 ATTCAAGTCTTTTATCCTTAATCAAGAAGGGTGGTTTGAAG
1 ATTCCAGTCTTTTACCCTTAATAAAAAAGGGCAGATTGAAG
*
4647814 ATTCCAGTCTTTTA-CCTTAATTAAAAAGGGCAGATTGAAG
1 ATTCCAGTCTTTTACCCTTAATAAAAAAGGGCAGATTGAAG
* * *
4647854 ATTCCAGTTTTTTTACCCTTAATAAAAAAGGACAGAATGAAG
1 ATTCCAG-TCTTTTACCCTTAATAAAAAAGGGCAGATTGAAG
4647896 ATT
1 ATT
4647899 TTGATCTTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 28 0.38
41 19 0.26
42 26 0.36
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (41 bp):
ATTCCAGTCTTTTACCCTTAATAAAAAAGGGCAGATTGAAG
Found at i:4647884 original size:42 final size:40
Alignment explanation
Indices: 4647808--4647898 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 40
4647798 GAAGGGTGGT
* *
4647808 TTGAAGATTCCAGTCTTTTACCTTAATTAAAAAGGGCAGA
1 TTGAAGATTCCAGTCTTTTACCTTAATAAAAAAGGACAGA
*
4647848 TTGAAGATTCCAGTTTTTTTACCCTTAATAAAAAAGGACAGA
1 TTGAAGATTCCAG-TCTTTTA-CCTTAATAAAAAAGGACAGA
*
4647890 ATGAAGATT
1 TTGAAGATT
4647899 TTGATCTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 13 0.29
41 6 0.13
42 26 0.58
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (40 bp):
TTGAAGATTCCAGTCTTTTACCTTAATAAAAAAGGACAGA
Found at i:4647909 original size:41 final size:42
Alignment explanation
Indices: 4647809--4647912 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
4647799 AAGGGTGGTT
* * *
4647809 TGAAGATTCCAG-TCTTTTA-CCTTAATTAAAAAGGGCAGAT
1 TGAAGATTCCAGATCTTTTACCCTTAATAAAAAAGGACAGAA
* *
4647849 TGAAGATTCCAGTTTTTTTACCCTTAATAAAAAAGGACAGAA
1 TGAAGATTCCAGATCTTTTACCCTTAATAAAAAAGGACAGAA
**
4647891 TGAAGATT-TTGATCTTTTACCC
1 TGAAGATTCCAGATCTTTTACCC
4647913 CGATCCTAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 12 0.22
41 16 0.30
42 26 0.48
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (42 bp):
TGAAGATTCCAGATCTTTTACCCTTAATAAAAAAGGACAGAA
Found at i:4647984 original size:39 final size:37
Alignment explanation
Indices: 4647902--4648305 Score: 201
Period size: 39 Copynumber: 10.4 Consensus size: 37
4647892 GAAGATTTTG
* * * *
4647902 ATCTTTTACCCCGATCCTAGAGTAGA-TCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTCACCAT---CCA
* *
4647941 ATCTCTTACCCCGAGCCTAGGGCAGATTGTAGCCATCCG
1 ATCTCTTACCCCGAGCCTAGGGCAGATT-CA-CCATCCA
* ** *
4647980 ATCTCTTAACTTGAGCCTAGGGCAGA-TCACTATCAACTA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTCACCATC--C-A
* * **
4648019 ATCTCTTACCCCGAGCCTGGGGCAGATTACTGCCATCTG
1 ATCTCTTACCCCGAGCCTAGGGCAGATT-C-ACCATCCA
* * * *
4648058 ATCTTTTACCCCAAGCTTGGGGCAGA-TCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTCACCAT---CCA
* * * * * * *
4648097 ATCTCCTGCCTCAAGCTTGGGGCAGATT-ACCATCATTCG
1 ATCTCTTACCCCGAGCCTAGGGCAGATTCACCATC---CA
* * *
4648136 ATCTTTTACCCCGAGCTTAGGGTAGA-TCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTCACCAT---CCA
* *
4648175 ATCTCTTACCCCGAGCCT-GAGGCAGATTGCAAGCATCCG
1 ATCTCTTACCCCGAGCCTAG-GGCAGATT-C-ACCATCCA
* * *
4648214 ATCTCTTACCCTGAGCATGGGGCAGA-TCACCATTAGCCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTCACCA-T--CCA
* *
4648253 ATCTCTTAGCCCGAGCCTAGGGCAGATTGCAGCCATTCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATT-CA-CCATCCA
4648292 ATCTCTTACCCCGA
1 ATCTCTTACCCCGA
4648306 TCATGGGGTA
Statistics
Matches: 280, Mismatches: 54, Indels: 62
0.71 0.14 0.16
Matches are distributed among these distances:
36 12 0.04
37 4 0.01
38 6 0.02
39 230 0.82
40 6 0.02
41 6 0.02
42 16 0.06
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
ATCTCTTACCCCGAGCCTAGGGCAGATTCACCATCCA
Found at i:4648313 original size:78 final size:78
Alignment explanation
Indices: 4647901--4648305 Score: 404
Period size: 78 Copynumber: 5.2 Consensus size: 78
4647891 TGAAGATTTT
* * * * *
4647901 GATCTTTTACCCCGATCCTAGAGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 GATCTCTTACCCCGAGCATAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
* *
4647966 ATTGTAGCCATCC
66 ATTGCAGCCATTC
* ** * * * * *
4647979 GATCTCTTAACTTGAGCCTAGGGCAGATCACTATCAACTAATCTCTTACCCCGAGCCTGGGGCAG
1 GATCTCTTACCCCGAGCATAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
* *
4648044 ATTACTGCCA-TC
66 ATTGCAGCCATTC
* * * * * * * * * *
4648056 TGATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCCAATCTCCTGCCTCAAGCTTGGGGCA
1 -GATCTCTTACCCCGAGCATAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCA
* *
4648121 GATTACCA-TCATTC
65 GATT-GCAGCCATTC
* * *
4648135 GATCTTTTACCCCGAGCTTAGGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GAGGCA
1 GATCTCTTACCCCGAGCATAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAG-GGCA
*
4648199 GATTGCAAG-CATCC
65 GATTGC-AGCCATTC
* * * *
4648213 GATCTCTTACCCTGAGCATGGGGCAGATCACCATTAGCCAATCTCTTAGCCCGAGCCTAGGGCAG
1 GATCTCTTACCCCGAGCATAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
4648278 ATTGCAGCCATTC
66 ATTGCAGCCATTC
*
4648291 AATCTCTTACCCCGA
1 GATCTCTTACCCCGA
4648306 TCATGGGGTA
Statistics
Matches: 266, Mismatches: 53, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
77 5 0.02
78 257 0.97
79 4 0.02
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (78 bp):
GATCTCTTACCCCGAGCATAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
ATTGCAGCCATTC
Found at i:4648315 original size:156 final size:156
Alignment explanation
Indices: 4647925--4648318 Score: 461
Period size: 156 Copynumber: 2.5 Consensus size: 156
4647915 ATCCTAGAGT
* * * *
4647925 AGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGTAGCCATCCGATCTCTTAAC
1 AGATCACCATCAGCCAATCTCTTAGCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCTTACC
** * * * * * *
4647990 TTGAGCCTAGGGCAGATCACTATCAACTAATCTCTTACCCCGAGCCTGGGGCAGATTACTGCCAT
66 CCGAGCATAGGGTAGATCACCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCAT
* * *
4648055 CTGATCTTTTACCCCAAGCTTGGGGC
131 CCGATCTCTTACCCCAAGCATGGGGC
* * * * * * *
4648081 AGATCACCATCAGCCAATCTCCT-GCCTCAAGCTTGGGGCAGATTACCA-TCATTCGATCTTTTA
1 AGATCACCATCAGCCAATCTCTTAGCC-CGAGCCTAGGGCAGATT-GCAGCCATTCGATCTCTTA
* * *
4648144 CCCCGAGCTTAGGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGATTGCAAG-
64 CCCCGAGCATAGGGTAGATCACCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTAC-AGC
**
4648208 CATCCGATCTCTTACCCTGAGCATGGGGC
128 CATCCGATCTCTTACCCCAAGCATGGGGC
* *
4648237 AGATCACCATTAGCCAATCTCTTAGCCCGAGCCTAGGGCAGATTGCAGCCATTCAATCTCTTACC
1 AGATCACCATCAGCCAATCTCTTAGCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCTTACC
* *
4648302 CCGATCATGGGGTAGAT
66 CCGAGCATAGGGTAGAT
4648319 TGCAGTTATC
Statistics
Matches: 195, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
155 4 0.02
156 186 0.95
157 5 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (156 bp):
AGATCACCATCAGCCAATCTCTTAGCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTCTTACC
CCGAGCATAGGGTAGATCACCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCAT
CCGATCTCTTACCCCAAGCATGGGGC
Found at i:4648715 original size:210 final size:211
Alignment explanation
Indices: 4648329--4649396 Score: 1135
Period size: 210 Copynumber: 5.2 Consensus size: 211
4648319 TGCAGTTATC
* * * *
4648329 CAAAACAAATGAGGTGGTCATCTTCCTGATGAGGTACT-GAGAAGTAGACCAAATCAATGAAACC
1 CAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTAGAGAAGTAGACCAAATTAATGAAA-C
* * * * * * * *
4648393 AAAGCTCGATATGAGCAAAACTTCGAA-CCCAACTTCCTGATAAGATATTGAGAAGCAGGTCAAA
65 AAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
** * * ** * * *
4648457 GCAATAAAATGG-TCAACTTCCAGATGAGATACAAAGAAGTAAACCAAATTCATCTTTCTGATGA
130 GCAATAAAATGGTTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGA
4648521 GATACAAAAAAGCGGAT
195 GATACAAAAAAGCGGAT
** * * *
4648538 TGAAACAAGTGAGGCGATCATCTTCCTGATGAGATA-TAGAGAAGTATACCAACTTAATGAAACA
1 CAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTAGAGAAGTAGACCAAATTAATGAAACA
* *
4648602 AAGCTCAAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAA
66 AAGCTC-AATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
* *
4648667 GCAATAAAATGGTTAG-CTTCCTGATGAGATACAGGGAAGTGGACCAAATCCATCTTCCTAATGA
130 GCAATAAAATGGTTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGA
* * *
4648731 GATATAGAGAAGCGGAT
195 GATACAAAAAAGCGGAT
** * ** * **
4648748 TGAAACAAGCGAGATGGTCATCTTCCTGATGAGATAC-AGAGAAGTATACCAACCTAATGAAACA
1 CAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTAGAGAAGTAGACCAAATTAATGAAACA
* * *
4648812 AAGCTTAAATGTGAGCGAAACTTCGAATCCCAGCTTTCTGATGAGGTACTGAGAAGCAGGTCGAA
66 AAGC-TCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
* * *
4648877 GCAAT-AAA-GCTATCGTCTTCTTGATGAGATATAGAGAAGTGGACCAAATCCATCTTCCTAATG
130 GCAATAAAATGGT-TCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATG
* *
4648940 AAATACAAAGAAA-CAGAT
194 AGATACAAA-AAAGCGGAT
* *
4648958 CAAAACAAGTGATGCGATCATCTTCCTGATGAGATACT-GAGAAGTAGA-C------------CA
1 CAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTAGAGAAGTAGACCAAATTAATGAAACA
* * * *
4649009 AAGCTTAATGTGAGCGAAACTTCGAACCCCAACTTCCTGATGGGGTACTAAGAAGCAGGTCGAAG
66 AAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAG
* * *
4649074 CAATAAAATGG-TCGTCTTCCCGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTAATGAC
131 CAATAAAATGGTTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGAG
* * *
4649138 ATATAGAGAAGCGGAT
196 ATACAAAAAAGCGGAT
* * * * *
4649154 CAAAATAAGTGATGCGGTCATCTTCTTGATAAGATACTA-AGAAGTAGACCAAATCAATGAAACC
1 CAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTAGAGAAGTAGACCAAATTAATGAAA-C
* * *
4649218 AAAGCTCAATGTGAGCGAAACTTCTAACCCTAGCTTCGTGATGAGGTACTGAGAAGCAGGTCGAA
65 AAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAA
* * * * * *
4649283 GCAATAAAATAG-TCGTCTTCCTGATAAGATACATAGAAGTGGACCAAATCTATTTTCCTGATGA
130 GCAATAAAATGGTTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGA
* ***
4649347 GACACAGGGAAGCGGAT
195 GATACAAAAAAGCGGAT
* * * ** *
4649364 CAAAATAAGGGATGCGGTTGTTTTCCTGATGAG
1 CAAAACAAGTGAGGCGGTCATCTTCCTGATGAG
4649397 TAGACAGAAT
Statistics
Matches: 728, Mismatches: 103, Indels: 55
0.82 0.12 0.06
Matches are distributed among these distances:
195 2 0.00
196 159 0.22
197 10 0.01
198 1 0.00
208 11 0.02
209 74 0.10
210 467 0.64
211 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (211 bp):
CAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTAGAGAAGTAGACCAAATTAATGAAACA
AAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAG
CAATAAAATGGTTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGAG
ATACAAAAAAGCGGAT
Found at i:4649115 original size:406 final size:409
Alignment explanation
Indices: 4648342--4649493 Score: 1265
Period size: 406 Copynumber: 2.8 Consensus size: 409
4648332 AACAAATGAG
* * * *
4648342 GTGGTCATCTTCCTGATGAGGTACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATATGA
1 GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGA
* * * * * * * * *
4648407 GCAAAACTTCGAACCCAACTTCCTGATAAGATATTGAGAAGCAGGTCAAAGCAATAAAATGGTCA
66 GCGAAACTTCGAACCCAGCTTTCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAAT-ATCG
* * ** * * * *
4648472 ACTTCCAGATGAGATACAAAGAAGTAAACCAAATTCATCTTTCTGATGAGATACAAAAAAGCGGA
130 TCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAAATACAAAAAAGCAGA
**
4648537 TTGAAACAAGTGAGGCGATCATCTTCCTGATGAGATATAGAGAAGTATACCAACTTAATGAAACA
195 TCAAAACAAGTGAGGCGATCATCTTCCTGATGAGATATAGAGAAG-------A--TAATGAAACA
*
4648602 AAGCTCAAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAA
251 AAGCTCAAATGTGAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAGGTCGAA
* * *
4648667 GCAATAAAATGGTTAGCTTCCTGATGAGATACAGGGAAGTGGACCAAATCCATCTTCCTAATGAG
316 GCAATAAAATGGTTAGCTTCCCGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGAC
**
4648732 ATATAGAGAAGCGGATTGAAACAAGCGA-
381 ATATAGAGAAGCGGATCAAAACAAGCGAT
* * *
4648760 GATGGTCATCTTCCTGATGAGATACAGAGAAGTATACC-AACCTAATGAAA-CAAAGCTTAAATG
1 G-TGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATC-AATGAAACCAAAGC-TCAATG
*
4648823 TGAGCGAAACTTCGAATCCCAGCTTTCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAGCT
63 TGAGCGAAACTTCGAA-CCCAGCTTTCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAA-AT
* * * *
4648888 ATCGTCTTCTTGATGAGATATAGAGAAGTGGACCAAATCCATCTTCCTAATGAAATACAAAGAAA
126 ATCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAAATACAAA-AAA
* *
4648953 -CAGATCAAAACAAGTGATGCGATCATCTTCCTGATGAGATACT-GAGAAG-T-A-G-ACCAAAG
190 GCAGATCAAAACAAGTGAGGCGATCATCTTCCTGATGAGATA-TAGAGAAGATAATGAAACAAAG
* * *
4649012 CT-TAATGTGAGCGAAACTTCGAACCCCAACTTCCTGATGGGGTACTAAGAAGCAGGTCGAAGCA
254 CTCAAATGTGAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCA
* *
4649076 ATAAAATGG-TCGTCTTCCCGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTAATGACAT
319 ATAAAATGGTTAG-CTTCCCGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGACAT
* *
4649140 ATAGAGAAGCGGATCAAAATAAGTGAT
383 ATAGAGAAGCGGATCAAAACAAGCGAT
* * *
4649167 GCGGTCATCTTCTTGATAAGATACTA-AGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTG
1 GTGGTCATCTTCCTGATGAGATAC-AGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTG
*
4649231 AGCGAAACTTCTAACCCTAGC-TTCGTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATAG
65 AGCGAAACTTCGAACCC-AGCTTTC-TGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATA-
* * * * * * ***
4649295 TCGTCTTCCTGATAAGATACATAGAAGTGGACCAAATCTATTTTCCTGATGAGACACAGGGAAGC
127 TCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAAATACAAAAAAGC
* * * * * ** * * * *
4649360 GGATCAAAATAAGGGATGCGGTTGTTTTCCTGATGAG-TAGACAGAA-TTAATGAAACTAAAGCT
192 AGATCAAAACAAGTGAGGCGATCATCTTCCTGATGAGATATAGAGAAGATAATGAAAC-AAAGCT
* * * ** ** * * *
4649423 C-GATGCGAGCAAAACTTCGAACCCCAGTTTCCCAATGAGATACGAAGAAGCAGATTGAAGCAAT
256 CAAATGTGAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAAT
4649487 AAAATGG
321 AAAATGG
4649494 CCATCTTCTT
Statistics
Matches: 623, Mismatches: 88, Indels: 55
0.81 0.11 0.07
Matches are distributed among these distances:
405 19 0.03
406 312 0.50
407 20 0.03
408 3 0.00
409 65 0.10
410 1 0.00
418 10 0.02
419 58 0.09
420 130 0.21
421 5 0.01
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (409 bp):
GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGA
GCGAAACTTCGAACCCAGCTTTCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATATCGT
CTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAAATACAAAAAAGCAGAT
CAAAACAAGTGAGGCGATCATCTTCCTGATGAGATATAGAGAAGATAATGAAACAAAGCTCAAAT
GTGAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAAT
GGTTAGCTTCCCGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTAATGACATATAGAGAA
GCGGATCAAAACAAGCGAT
Found at i:4649146 original size:37 final size:37
Alignment explanation
Indices: 4649086--4649157 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
4649076 ATAAAATGGT
* * *
4649086 CGTCTTCCCGATGAGATACAGAGAAGTGGACCAAATC
1 CGTCTTCCCAATGACATACAGAGAAGCGGACCAAATC
* * *
4649123 CGTCTTCCTAATGACATATAGAGAAGCGGATCAAA
1 CGTCTTCCCAATGACATACAGAGAAGCGGACCAAA
4649158 ATAAGTGATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (37 bp):
CGTCTTCCCAATGACATACAGAGAAGCGGACCAAATC
Found at i:4649157 original size:196 final size:201
Alignment explanation
Indices: 4648378--4649537 Score: 903
Period size: 210 Copynumber: 5.7 Consensus size: 201
4648368 AGAAGTAGAC
** * * * * * *
4648378 CAAATCAATGAAACCAAAGCTCGATATGAGCAAAACTTCGAA-CCCAACTTCCTGATAAGATATT
1 CAAAT-AATG-AACCAAAGCTTAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACT
* ** * * ** *
4648442 GAGAAGCAGGTCAAAGCAATAAAATGGTCAACTTCCAGATGAGATACAAAGAAGTAAACCAAATT
64 GAGAAGCAGGTCGAAGCAATAAAAT-GTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
* * * * * ** * * *
4648507 CATCTTTCTGATGAGATACAAAAAAGCGGATTGAAACAAGTGAGGCGATCATCTTCCTGATGAGA
128 CATCTTCCTAATGAAATACAGAGAAGCGGATCAAAATAAGTGATGCGATCATCTTCCTGATAAGA
*
4648572 TA-TAGAGAAGTATAC
193 TACT-----AG--TAG
* * * *
4648587 CAACTTAATGAAACAAAGCTCAAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACT
1 CAA-ATAATGAACCAAAGCT-TAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACT
* * *
4648652 AAGAAGCAGGTCGAAGCAATAAAATGGTTAG-CTTCCTGATGAGATACAGGGAAGTGGACCAAAT
64 GAGAAGCAGGTCGAAGCAATAAAAT-G-TCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAAT
* * ** * * *
4648716 CCATCTTCCTAATGAGATATAGAGAAGCGGATTGAAACAAGCGAGATG-G-TCATCTTCCTGATG
127 CCATCTTCCTAATGAAATACAGAGAAGCGGATCAAAATAA--GTGATGCGATCATCTTCCTGATA
* *
4648779 AGATACAGAGAAGTATAC
190 AGATAC----TAG--TAG
* * * *
4648797 CAACCTAATGAAACAAAGCTTAAATGTGAGCGAAACTTCGAATCCCAGCTTTCTGATGAGGTACT
1 CAA-ATAATGAACCAAAGCTT-AATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACT
* * * *
4648862 GAGAAGCAGGTCGAAGCAATAAAGCTATCGTCTTCTTGATGAGATATAGAGAAGTGGACCAAATC
64 GAGAAGCAGGTCGAAGCAATAAA-ATGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
* * * * *
4648927 CATCTTCCTAATGAAATACAAAGAAACAGATCAAAACAAGTGATGCGATCATCTTCCTGATGAGA
128 CATCTTCCTAATGAAATACAGAGAAGCGGATCAAAATAAGTGATGCGATCATCTTCCTGATAAGA
4648992 TACT-G-AG
193 TACTAGTAG
* * * *
4648999 -AAGT-A-G-ACCAAAGCTTAATGTGAGCGAAACTTCGAACCCCAACTTCCTGATGGGGTACTAA
1 CAAATAATGAACCAAAGCTTAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGA
* *
4649060 GAAGCAGGTCGAAGCAATAAAATGGTCGTCTTCCCGATGAGATACAGAGAAGTGGACCAAATCCG
66 GAAGCAGGTCGAAGCAATAAAAT-GTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCA
* * * *
4649125 TCTTCCTAATGACATATAGAGAAGCGGATCAAAATAAGTGATGCGGTCATCTTCTTGATAAGATA
130 TCTTCCTAATGAAATACAGAGAAGCGGATCAAAATAAGTGATGCGATCATCTTCCTGATAAGATA
4649190 CTAAGAAGTAG
195 CT----AGTAG
* * * *
4649201 ACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCTAACCCTAGCTTCGTGATGAGGTA
1 --CAAAT-AATG-AACCAAAGCTTAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTA
* *
4649266 CTGAGAAGCAGGTCGAAGCAATAAAATAGTCGTCTTCCTGATAAGATACATAGAAGTGGACCAAA
62 CTGAGAAGCAGGTCGAAGCAATAAAAT-GTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAA
* * * * * * * * ** * *
4649331 TCTATTTTCCTGATGAGACACAGGGAAGCGGATCAAAATAAGGGATGCGGTTGTTTTCCTGATGA
126 TCCATCTTCCTAATGAAATACAGAGAAGCGGATCAAAATAAGTGATGCGATCATCTTCCTGATAA
* *
4649396 G-TA-GA-CAG
191 GATACTAGTAG
* * ** * * * ** *
4649404 -AATTAATGAAACTAAAGCTCGATGCGAGCAAAACTTCGAACCCCAGTTTCCCAATGAGATAC-G
1 CAAATAATG-AACCAAAGCTTAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTG
* * * * * * *** *
4649467 AAGAAGCAGATTGAAGCAATAAAATGGCCATCTTCTTGACGAGACGTAGAGAAGTGAACCAAATC
65 -AGAAGCAGGTCGAAGCAATAAAAT-GTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
*
4649532 CGTCTT
128 CATCTT
4649538 TCTAGTAAAA
Statistics
Matches: 792, Mismatches: 127, Indels: 74
0.80 0.13 0.07
Matches are distributed among these distances:
195 1 0.00
196 155 0.20
197 9 0.01
198 2 0.00
199 102 0.13
200 4 0.01
201 3 0.00
202 3 0.00
203 2 0.00
204 1 0.00
205 4 0.01
207 1 0.00
208 15 0.02
209 29 0.04
210 454 0.57
211 3 0.00
212 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (201 bp):
CAAATAATGAACCAAAGCTTAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTACTGA
GAAGCAGGTCGAAGCAATAAAATGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCAT
CTTCCTAATGAAATACAGAGAAGCGGATCAAAATAAGTGATGCGATCATCTTCCTGATAAGATAC
TAGTAG
Found at i:4655539 original size:31 final size:31
Alignment explanation
Indices: 4655504--4655565 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
4655494 TTACAAAATG
4655504 GTCATTAAACTATTCAAAAGTTTTCATTTAA
1 GTCATTAAACTATTCAAAAGTTTTCATTTAA
* * ** *
4655535 GTCATTGAATTATTTGAAAGTTTTTATTTAA
1 GTCATTAAACTATTCAAAAGTTTTCATTTAA
4655566 ATCGTTAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (31 bp):
GTCATTAAACTATTCAAAAGTTTTCATTTAA
Found at i:4656080 original size:20 final size:20
Alignment explanation
Indices: 4656039--4656099 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 20
4656029 TTTAAATAAA
**
4656039 TTTTACAATTT-TTTTATAAT
1 TTTTACAATTTATTAAAT-AT
4656059 TTTTACAATTTATTAAATA-
1 TTTTACAATTTATTAAATAT
4656078 -TTT--AATTTATTAAATAT
1 TTTTACAATTTATTAAATAT
4656095 TTTTA
1 TTTTA
4656100 TATTTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 13 0.37
18 6 0.17
20 12 0.34
21 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTACAATTTATTAAATAT
Found at i:4656084 original size:16 final size:16
Alignment explanation
Indices: 4656065--4656096 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4656055 TAATTTTTAC
4656065 AATTTATTAAATATTT
1 AATTTATTAAATATTT
4656081 AATTTATTAAATATTT
1 AATTTATTAAATATTT
4656097 TTATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTATTAAATATTT
Found at i:4658987 original size:17 final size:16
Alignment explanation
Indices: 4658960--4659013 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
4658950 AAATGTTCGA
4658960 TTATCATTTTTATTTG
1 TTATCATTTTTATTTG
*
4658976 TTATCAATTTTTATTATT
1 TTATC-ATTTTTATT-TG
*
4658994 TTATCATTATTATTTTG
1 TTATCATTTTTA-TTTG
4659011 TTA
1 TTA
4659014 ATGTTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.16
17 19 0.59
18 8 0.25
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (16 bp):
TTATCATTTTTATTTG
Found at i:4660191 original size:30 final size:30
Alignment explanation
Indices: 4660151--4660209 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
4660141 TGGCAACCCG
*
4660151 TGTGGCTCACATGGCCGTGTGT-CCAGCCTA
1 TGTGGATCACATGGCCGTGT-TCCCAGCCTA
*
4660181 TGTGGATCACATGGTCGTGTTCCCAGCCT
1 TGTGGATCACATGGCCGTGTTCCCAGCCT
4660210 GTATAGCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (30 bp):
TGTGGATCACATGGCCGTGTTCCCAGCCTA
Found at i:4660480 original size:31 final size:29
Alignment explanation
Indices: 4660442--4660518 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
4660432 AATGGTTCAA
* *
4660442 TGACTAAAATGTTACAATACATT-AACGTAAG
1 TGACTAAAATGTAAC-AT--ATTAAACATAAG
*
4660473 TGACTAAAATGTAACATTTTAAACATAAG
1 TGACTAAAATGTAACATATTAAACATAAG
4660502 TGACTAAAATGTAACAT
1 TGACTAAAATGTAACAT
4660519 GAGACAAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 2 0.05
31 14 0.33
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (29 bp):
TGACTAAAATGTAACATATTAAACATAAG
Found at i:4665373 original size:16 final size:16
Alignment explanation
Indices: 4665328--4665381 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
4665318 ATAAATATAG
4665328 AAAAATATAATCATGAA-
1 AAAAATATAAT--TGAAT
4665345 AAAAATAATAATTGAAT
1 AAAAAT-ATAATTGAAT
*
4665362 AAAAATATAATTAAAT
1 AAAAATATAATTGAAT
4665378 AAAA
1 AAAA
4665382 GGAAAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 17 0.50
17 12 0.35
18 5 0.15
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAAATATAATTGAAT
Found at i:4665561 original size:13 final size:13
Alignment explanation
Indices: 4665515--4665561 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4665505 TTAATAAAAA
*
4665515 AAATAACAATAAAT
1 AAATAA-AATAAAC
4665529 AAATAAAATTAAAC
1 AAATAAAA-TAAAC
*
4665543 -ACTAAAATAAAC
1 AAATAAAATAAAC
4665555 AAATAAA
1 AAATAAA
4665562 TACAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 5 0.18
13 13 0.46
14 10 0.36
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAAATAAAC
Found at i:4667735 original size:29 final size:29
Alignment explanation
Indices: 4667703--4667771 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
4667693 ATTTTTGAGG
*
4667703 AATTTGGGGTCAAAATTGAAATTTTGGAA
1 AATTTGGGGTCAAAATCGAAATTTTGGAA
* * ** *
4667732 AATTTAGGATTGAAATCGAACTTTTGGAA
1 AATTTGGGGTCAAAATCGAAATTTTGGAA
*
4667761 AATTTGAGGTC
1 AATTTGGGGTC
4667772 GAATGTGACT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (29 bp):
AATTTGGGGTCAAAATCGAAATTTTGGAA
Found at i:4667836 original size:29 final size:29
Alignment explanation
Indices: 4667804--4667901 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
4667794 GAGGTAAAGC
*
4667804 GGTAATTTTTGGATGTTCGAGGGCAAAAT
1 GGTAATTTTTGGATGTTCGAGGGAAAAAT
* *
4667833 GGTAATTTTTAGATGTTCGAGGGTAAAAT
1 GGTAATTTTTGGATGTTCGAGGGAAAAAT
*
4667862 GGTAATTTTTGGATATTCTG-GGGTAAAAAT
1 GGTAATTTTTGGATGTTC-GAGGG-AAAAAT
4667892 -GTAATTTTTG
1 GGTAATTTTTG
4667902 AAAATTTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
29 56 0.90
30 6 0.10
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.40
Consensus pattern (29 bp):
GGTAATTTTTGGATGTTCGAGGGAAAAAT
Found at i:4667952 original size:30 final size:30
Alignment explanation
Indices: 4667881--4668100 Score: 227
Period size: 30 Copynumber: 7.4 Consensus size: 30
4667871 TGGATATTCT
* * *
4667881 GGGGTAAAAATGTAATTTTTGAAAATTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
* * *
4667911 -AGGTAAAAATGTGATTTTAGAAAAGTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
*
4667940 GGGGTTAAAATGTAATTTTAGAGAAGTTT-
1 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
*
4667969 GGGAGTTAAAATGTAATTATT-GGAAAGTTTA
1 GGG-GTTAAAATGTAATT-TTAGAAAAGTTTA
* *
4668000 GGGGTTAAAATGTAATTTT--TAAGGATTTA
1 GGGGTTAAAATGTAATTTTAGAAAAG-TTTA
* * *
4668029 GAAGGTTAAAATGTAATTTTTA-AGAAGCTTA
1 G-GGGTTAAAATGTAA-TTTTAGAAAAGTTTA
*
4668060 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
4668090 GGGGTTAAAAT
1 GGGGTTAAAAT
4668101 ATGATTTCTA
Statistics
Matches: 160, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.02
29 39 0.24
30 103 0.64
31 13 0.08
32 2 0.01
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTAGAAAAGTTTA
Found at i:4669703 original size:6 final size:6
Alignment explanation
Indices: 4669684--4669751 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
4669674 TAGACATTAG
* * *
4669684 TAAATT TAAA-- TAAATT TAAACT TGAATT TATAA-- TAAATT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TA-AATT TAAATT TAAATT
*
4669729 TAAA-A TAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT
4669752 CTGTTTGGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
4 6 0.12
5 6 0.12
6 35 0.71
7 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:4669720 original size:23 final size:22
Alignment explanation
Indices: 4669686--4669729 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
4669676 GACATTAGTA
4669686 AATTTAAATAAATTTAAACTTG
1 AATTTAAATAAATTTAAACTTG
4669708 AATTTATAATAAATTTAAACTT
1 AATTTA-AATAAATTTAAACTT
4669730 AAAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTTAAATAAATTTAAACTTG
Found at i:4669735 original size:17 final size:17
Alignment explanation
Indices: 4669715--4669749 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4669705 TTGAATTTAT
4669715 AATAAATTTAAACTTAA
1 AATAAATTTAAACTTAA
*
4669732 AATAAATTTAAATTTAA
1 AATAAATTTAAACTTAA
4669749 A
1 A
4669750 TTCTGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:4670291 original size:78 final size:78
Alignment explanation
Indices: 4670162--4670622 Score: 489
Period size: 78 Copynumber: 5.9 Consensus size: 78
4670152 TATTGCTTCA
* * * * * * *
4670162 AATGACTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATTATGATCTGCCTCAGGCTCG
1 AATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCG
* *
4670227 GGGTAAAAGATAG
66 GGGTAAGAGATCG
* ** * * *
4670240 AATGACTGCAATCTGCCTTAGGCTCGGGGTAAGAGATTAGCTGATGATGATCTGCCTCAAGCTTG
1 AATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCG
4670305 GGGTAAGAGATCG
66 GGGTAAGAGATCG
* * * * * * *
4670318 GATGGTTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGTTGAT-AGTGATCTGCCCCAAGTTC
1 AATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGA-TGATCTGCCCCAAGCTC
4670382 GGGGT-AGAAGATCG
65 GGGGTAAG-AGATCG
* * * * * **
4670396 AATGGCTGCAATCTGCCCTAGACTAGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTTA
1 AATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCG
4670461 GGGTAAGAGATCG
66 GGGTAAGAGATCG
* * *
4670474 AATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGGCCCAGGCTCG
1 AATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCG
* *
4670539 GGATAAGAGACCG
66 GGGTAAGAGATCG
* * * * * *
4670552 GATGGCTGCAATCTGCCCC-GTGAC-CAGGGTAAGAGATTGGTTGATGGTGATCTACCCCAGGCT
1 AATGGCTGCAATCTGCCCCAG-G-CTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCT
*
4670615 TGGGGTAA
64 CGGGGTAA
4670623 AGGATCGGAA
Statistics
Matches: 318, Mismatches: 59, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
77 4 0.01
78 311 0.98
79 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (78 bp):
AATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCG
GGGTAAGAGATCG
Found at i:4670457 original size:156 final size:155
Alignment explanation
Indices: 4670167--4670631 Score: 571
Period size: 156 Copynumber: 3.0 Consensus size: 155
4670157 CTTCAAATGA
*
4670167 CTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATTA-TGATCTGCCTCAGGCTCGGGGT
1 CTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGCTGA-TAGTGATCTGCCCCAGGCTCGGGGT
* * * * * *
4670231 AAAAGATAGAATGACTGCAATCTGCCTTAGGCTCGGGGTAAGAGATTAGCTGATGATGATCTGCC
65 -AAAGATCGAATGGCTGCAATCTGCCCTAGACTAGGGGTAAGAGATTAGCTGATGGTGATCTGCC
*
4670296 TCAAGCTTGGGGTAAGAGATCGGATGG
129 CCAAGCTTGGGGTAAGAGATCGGATGG
* * * *
4670323 TTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGTTGATAGTGATCTGCCCCAAGTTCGGGGTA
1 CTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATAGTGATCTGCCCCAGGCTCGGGGTA
*
4670388 GAAGATCGAATGGCTGCAATCTGCCCTAGACTAGGGGTAAGAGATTTGCTGATGGTGATCTGCCC
66 -AAGATCGAATGGCTGCAATCTGCCCTAGACTAGGGGTAAGAGATTAGCTGATGGTGATCTGCCC
* *
4670453 CAAGCTTAGGGTAAGAGATCGAATGG
130 CAAGCTTGGGGTAAGAGATCGGATGG
* * * * * *
4670479 CTGCAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGAT-GATGATCTGGCCCAGGCTCGGGAT
1 CTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATAG-TGATCTGCCCCAGGCTCGGGGT
* * * * * *
4670543 AAGAGACCGGATGGCTGCAATCTGCCCCGT-GACCA-GGGTAAGAGATTGGTTGATGGTGATCTA
65 AA-AGATCGAATGGCTGCAATCTG-CCC-TAGACTAGGGGTAAGAGATTAGCTGATGGTGATCTG
*
4670606 CCCCAGGCTTGGGGTAA-AGGATCGGA
127 CCCCAAGCTTGGGGTAAGA-GATCGGA
4670632 ATCTTCAATC
Statistics
Matches: 268, Mismatches: 34, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
155 6 0.02
156 254 0.95
157 7 0.03
158 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (155 bp):
CTGCAATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATAGTGATCTGCCCCAGGCTCGGGGTA
AAGATCGAATGGCTGCAATCTGCCCTAGACTAGGGGTAAGAGATTAGCTGATGGTGATCTGCCCC
AAGCTTGGGGTAAGAGATCGGATGG
Found at i:4670621 original size:39 final size:38
Alignment explanation
Indices: 4670172--4670622 Score: 206
Period size: 39 Copynumber: 11.6 Consensus size: 38
4670162 AATGACTGCA
* * * **
4670172 ATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATTATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGG-TGATGGTG
* * * * **
4670211 ATCTGCCTCAGGCTCGGGGTAAAAGATAGAATGACT-GCA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTG-GTGA-TGGTG
** * *
4670250 ATCTGCCTTAGGCTCGGGGTAAGAGATTAGCTGATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATT-GGTGATGGTG
* * * *
4670289 ATCTGCCTCAAGCTTGGGGTAAGAGA-TCG-GATGGTTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGTGATGG-TG
* * * *
4670326 CAATCTGCCCCATGATCGAGGTAAGAGATTGGTTGATAGTG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGG-TGATGGTG
* * * *
4670367 ATCTGCCCCAAGTTCGGGGT-AGAAGA-TCG-AATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAG-AGATTGGTGATGG-TG
* * * *
4670404 CAATCTGCCCTAGACTAGGGGTAAGAGATTTGCTGATGGTG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGA-TTGGTGATGGTG
* ** * *
4670445 ATCTGCCCCAAGCTTAGGGTAAGAGA-TCG-AATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGTGATGG-TG
* *
4670482 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGATG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGG-TGATGGTG
* * **
4670523 ATCTGGCCCAGGCTCGGGATAAGAGA-CCG-GATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGTGATGG-TG
*
4670560 CAATCTGCCCC-GTGAC-CAGGGTAAGAGATTGGTTGATGGTG
1 --ATCTGCCCCAG-G-CTCGGGGTAAGAGATTGG-TGATGGTG
* *
4670601 ATCTACCCCAGGCTTGGGGTAA
1 ATCTGCCCCAGGCTCGGGGTAA
4670623 AGGATCGGAA
Statistics
Matches: 305, Mismatches: 73, Indels: 68
0.68 0.16 0.15
Matches are distributed among these distances:
36 15 0.05
37 9 0.03
38 9 0.03
39 236 0.77
40 11 0.04
41 9 0.03
42 16 0.05
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (38 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGTGATGGTG
Found at i:4682873 original size:29 final size:30
Alignment explanation
Indices: 4682841--4682905 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
4682831 AGAATGTGAC
*
4682841 TTTTGGAAAGTT-GAAGGAAAAACGGTAAT
1 TTTTGGAAAGTTCGAAGGAAAAACGATAAT
* * * *
4682870 TTTT-GAATGTTCGAGGGTAAAATGATAAT
1 TTTTGGAAAGTTCGAAGGAAAAACGATAAT
4682899 TTTTGGA
1 TTTTGGA
4682906 TTTTCGAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 6 0.21
29 21 0.72
30 2 0.07
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (30 bp):
TTTTGGAAAGTTCGAAGGAAAAACGATAAT
Found at i:4682911 original size:29 final size:29
Alignment explanation
Indices: 4682865--4682949 Score: 111
Period size: 29 Copynumber: 2.9 Consensus size: 29
4682855 AGGAAAAACG
*
4682865 GTAATTTTTGAATGTTCGAGGGTAAAAT-
1 GTAATTTTTGGATGTTCGAGGGTAAAATA
*
4682893 GATAATTTTTGGATTTTCGAGGGTAAAATA
1 G-TAATTTTTGGATGTTCGAGGGTAAAATA
*
4682923 GTAATTTTTTGATGTTC-AGGGGTAAAA
1 GTAATTTTTGGATGTTCGA-GGGTAAAA
4682950 ATATGTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
28 2 0.04
29 47 0.94
30 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (29 bp):
GTAATTTTTGGATGTTCGAGGGTAAAATA
Found at i:4682975 original size:29 final size:29
Alignment explanation
Indices: 4682943--4683018 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
4682933 GATGTTCAGG
* *
4682943 GGTAAAAATATGTTTTTTGAAAAGTTTAA
1 GGTAAAAATATGATTTTGGAAAAGTTTAA
* *
4682972 GGTAAAAATATGATTTTGGAAATGTTTAGG
1 GGTAAAAATATGATTTTGGAAAAGTTTA-A
* *
4683002 GGTTAAAATATAATTTT
1 GGTAAAAATATGATTTT
4683019 AAAGTAGTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (29 bp):
GGTAAAAATATGATTTTGGAAAAGTTTAA
Found at i:4683012 original size:30 final size:30
Alignment explanation
Indices: 4682934--4683167 Score: 115
Period size: 30 Copynumber: 7.9 Consensus size: 30
4682924 TAATTTTTTG
* * ** *
4682934 ATGTTCAGGGGTAAAAATATGTTTTTTGAA
1 ATGTTTAGGGGTTAAAATATAATTTTGGAA
* * * *
4682964 AAGTTTA-AGGTAAAAATATGATTTTGGAA
1 ATGTTTAGGGGTTAAAATATAATTTTGGAA
4682993 ATGTTTAGGGGTTAAAATATAATTTT--AA
1 ATGTTTAGGGGTTAAAATATAATTTTGGAA
** * *
4683021 AGTAGTTCGGGGGTCAAAATGTAATTTTTGGAA
1 A-T-GTTTAGGGGTTAAAATATAA-TTTTGGAA
* * *
4683054 A-GTTTAGAGGTTAAAATGTATTTTTAAGG-A
1 ATGTTTAGGGGTTAAAATATAATTTT--GGAA
* * *
4683084 AT-TTGA-GGGTTAAAATGTAATTTTTGACA
1 ATGTTTAGGGGTTAAAATATAATTTTGGA-A
* * * **
4683113 A-GGTTAAGGGTTAAAATGTAATTTTAAAA
1 ATGTTTAGGGGTTAAAATATAATTTTGGAA
* * *
4683142 ATGTTTAGGGGTCATAATATGATTTT
1 ATGTTTAGGGGTTAAAATATAATTTT
4683168 TAAAAGTTCA
Statistics
Matches: 158, Mismatches: 32, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
27 1 0.01
28 3 0.02
29 52 0.33
30 93 0.59
31 6 0.04
33 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (30 bp):
ATGTTTAGGGGTTAAAATATAATTTTGGAA
Found at i:4683059 original size:60 final size:60
Alignment explanation
Indices: 4682985--4683140 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 60
4682975 AAAAATATGA
* * * *
4682985 TTTTGGAAATGTTTAGGGGTTAAAATATAATTTTAAAGTAGTTCGGGGGTCAAAATGTAAT
1 TTTTGGAAA-GTTTAGGGGTTAAAATGTAATTTTAAAGGAATTCGAGGGTCAAAATGTAAT
* * * *
4683046 TTTTGGAAAGTTTAGAGGTTAAAATGT-ATTTTTAAGGAATTTGAGGGTTAAAATGTAAT
1 TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTAAAGGAATTCGAGGGTCAAAATGTAAT
* *
4683105 TTTT-GACAAGGTTAAGGGTTAAAATGTAATTTTAAA
1 TTTTGGA-AAGTTTAGGGGTTAAAATGTAATTTTAAA
4683141 AATGTTTAGG
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
58 2 0.02
59 47 0.58
60 23 0.28
61 9 0.11
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (60 bp):
TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTAAAGGAATTCGAGGGTCAAAATGTAAT
Found at i:4685149 original size:51 final size:50
Alignment explanation
Indices: 4684991--4685158 Score: 157
Period size: 50 Copynumber: 3.3 Consensus size: 50
4684981 TTATCCACTT
** * * *
4684991 CACTGCAACTTCAGAAAGAT-AATATTTACTTTTGTAACTTCAATCCTGCC
1 CACTGCAACTTCAGGGAGATAAAGATTTGCTTTTGTAACTTCAAT-CTGTC
** * *
4685041 CACTGCAACTTCAGGG-G-TATGGGATTTGATGTT-TAAGCTTC-ATCTTGCTC
1 CACTGCAACTTCAGGGAGATA-AAGATTTGCTTTTGTAA-CTTCAATC-TG-TC
*
4685091 CATTGCAACTTCAGGGAGATAAAGATTTGCTTTTGTAACTTCAATCTGATC
1 CACTGCAACTTCAGGGAGATAAAGATTTGCTTTTGTAACTTCAATCTG-TC
4685142 CACTGCAACTTCAGGGA
1 CACTGCAACTTCAGGGA
4685159 TATAGGAATC
Statistics
Matches: 93, Mismatches: 16, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
48 2 0.02
49 8 0.09
50 41 0.44
51 34 0.37
52 8 0.09
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (50 bp):
CACTGCAACTTCAGGGAGATAAAGATTTGCTTTTGTAACTTCAATCTGTC
Found at i:4685183 original size:101 final size:100
Alignment explanation
Indices: 4684994--4685174 Score: 238
Period size: 101 Copynumber: 1.8 Consensus size: 100
4684984 TCCACTTCAC
* *
4684994 TGCAACTTCAGAAAGATAATATTTACTTTTGTAACTTCAATCCTGCCCACTGCAACTTCAGGGGT
1 TGCAACTTCAGAAAGATAAGATTTACTTTTGTAACTTCAATCCTGCCCACTGCAACTTCAGGGAT
* * ** *
4685059 ATGGGATTTGATGTTTAAGCTTCATCTTGCTCCAT
66 ATAGGAATCAAGGTTTAAGCTTCATCTTGCTCCAT
** * *
4685094 TGCAACTTCAGGGAGATAAAGATTTGCTTTTGTAACTTCAAT-CTGATCCACTGCAACTTCAGGG
1 TGCAACTTCAGAAAGAT-AAGATTTACTTTTGTAACTTCAATCCTG-CCCACTGCAACTTCAGGG
4685158 ATATAGGAATCAAGGTT
64 ATATAGGAATCAAGGTT
4685175 GTGGCTTCAC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
100 18 0.26
101 50 0.74
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (100 bp):
TGCAACTTCAGAAAGATAAGATTTACTTTTGTAACTTCAATCCTGCCCACTGCAACTTCAGGGAT
ATAGGAATCAAGGTTTAAGCTTCATCTTGCTCCAT
Found at i:4691900 original size:59 final size:58
Alignment explanation
Indices: 4691828--4692234 Score: 469
Period size: 59 Copynumber: 6.9 Consensus size: 58
4691818 ACACTTCAAG
* ** *
4691828 GTCAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAATGGTAATTTTCGGGAAGCTTAGA
1 GTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAG-TTAGA
* *
4691887 GTCAAAAATGGAATTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTAGAAAGTTCGA
1 GTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTAGA
* * * * * ** *
4691945 GGTCAAAAATGGAGTTTTTGGAAGTTCGGGGGTCAATTGGTAATTTTTGGAAAAATCGA
1 -GTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTAGA
* *
4692004 GGTCAAAAATGGAATTTTTTGAAGTTCGAGGGTAAAATGGTAGTTTTTAGAAAGTTTAG-
1 -GTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAG-TTAGA
* ** * * * * *
4692063 GATCAAAAATAGAATTTTTAAAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATCAGG
1 G-TCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAG-AAAGTTAGA
* *
4692123 GTCAAAAATGGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTAGAAAGTTAGGG
1 GTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTA-GA
* * *
4692182 GTC-AAAATGGAATTTGTGGAAGTTTGGGGGTAAAAT-GTAATTTTTAGAAAGTT
1 GTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTT
4692235 CGGGGTGTAA
Statistics
Matches: 298, Mismatches: 44, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
57 17 0.06
58 39 0.13
59 236 0.79
60 6 0.02
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (58 bp):
GTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTAGA
Found at i:4691986 original size:118 final size:116
Alignment explanation
Indices: 4691826--4692225 Score: 516
Period size: 118 Copynumber: 3.4 Consensus size: 116
4691816 GGACACTTCA
* * **
4691826 AGGTCAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAATGGTAATTTTCGGGAAGCTTAGAGTCA
1 AGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTT-GGGAAAATTAGAGTCA
*
4691891 AAAATGGAATTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTAGAAAGTTCG
65 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTT-G
* * * * * *
4691944 AGGTCAAAAATGGAGTTTTTGGAAGTTCGGGGGTCAATTGGTAATTTTTGGAAAAATCGAGGTCA
1 AGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTGGGAAAATTAGA-GTCA
* * *
4692009 AAAATGGAATTTTTTGAAGTTCGAGGGTAAAATGGTAGTTTTTAGAAAGTTT
65 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTG
* ** * * *
4692061 AGGATCAAAAATAGAATTTTTAAAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATCAGGGTC
1 AGG-TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAA-TTTTGGGAAAATTAGAGTC
*
4692126 AAAAATGGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTAGAAAGTTAG
64 AAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTT-G
* * *
4692180 GGGTC-AAAATGGAATTTGTGGAAGTTTGGGGGTAAAAT-GTAATTTT
1 AGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTT
4692226 TAGAAAGTTC
Statistics
Matches: 242, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
115 4 0.02
116 4 0.02
117 38 0.16
118 184 0.76
119 12 0.05
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (116 bp):
AGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTGGGAAAATTAGAGTCAA
AAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTG
Found at i:4692108 original size:177 final size:177
Alignment explanation
Indices: 4691826--4692234 Score: 520
Period size: 177 Copynumber: 2.3 Consensus size: 177
4691816 GGACACTTCA
* ** * *
4691826 AGGTCAAAAATGGAATCTTTGGAAGTTCGAGGGTAAAATGGTAATTTTCGGGAAGCTTAGAGTCA
1 AGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTAGAGTCA
* ** **
4691891 AAAATGGAATTTTTGGAAGTTCGAAGGTAAAATGGTAATTTTTAGAAAGTTC-GAGGTCAAAAAT
66 AAAATAGAATTTTTAAAAGTTCGAAGGTAAAATGGTAATTTTTAGAAAAATCAG-GGTCAAAAAT
* * * * * * *
4691955 GGAGTTTTTGGAAGTTCGGGGGTCAATTGGTAATTTTTGGAAAAATCG
130 GGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTAGAAAAATAG
* *
4692003 AGGTCAAAAATGGAATTTTTTGAAGTTCGAGGGTAAAATGGTAGTTTTTAGAAAGTTTAG-GATC
1 AGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTAGAG-TC
** *
4692067 AAAAATAGAATTTTTAAAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAATCAGGGTCAAAAAT
65 AAAAATAGAATTTTTAAAAGTTCGAAGGTAAAATGGTAATTTTTAGAAAAATCAGGGTCAAAAAT
**
4692132 GGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTAGAAAGTTAG
130 GGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTAGAAAAATAG
* * * *
4692180 GGGTC-AAAATGGAATTTGTGGAAGTTTGGGGGTAAAAT-GTAATTTTTAGAAAGTT
1 AGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTT
4692235 CGGGGTGTAA
Statistics
Matches: 200, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
175 16 0.08
176 30 0.15
177 153 0.76
178 1 0.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (177 bp):
AGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTAGAGTCA
AAAATAGAATTTTTAAAAGTTCGAAGGTAAAATGGTAATTTTTAGAAAAATCAGGGTCAAAAATG
GAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTAGAAAAATAG
Found at i:4692239 original size:29 final size:30
Alignment explanation
Indices: 4691891--4692246 Score: 235
Period size: 29 Copynumber: 12.1 Consensus size: 30
4691881 CTTAGAGTCA
* **
4691891 AAAATGG-AATTTTT-GGAAGTTCGAAGGT
1 AAAATGGTAATTTTTAGAAAGTTCGGGGGT
*
4691919 AAAATGGTAATTTTTAGAAAGTTC-GAGGT
1 AAAATGGTAATTTTTAGAAAGTTCGGGGGT
* *
4691948 CAAAAATGG-AGTTTTT-GGAAGTTCGGGGGT
1 --AAAATGGTAATTTTTAGAAAGTTCGGGGGT
* * * ** *
4691978 CAATTGGTAATTTTTGGAAAAATC-GAGGT
1 AAAATGGTAATTTTTAGAAAGTTCGGGGGT
* *
4692007 CAAAAATGG-AATTTTTTG-AAGTTCGAGGGT
1 --AAAATGGTAATTTTTAGAAAGTTCGGGGGT
* ** *
4692037 AAAATGGTAGTTTTTAGAAAGTT-TAGGAT
1 AAAATGGTAATTTTTAGAAAGTTCGGGGGT
*
4692066 CAAAAATAG-AATTTTTA-AAAGTTCGGGGGT
1 --AAAATGGTAATTTTTAGAAAGTTCGGGGGT
* ** *
4692096 AAAATGGTAATTTTTGGAAAAATC-AGGGT
1 AAAATGGTAATTTTTAGAAAGTTCGGGGGT
* *
4692125 CAAAAATGG-AATTTTTGGAAA-TTCGAGGGT
1 --AAAATGGTAATTTTTAGAAAGTTCGGGGGT
*
4692155 AAAATGGTAATTTTTAGAAAGTT-AGGGGT
1 AAAATGGTAATTTTTAGAAAGTTCGGGGGT
* * *
4692184 CAAAATGG-AATTTGT-GGAAGTTTGGGGGT
1 -AAAATGGTAATTTTTAGAAAGTTCGGGGGT
4692213 AAAAT-GTAATTTTTAGAAAGTTCGGGGTGT
1 AAAATGGTAATTTTTAGAAAGTTCGGGG-GT
4692243 AAAA
1 AAAA
4692247 ATATGATTTC
Statistics
Matches: 258, Mismatches: 43, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.00
28 49 0.19
29 98 0.38
30 85 0.33
31 25 0.10
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTTAGAAAGTTCGGGGGT
Found at i:4693401 original size:12 final size:12
Alignment explanation
Indices: 4693384--4693420 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
4693374 AATTTCTTTT
4693384 TATTATTATTAA
1 TATTATTATTAA
4693396 TATTATTATTAAA
1 TATTATTATT-AA
4693409 TAGTTATTATTA
1 TA-TTATTATTA
4693421 TCTCAAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 5 0.22
14 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:4694234 original size:6 final size:6
Alignment explanation
Indices: 4694223--4694274 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
4694213 ATTATTTAAA
* *
4694223 TAAATT TAAATT TAAATT T--ATGA TAAATT TAAATT TAAA-A TAAATT
1 TAAATT TAAATT TAAATT TAAAT-T TAAATT TAAATT TAAATT TAAATT
4694269 TAAATT
1 TAAATT
4694275 CTGTTAGGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 2 0.05
5 5 0.13
6 29 0.76
7 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (6 bp):
TAAATT
Found at i:4694251 original size:17 final size:17
Alignment explanation
Indices: 4694229--4694274 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
4694219 TAAATAAATT
**
4694229 TAAATTTAAATTTATGA
1 TAAATTTAAATTTAAAA
4694246 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
4694263 TAAATTTAAATT
1 TAAATTTAAATT
4694275 CTGTTAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:4694274 original size:23 final size:23
Alignment explanation
Indices: 4694222--4694267 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4694212 CATTATTTAA
**
4694222 ATAAATTTAAATTTAAATTTATG
1 ATAAATTTAAATTTAAATAAATG
4694245 ATAAATTTAAATTTAAAATAAAT
1 ATAAATTTAAATTT-AAATAAAT
4694268 TTAAATTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAAATTTAAATTTAAATAAATG
Found at i:4701088 original size:31 final size:29
Alignment explanation
Indices: 4701011--4701089 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 29
4701001 CACTATTGGT
* *
4701011 AAAAGGACTAAATTGTAAAGCAAATAAAATT
1 AAAAGGACTAAA-T-TAAAACAAATAAAATG
* *
4701042 AAAAGGA-AAAATTAAAATAAATAAAAATGG
1 AAAAGGACTAAATTAAAACAAAT-AAAAT-G
4701072 AAAAGGACTAAATTAAAA
1 AAAAGGACTAAATTAAAA
4701090 AACCTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 8 0.20
29 6 0.15
30 10 0.25
31 16 0.40
ACGTcount: A:0.65, C:0.04, G:0.13, T:0.19
Consensus pattern (29 bp):
AAAAGGACTAAATTAAAACAAATAAAATG
Found at i:4709117 original size:110 final size:110
Alignment explanation
Indices: 4708992--4709211 Score: 341
Period size: 110 Copynumber: 2.0 Consensus size: 110
4708982 AAAAAAGTTA
* * * *
4708992 ATGTTCTTTTATTTAGGGAATTCGATAAATTGTACTCCAACGTACTGGGTATAATTTTTTTCTTT
1 ATGTTATTTTATTTAGGGAATTCGAGAAATTGTACTCAAACGTACTAGGTATAATTTTTTTCTTT
*
4709057 GAACCTAAATAATCGAGTATCCCATTTAAAATTAATAAATGTTCT
66 GAACCTAAATAATCGAGTATCCCATTTAAAATCAATAAATGTTCT
* *
4709102 ATGTTATTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTAGGTATGATTTTTTTCTTT
1 ATGTTATTTTATTTAGGGAATTCGAGAAATTGTACTCAAACGTACTAGGTATAATTTTTTTCTTT
* * * *
4709167 TAACCTAAATAATCGAGTATCCTATTTTAAATCAATAAATTTTCT
66 GAACCTAAATAATCGAGTATCCCATTTAAAATCAATAAATGTTCT
4709212 TTATTTCCGA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 99 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (110 bp):
ATGTTATTTTATTTAGGGAATTCGAGAAATTGTACTCAAACGTACTAGGTATAATTTTTTTCTTT
GAACCTAAATAATCGAGTATCCCATTTAAAATCAATAAATGTTCT
Found at i:4711650 original size:51 final size:51
Alignment explanation
Indices: 4711565--4711757 Score: 289
Period size: 51 Copynumber: 3.8 Consensus size: 51
4711555 GTTATAAACG
* * **
4711565 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAAATT
* *
4711617 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAAACT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAAATT
*
4711668 AAAGGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCATGACAAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAAATT
*
4711719 AAAGGTCCGATGACTCAA-TGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACT-AAGTGTCATCGTGAGTAAATGAAT
4711758 TCCTATACGG
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
51 123 0.95
52 6 0.05
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACAAATT
Found at i:4712542 original size:21 final size:22
Alignment explanation
Indices: 4712516--4712575 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
4712506 AAGTTTCATG
4712516 ACTTGTATCGGTAGAAATTA-T
1 ACTTGTATCGGTAGAAATTAGT
4712537 ACTTGTATCGGTA-AAATTAGT
1 ACTTGTATCGGTAGAAATTAGT
***
4712558 AAAGGTATCGGTAGAAAT
1 ACTTGTATCGGTAGAAAT
4712576 CTGCACAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.18
21 24 0.71
22 4 0.12
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (22 bp):
ACTTGTATCGGTAGAAATTAGT
Found at i:4719744 original size:17 final size:17
Alignment explanation
Indices: 4719724--4719756 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4719714 AAAGTTTTCC
4719724 TTTAT-TTTCTATTTTAG
1 TTTATCTTT-TATTTTAG
4719741 TTTATCTTTTATTTTA
1 TTTATCTTTTATTTTA
4719757 TGCTTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTATCTTTTATTTTAG
Found at i:4723896 original size:17 final size:17
Alignment explanation
Indices: 4723876--4723908 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4723866 AAACTTTTCC
4723876 TTTAT-TTTCTATTTTAG
1 TTTATCTTT-TATTTTAG
4723893 TTTATCTTTTATTTTA
1 TTTATCTTTTATTTTA
4723909 TGCTTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTATCTTTTATTTTAG
Found at i:4732017 original size:149 final size:150
Alignment explanation
Indices: 4731759--4732059 Score: 559
Period size: 149 Copynumber: 2.0 Consensus size: 150
4731749 CTAATTGGAG
* * *
4731759 AAATAAGGAAGGTGAAAGAATGAGAAATAAGGCGATGACAAGGAATGAGATTCTAAAAAGGGAAT
1 AAATAAGGAAGGTGAAAGAAGGAGAAATAAGGCGATAACAAGGAATGAGATACTAAAAAGGGAAT
4731824 AATAGGGAACAATACAATGTGCCAAACAATTTTTGTGTTTGTAACCCTTTGTGCTTACTATTCTT
66 AATAGGGAACAATACAATGTGCCAAACAATTTTTGTGTTTGTAACCCTTTGTGCTTACTATTCTT
4731889 TTGAACATCATACATATCTT
131 TTGAACATCATACATATCTT
*
4731909 AAATAAGGAAGGTGAGAGAAGGAGAAATAAGGCGATAACAAGGAATGAGATACT-AAAAGGGAAT
1 AAATAAGGAAGGTGAAAGAAGGAGAAATAAGGCGATAACAAGGAATGAGATACTAAAAAGGGAAT
4731973 AATAGGGAACAATACAATGTGCCAAACAATTTTTGTGTTTGTAACCCTTTGTGCTTACTATTCTT
66 AATAGGGAACAATACAATGTGCCAAACAATTTTTGTGTTTGTAACCCTTTGTGCTTACTATTCTT
4732038 TTGAACATCATACATATCTT
131 TTGAACATCATACATATCTT
4732058 AA
1 AA
4732060 GCCTCAGAAC
Statistics
Matches: 147, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
149 97 0.66
150 50 0.34
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (150 bp):
AAATAAGGAAGGTGAAAGAAGGAGAAATAAGGCGATAACAAGGAATGAGATACTAAAAAGGGAAT
AATAGGGAACAATACAATGTGCCAAACAATTTTTGTGTTTGTAACCCTTTGTGCTTACTATTCTT
TTGAACATCATACATATCTT
Found at i:4736487 original size:16 final size:15
Alignment explanation
Indices: 4736466--4736496 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
4736456 CAATTAAAAT
4736466 TAATAAAATAAATAAA
1 TAATAAAAT-AATAAA
4736482 TAATAAAATAATAAA
1 TAATAAAATAATAAA
4736497 AAAATAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAATAAAATAATAAA
Found at i:4736494 original size:11 final size:11
Alignment explanation
Indices: 4736461--4736503 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
4736451 AAACACAATT
*
4736461 AAAATTAATAA
1 AAAAATAATAA
4736472 AATAAATAAATAA
1 AA-AAAT-AATAA
*
4736485 TAAAATAATAA
1 AAAAATAATAA
4736496 AAAAATAA
1 AAAAATAA
4736504 CAACATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 14 0.52
12 7 0.26
13 6 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:4736503 original size:16 final size:16
Alignment explanation
Indices: 4736467--4736499 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4736457 AATTAAAATT
*
4736467 AATAAAATAAATAAAT
1 AATAAAATAAATAAAA
4736483 AATAAAAT-AATAAAA
1 AATAAAATAAATAAAA
4736498 AA
1 AA
4736500 ATAACAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAAATAAATAAAA
Found at i:4739076 original size:50 final size:50
Alignment explanation
Indices: 4738983--4739077 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
4738973 TCATAGATAT
** * *
4738983 TGTTTGAAATTAAAGGGATATGCTAAGGAGGAGCTAATTGTTTATCTAAG
1 TGTTTGAAATTAAAGAAATATGCTAAAGAGGAGCTAATGGTTTATCTAAG
*
4739033 TGTTTGAAATTAAAAGAAATGTGCTAAAGA-GACGCTAA-GGTTTAT
1 TGTTTGAAATT-AAAGAAATATGCTAAAGAGGA-GCTAATGGTTTAT
4739078 TTGATGATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
50 19 0.50
51 19 0.50
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (50 bp):
TGTTTGAAATTAAAGAAATATGCTAAAGAGGAGCTAATGGTTTATCTAAG
Found at i:4740545 original size:28 final size:29
Alignment explanation
Indices: 4740514--4740581 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
4740504 TATTGAAGAT
4740514 TATTTTATATAATTCA-TTAATATTTTTA
1 TATTTTATATAATTCATTTAATATTTTTA
* * *
4740542 TATTTGATCTAATTCATTTTATATTTTTA
1 TATTTTATATAATTCATTTAATATTTTTA
* *
4740571 CATATTATATA
1 TATTTTATATA
4740582 TATTTCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (29 bp):
TATTTTATATAATTCATTTAATATTTTTA
Found at i:4740857 original size:30 final size:31
Alignment explanation
Indices: 4740818--4740880 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
4740808 AACCTCCAAA
* *
4740818 CCTTTCTACTTT-CTTCCCAAAA-TTTCTACT
1 CCTTCCTACTTTCCTCCCCAAAACTTT-TACT
4740848 CCTTCCTACTTTCCTCCCCAAAACTTTTACT
1 CCTTCCTACTTTCCTCCCCAAAACTTTTACT
4740879 CC
1 CC
4740881 CGTGCCCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.38
31 15 0.52
32 3 0.10
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.41
Consensus pattern (31 bp):
CCTTCCTACTTTCCTCCCCAAAACTTTTACT
Found at i:4741131 original size:11 final size:13
Alignment explanation
Indices: 4741108--4741144 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
4741098 AGTGATAAAT
4741108 TTATTTATATATA
1 TTATTTATATATA
4741121 TTATTTATATATA
1 TTATTTATATATA
4741134 TTATTTATATA
1 TTATTTATATA
4741145 GTCAAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTTATATATA
Found at i:4741948 original size:6 final size:6
Alignment explanation
Indices: 4741939--4742032 Score: 54
Period size: 6 Copynumber: 16.0 Consensus size: 6
4741929 GATTTATTTC
* * * **
4741939 TAAATT TAAATT T-ACTC TAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * *
4741986 T-AGTT TAAATT TGAAA-- T-AATAT TAAACT TAAACTT TAAAAT TAAATT
1 TAAATT TAAATT T-AAATT TAAAT-T TAAATT TAAA-TT TAAATT TAAATT
4742033 CCAAGTCCAA
Statistics
Matches: 64, Mismatches: 16, Indels: 16
0.67 0.17 0.17
Matches are distributed among these distances:
3 2 0.03
5 8 0.12
6 44 0.69
7 10 0.16
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (6 bp):
TAAATT
Found at i:4741959 original size:17 final size:17
Alignment explanation
Indices: 4741937--4741969 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4741927 TAGATTTATT
4741937 TCTAAATTTAAATTTAC
1 TCTAAATTTAAATTTAC
4741954 TCTAAATTTAAATTTA
1 TCTAAATTTAAATTTA
4741970 AATTCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TCTAAATTTAAATTTAC
Found at i:4741994 original size:11 final size:11
Alignment explanation
Indices: 4741941--4741997 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
4741931 TTTATTTCTA
4741941 AATTTAAATTT
1 AATTTAAATTT
* *
4741952 ACTCTAAATTT
1 AATTTAAATTT
*
4741963 AAATTTAAATTC
1 -AATTTAAATTT
*
4741975 ATTTTTAAATTT
1 A-ATTTAAATTT
*
4741987 AGTTTAAATTT
1 AATTTAAATTT
4741998 GAAATAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 19 0.53
12 17 0.47
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:4744667 original size:19 final size:19
Alignment explanation
Indices: 4744626--4744676 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
4744616 TTAATGTTAT
*
4744626 TAATAATTTTAATAAATAT
1 TAATAATTTTAATAAATAA
*
4744645 TAATAATTTT--T-TATAA
1 TAATAATTTTAATAAATAA
*
4744661 TAATAATTTAAATAAA
1 TAATAATTTTAATAAA
4744677 AAAAGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 12 0.48
17 1 0.04
18 1 0.04
19 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATAATTTTAATAAATAA
Found at i:4745846 original size:31 final size:29
Alignment explanation
Indices: 4745808--4745945 Score: 118
Period size: 30 Copynumber: 4.7 Consensus size: 29
4745798 CCCTAAAGGT
4745808 CCCTAAACTGTCCAAAAATTACATTTTAACC
1 CCCTAAACT-TCCAAAAATTACATTTTAA-C
* * *
4745839 CCCTAAACTTTCAAAAATTCCATTTATGAC
1 CCCTAAACTTCCAAAAATTACATTT-TAAC
* * * *
4745869 CCCGAAACTTCTAAAAATTTCATTTTTTA-
1 CCCTAAACTTCCAAAAATTACA-TTTTAAC
* *
4745898 CCCTAAAAC-TCCCAAAATTACATTTTTAC
1 CCCT-AAACTTCCAAAAATTACATTTTAAC
* *
4745927 CCCTCAATTTCCAAAAATT
1 CCCTAAACTTCCAAAAATT
4745946 CTATTTTTGA
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
28 8 0.09
29 26 0.30
30 39 0.45
31 14 0.16
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTAAC
Found at i:4745943 original size:29 final size:29
Alignment explanation
Indices: 4745808--4745953 Score: 109
Period size: 29 Copynumber: 4.9 Consensus size: 29
4745798 CCCTAAAGGT
* *
4745808 CCCTAAACTGTCCAAAAATTACATTTTAACC
1 CCCTAAA-TTTCCAAAAATTACATTTTTA-C
* *
4745839 CCCTAAACTTT-CAAAAATTCCATTTATGAC
1 CCCTAAA-TTTCCAAAAATTACATTT-TTAC
* * * *
4745869 CCCGAAACTTCTAAAAATTTCATTTTTTA-
1 CCCTAAATTTCCAAAAATTACA-TTTTTAC
** *
4745898 CCCTAAAACTCCCAAAATTACATTTTTAC
1 CCCTAAATTTCCAAAAATTACATTTTTAC
*
4745927 CCCTCAATTTCCAAAAATT-CTATTTTT
1 CCCTAAATTTCCAAAAATTAC-ATTTTT
4745954 GACCTTGAAA
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
28 7 0.08
29 39 0.42
30 31 0.34
31 15 0.16
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCTAAATTTCCAAAAATTACATTTTTAC
Found at i:4745953 original size:58 final size:58
Alignment explanation
Indices: 4745881--4746001 Score: 131
Period size: 58 Copynumber: 2.1 Consensus size: 58
4745871 CGAAACTTCT
* *
4745881 AAAAATTTCATTTTTTACCCTAAAACTCCCAAAATTA-CATTTTTACCCCTC-AATTTCC
1 AAAAATTTCATTTTTGACCCTAAAACTCCCAAAATTACCA-TTTTACCCC-CGAATGTCC
* * ***
4745939 AAAAA-TTCTATTTTTGACCTTGAAACTTTTAAAATTACCATTTTACCCCCGAATGTCC
1 AAAAATTTC-ATTTTTGACCCTAAAACTCCCAAAATTACCATTTTACCCCCGAATGTCC
4745997 AAAAA
1 AAAAA
4746002 CTCCTTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
57 4 0.08
58 47 0.89
59 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAAATTTCATTTTTGACCCTAAAACTCCCAAAATTACCATTTTACCCCCGAATGTCC
Found at i:4747402 original size:30 final size:30
Alignment explanation
Indices: 4747256--4747599 Score: 146
Period size: 29 Copynumber: 11.8 Consensus size: 30
4747246 CCCTGTAGGT
* * * **
4747256 CCCT-AAACTATCCAAAAATCATATTTCGA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
4747285 CCCCCAAACTTTCCTAAAATTACATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
4747315 CTCTCAAACTTTCC-AAAATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTT-A
*
4747345 CCCT-AAAGTTTCCAAAAATTACATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* * *
4747374 CCCTCGAACTATCC-AAAATTCCATTTTTTA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTTA
* * * *** *
4747404 CAC-C-GATTTATTTGAAATTTACCA-TTTTA
1 CCCTCAAACTT-TCCAAAAATTA-CATTTTTA
* * * * *
4747433 CCCCCGAA-TGTCTAAAAATTCCATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
4747462 CCCTAAAAC-TTCCAAAAATTACCA-TTTTG
1 CCCTCAAACTTTCCAAAAATTA-CATTTTTA
* * * *
4747491 CCCT-AGA-TGTCCAAAAATTCCATTTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
4747519 CCTTAAAAC-TTCCAAAAATTACCA-TTTTA
1 CCCTCAAACTTTCCAAAAATTA-CATTTTTA
* * * *
4747548 CCCCCGAA-TGTCTAAAAATT-CTATTTTTAA
1 CCCTCAAACTTTCCAAAAATTAC-ATTTTT-A
* *
4747578 CCC-CGAACCTTCCAAAAATTAC
1 CCCTCAAACTTTCCAAAAATTAC
4747600 CACTTTATCC
Statistics
Matches: 233, Mismatches: 58, Indels: 46
0.69 0.17 0.14
Matches are distributed among these distances:
27 3 0.01
28 23 0.10
29 117 0.50
30 86 0.37
31 4 0.02
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATTACATTTTTA
Found at i:4747481 original size:59 final size:58
Alignment explanation
Indices: 4747329--4747669 Score: 305
Period size: 59 Copynumber: 5.8 Consensus size: 58
4747319 CAAACTTTCC
** * * *
4747329 AAAATTCCATTTTTGACCCTAAAGTTTCCAAAAATTA-CATTTTTACCCTCGAACTATC-C
1 AAAATTCCATTTTT-ACCCTAAAACTTCCAAAAATTACCA-TTTTACCCCCGAA-TGTCTA
* ** ** *
4747388 AAAATTCCATTTTTTACACCGATTTA-TT-TGAAATTTACCATTTTACCCCCGAATGTCTA
1 AAAATTCCA-TTTTTAC-CCTA-AAACTTCCAAAAATTACCATTTTACCCCCGAATGTCTA
* ** *
4747447 AAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACCATTTTGCCCTAG-ATGTCCA
1 AAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACCATTTTACCCCCGAATGTCTA
* *
4747504 AAAATTCCATTTTAACCTTAAAACTTCCAAAAATTACCATTTTACCCCCGAATGTCTA
1 AAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACCATTTTACCCCCGAATGTCTA
* ** * * * * *
4747562 AAAATTCTATTTTTAACCCCGAACCTTCCAAAAATTACCACTTTATCCCTGAATGCCTA
1 AAAATTCCATTTTT-ACCCTAAAACTTCCAAAAATTACCATTTTACCCCCGAATGTCTA
* * * * *
4747621 AAATTTCCAATTTTGACCCTGAACCTTCCAAAAATTACCATTTTGCCCC
1 AAAATTCC-ATTTTTACCCTAAAACTTCCAAAAATTACCATTTTACCCC
4747670 TCGGGTGTTC
Statistics
Matches: 229, Mismatches: 43, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
56 1 0.00
57 56 0.24
58 45 0.20
59 110 0.48
60 17 0.07
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACCATTTTACCCCCGAATGTCTA
Found at i:4762742 original size:18 final size:18
Alignment explanation
Indices: 4762702--4762745 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4762692 GCAAGCTGAA
*
4762702 GAAGAAAAAGAAGATCTT
1 GAAGAAAAAGAAGATCAT
* *
4762720 AAAGAAGAAGAAGATCAT
1 GAAGAAAAAGAAGATCAT
4762738 GAAGAAAA
1 GAAGAAAA
4762746 TAAAGATCTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.23, T:0.11
Consensus pattern (18 bp):
GAAGAAAAAGAAGATCAT
Found at i:4764830 original size:13 final size:13
Alignment explanation
Indices: 4764798--4764836 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
4764788 GATCTTTAAC
*
4764798 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
4764813 TTAGATTAATACT
1 TTAGATTAATACT
4764826 TTAGATTAATA
1 TTAGATTAATA
4764837 TCCTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:4765454 original size:22 final size:23
Alignment explanation
Indices: 4765411--4765454 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4765401 TAACACAAAT
*
4765411 AAATAAAAAATAGTAGTGATAAC
1 AAATAAAAAATAGTAATGATAAC
*
4765434 AAATAAAAAATA-TAATTATAA
1 AAATAAAAAATAGTAATGATAA
4765455 TTATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (23 bp):
AAATAAAAAATAGTAATGATAAC
Found at i:4767914 original size:31 final size:31
Alignment explanation
Indices: 4767879--4767939 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4767869 ATGGTAATTA
*
4767879 AATTATTTGAAAGTTTTCATTTAAGTCATTG
1 AATTATTTGAAAGTTTTCATTTAAATCATTG
* *
4767910 AATTATTTGAATGTTTTTATTTAAATCATT
1 AATTATTTGAAAGTTTTCATTTAAATCATT
4767940 AGGTTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (31 bp):
AATTATTTGAAAGTTTTCATTTAAATCATTG
Found at i:4768902 original size:32 final size:32
Alignment explanation
Indices: 4768861--4768925 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
4768851 ATTTTAAGGT
* *
4768861 TCGATGTTTTACCGAAAATTTACAAAAACCAA
1 TCGATGTTTTACCAAAAATTAACAAAAACCAA
**
4768893 TCGATGTTTTGTCAAAAATTAACAAAAACCAA
1 TCGATGTTTTACCAAAAATTAACAAAAACCAA
4768925 T
1 T
4768926 TGTATCGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (32 bp):
TCGATGTTTTACCAAAAATTAACAAAAACCAA
Found at i:4782992 original size:25 final size:25
Alignment explanation
Indices: 4782963--4783039 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 25
4782953 TTTTAGAAAT
* * * *
4782963 TTAGCTCATACGAGCCCAGATAGAG
1 TTAGCTCTTACAAGCCCAGACAAAG
4782988 TTAGCTCTTACAAGCCCAGACAAAG
1 TTAGCTCTTACAAGCCCAGACAAAG
* *
4783013 TTAGCTCTTACAAGCCTAGACATAG
1 TTAGCTCTTACAAGCCCAGACAAAG
4783038 TT
1 TT
4783040 TAACCAGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
TTAGCTCTTACAAGCCCAGACAAAG
Found at i:4784749 original size:47 final size:47
Alignment explanation
Indices: 4784680--4784774 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
4784670 CGAACAATCC
*
4784680 TATAATCAAGGATTGACTCAATCCTAAAGAATAAAATGTCATCAAAT
1 TATAATCAAGGATTGACTCAATCCTAAAGAATAAAATCTCATCAAAT
*
4784727 TATAATCAAGGATTGGCTCAATCCTAAAGAATAAAATCTCATCAAAT
1 TATAATCAAGGATTGACTCAATCCTAAAGAATAAAATCTCATCAAAT
4784774 T
1 T
4784775 TGTCTCAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (47 bp):
TATAATCAAGGATTGACTCAATCCTAAAGAATAAAATCTCATCAAAT
Found at i:4792686 original size:31 final size:32
Alignment explanation
Indices: 4792650--4792709 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
4792640 ATTGTTACCG
*
4792650 AACTATTTGAAAGTTTCTATTT-AAGTCACAT
1 AACTATTCGAAAGTTTCTATTTAAAGTCACAT
* *
4792681 AACTATTCGGAAGTTTTTATTTAAAGTCA
1 AACTATTCGAAAGTTTCTATTTAAAGTCA
4792710 TTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (32 bp):
AACTATTCGAAAGTTTCTATTTAAAGTCACAT
Found at i:4795231 original size:30 final size:30
Alignment explanation
Indices: 4795145--4795509 Score: 317
Period size: 29 Copynumber: 12.5 Consensus size: 30
4795135 TATTTTCCTT
* *
4795145 AAAAATCT-CATTTTCA-CCTCGAACTTTTC
1 AAAAAT-TACATTTTTACCCTCGAACTTCTC
* * *
4795174 CAAAATTATATTTTGACCCCTCGAACTTCTC
1 AAAAATTACATTTTTA-CCCTCGAACTTCTC
** * * *
4795205 AAAAATTATGTTTTTGCCCCCAAACTT-TC
1 AAAAATTACATTTTTACCCTCGAACTTCTC
* * *
4795234 AAAAATCATATTTTTACCCTCAAACTT-TC
1 AAAAATTACATTTTTACCCTCGAACTTCTC
*
4795263 AAAAATCACATTTTT-CCCTCGAACTTC-C
1 AAAAATTACATTTTTACCCTCGAACTTCTC
*
4795291 AAAAATTACATTTTTACCCTCGAACTTCTA
1 AAAAATTACATTTTTACCCTCGAACTTCTC
* *
4795321 AAAAATTACATTTTTGCCAAT-GAACTTC-C
1 AAAAATTACATTTTTACC-CTCGAACTTCTC
* *
4795350 AAAAATCACA-TTTTACCCTCAAACTTC-C
1 AAAAATTACATTTTTACCCTCGAACTTCTC
* * *
4795378 AAAAATTACATATTTACCCCCAAACTTCTC
1 AAAAATTACATTTTTACCCTCGAACTTCTC
* *
4795408 AAAAATTATATTTTTGCCCTCGAACTTC-C
1 AAAAATTACATTTTTACCCTCGAACTTCTC
* * * *
4795437 AAAAATCACATATTTACCCTCAAACTT-AC
1 AAAAATTACATTTTTACCCTCGAACTTCTC
*
4795466 AAAAATCACATTTTTACCC-CTGAACTT-TC
1 AAAAATTACATTTTTACCCTC-GAACTTCTC
*
4795495 TAAAAATCACATTTT
1 -AAAAATTACATTTT
4795510 GAACCCAAAC
Statistics
Matches: 282, Mismatches: 41, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.00
28 49 0.17
29 136 0.48
30 71 0.25
31 25 0.09
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTACATTTTTACCCTCGAACTTCTC
Found at i:4795335 original size:87 final size:87
Alignment explanation
Indices: 4795191--4795509 Score: 383
Period size: 87 Copynumber: 3.7 Consensus size: 87
4795181 ATATTTTGAC
* ** * * *
4795191 CCCTCGAACTTCTCAAAAATTATGTTTTTGCCCCCAAACTT-TCAAAAATCATATTTTTACCCTC
1 CCCTCAAACTTC-CAAAAATTACATTTTTACCCCCAAACTTCTCAAAAATCACATTTTTGCCCTC
* * *
4795255 AAACTTTCAAAAATCACATTTTT
65 GAACTTCCAAAAATCACATTTTA
* * * * * *
4795278 CCCTCGAACTTCCAAAAATTACATTTTTACCCTCGAACTTCTAAAAAATTACATTTTTGCCAAT-
1 CCCTCAAACTTCCAAAAATTACATTTTTACCCCCAAACTTCTCAAAAATCACATTTTTGCC-CTC
4795342 GAACTTCCAAAAATCACATTTTA
65 GAACTTCCAAAAATCACATTTTA
* * *
4795365 CCCTCAAACTTCCAAAAATTACATATTTACCCCCAAACTTCTCAAAAATTATATTTTTGCCCTCG
1 CCCTCAAACTTCCAAAAATTACATTTTTACCCCCAAACTTCTCAAAAATCACATTTTTGCCCTCG
4795430 AACTTCCAAAAATCACATATTTA
66 AACTTCCAAAAATCACAT-TTTA
* * **
4795453 CCCTCAAACTTACAAAAATCACATTTTTACCCCTGAACTT-TCTAAAAATCACATTTT
1 CCCTCAAACTTCCAAAAATTACATTTTTACCCCCAAACTTCTC-AAAAATCACATTTT
4795510 GAACCCAAAC
Statistics
Matches: 200, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
86 24 0.12
87 124 0.62
88 52 0.26
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (87 bp):
CCCTCAAACTTCCAAAAATTACATTTTTACCCCCAAACTTCTCAAAAATCACATTTTTGCCCTCG
AACTTCCAAAAATCACATTTTA
Found at i:4795448 original size:59 final size:59
Alignment explanation
Indices: 4795191--4795506 Score: 295
Period size: 59 Copynumber: 5.4 Consensus size: 59
4795181 ATATTTTGAC
* ** * * *
4795191 CCCTCGAACTTCTCAAAAATTATGTTTTTGCCCCCAAACTT-TCAAAAATCATATTTTTA
1 CCCTCGAACTTC-CAAAAATCACATATTTACCCCCAAACTTCTCAAAAATCACATTTTTA
* * * * * *
4795250 CCCTCAAACTTTCAAAAATCACAT-TTTTCCCTCGAACTTC-CAAAAATTACATTTTTA
1 CCCTCGAACTTCCAAAAATCACATATTTACCCCCAAACTTCTCAAAAATCACATTTTTA
* * * * ****
4795307 CCCTCGAACTTCTAAAAAATTACATTTTTGCCAATGAACTTC-CAAAAATCACA-TTTTA
1 CCCTCGAACTTC-CAAAAATCACATATTTACCCCCAAACTTCTCAAAAATCACATTTTTA
* * * * *
4795365 CCCTCAAACTTCCAAAAATTACATATTTACCCCCAAACTTCTCAAAAATTATATTTTTG
1 CCCTCGAACTTCCAAAAATCACATATTTACCCCCAAACTTCTCAAAAATCACATTTTTA
* *
4795424 CCCTCGAACTTCCAAAAATCACATATTTACCCTCAAACTT-ACAAAAATCACATTTTTA
1 CCCTCGAACTTCCAAAAATCACATATTTACCCCCAAACTTCTCAAAAATCACATTTTTA
*
4795482 CCC-CTGAACTTTCTAAAAATCACAT
1 CCCTC-GAAC-TTCCAAAAATCACAT
4795507 TTTGAACCCA
Statistics
Matches: 212, Mismatches: 38, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
57 60 0.28
58 65 0.31
59 87 0.41
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.33
Consensus pattern (59 bp):
CCCTCGAACTTCCAAAAATCACATATTTACCCCCAAACTTCTCAAAAATCACATTTTTA
Found at i:4795674 original size:14 final size:15
Alignment explanation
Indices: 4795641--4795688 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
4795631 TGTGCTTTTG
* *
4795641 TATTTCATTATCCTTA
1 TATTT-ATTATTCGTA
4795657 TATTTATT-TTCGTA
1 TATTTATTATTCGTA
4795671 TATTTATTCATTCGTA
1 TATTTATT-ATTCGTA
4795687 TA
1 TA
4795689 ATTGTTCGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 12 0.43
15 3 0.11
16 13 0.46
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (15 bp):
TATTTATTATTCGTA
Found at i:4795686 original size:16 final size:14
Alignment explanation
Indices: 4795655--4795688 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
4795645 TCATTATCCT
4795655 TATATTTATTTTCG
1 TATATTTATTTTCG
4795669 TATATTTATTCATTCG
1 TATATTTATT--TTCG
4795685 TATA
1 TATA
4795689 ATTGTTCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
16 8 0.44
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (14 bp):
TATATTTATTTTCG
Found at i:4798176 original size:37 final size:37
Alignment explanation
Indices: 4798134--4798207 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
4798124 AAAAGAGATG
4798134 AATTTTTAATATAATTGAGTTGACACCAACTCACATA
1 AATTTTTAATATAATTGAGTTGACACCAACTCACATA
4798171 AATTTTTAATATAATTGAGTTGACACCAACTCACATA
1 AATTTTTAATATAATTGAGTTGACACCAACTCACATA
4798208 TTAAATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (37 bp):
AATTTTTAATATAATTGAGTTGACACCAACTCACATA
Found at i:4798221 original size:37 final size:36
Alignment explanation
Indices: 4798140--4798222 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 36
4798130 GATGAATTTT
**
4798140 TAATATAATTGAGTTGACACCAACTCACATAAATTTT
1 TAATATAATTGAGTTGACACCAACTCACAT-AATTAA
4798177 TAATATAATTGAGTTGACACCAACTCACAT-ATTAAA
1 TAATATAATTGAGTTGACACCAACTCACATAATT-AA
4798213 TAATTATAAT
1 TAA-TATAAT
4798223 CAATTATTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 36 0.86
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (36 bp):
TAATATAATTGAGTTGACACCAACTCACATAATTAA
Found at i:4801588 original size:29 final size:29
Alignment explanation
Indices: 4801467--4801780 Score: 307
Period size: 30 Copynumber: 10.7 Consensus size: 29
4801457 TGAACTTCGT
* *
4801467 AAAAATCACATTTTGACCCAT-AAACTATCC
1 AAAAATTACATTTTTACCC-TCAAACT-TCC
* *
4801497 AAAAATTACATTTTTACCCTTAAATTTCTC
1 AAAAATTACATTTTTACCCTCAAACTTC-C
*
4801527 AAAAATTACATTTTTACCCTCGAACTTCTC
1 AAAAATTACATTTTTACCCTCAAACTTC-C
* *
4801557 AAAAATTACATTTTTGCCCTTAAACTTCC
1 AAAAATTACATTTTTACCCTCAAACTTCC
* * *
4801586 AAAAATAACATTTATACCCCCAAACTTCC
1 AAAAATTACATTTTTACCCTCAAACTTCC
* *
4801615 AAAAATCACATTTTTACCCAT-GAACTTCTC
1 AAAAATTACATTTTTACCC-TCAAACTTC-C
* * *
4801645 AAAAATTACATTTTTACCCCCGAACTTAC
1 AAAAATTACATTTTTACCCTCAAACTTCC
* *
4801674 -AAAATCACATTTTTACCCTCGAACTTCTC
1 AAAAATTACATTTTTACCCTCAAACTTC-C
4801703 -AAAATTACATTTTTACACC-CAAACTTCC
1 AAAAATTACATTTTTAC-CCTCAAACTTCC
* * *
4801731 AAAAATCATATTTTTACCCTCGAACTCTCC
1 AAAAATTACATTTTTACCCTCAAACT-TCC
*
4801761 AAAACTT-CATTTTTGACCCT
1 AAAAATTACATTTTT-ACCCT
4801781 ATTTCTTTTT
Statistics
Matches: 241, Mismatches: 32, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.11
29 100 0.41
30 114 0.47
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCTCAAACTTCC
Found at i:4801678 original size:58 final size:58
Alignment explanation
Indices: 4801455--4801779 Score: 347
Period size: 58 Copynumber: 5.5 Consensus size: 58
4801445 TTAGGATGCT
* * ** *
4801455 CCTGAACTTCGT-AAAAATCACATTTTGACCCATAAACTATCCAAAAATTACATTTTTAC
1 CCTGAACTTC-TCAAAAATTACATTTTTACCCCCAAACT-TCCAAAAATCACATTTTTAC
* * * * * *
4801514 CCTTAAATTTCTCAAAAATTACATTTTTACCCTCGAACTTCTCAAAAATTACATTTTTGC
1 CC-TGAACTTCTCAAAAATTACATTTTTACCCCCAAACTTC-CAAAAATCACATTTTTAC
* * *
4801574 CCTTAAACTTC-CAAAAATAACATTTATACCCCCAAACTTCCAAAAATCACATTTTTAC
1 CC-TGAACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTAC
* *
4801632 CCATGAACTTCTCAAAAATTACATTTTTACCCCCGAACTTAC-AAAATCACATTTTTAC
1 CC-TGAACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTAC
* *
4801690 CCTCGAACTTCTC-AAAATTACATTTTTACACCCAAACTTCCAAAAATCATATTTTTAC
1 CCT-GAACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTAC
*
4801748 CCTCGAAC-TCTCCAAAACTT-CATTTTTGACCC
1 CCT-GAACTTCT-CAAAAATTACATTTTT-ACCC
4801780 TATTTCTTTT
Statistics
Matches: 230, Mismatches: 27, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
57 29 0.13
58 83 0.36
59 64 0.28
60 54 0.23
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (58 bp):
CCTGAACTTCTCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATCACATTTTTAC
Found at i:4809214 original size:40 final size:40
Alignment explanation
Indices: 4809152--4809270 Score: 139
Period size: 40 Copynumber: 2.9 Consensus size: 40
4809142 TACTTCACCT
* * *
4809152 AAAAAAAAGATTGAGATGAAAACCCGTAAAGGGCGTCTCG
1 AAAAAAAGGATTGTGATTAAAACCCGTAAAGGGCGTCTCG
* *
4809192 AAAAAAAGGATCGTGATTAAAACCCGTAAAGGGCGTCTTG
1 AAAAAAAGGATTGTGATTAAAACCCGTAAAGGGCGTCTCG
* *
4809232 AAACCAAAGGGATTTTGAGTTGAAAACCCGTAAAGGGCG
1 AAA--AAAAGGATTGTGA-TT-AAAACCCGTAAAGGGCG
4809271 ACTCAAATTC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 38 0.57
42 10 0.15
43 2 0.03
44 17 0.25
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (40 bp):
AAAAAAAGGATTGTGATTAAAACCCGTAAAGGGCGTCTCG
Found at i:4810193 original size:99 final size:99
Alignment explanation
Indices: 4810020--4810740 Score: 680
Period size: 99 Copynumber: 7.3 Consensus size: 99
4810010 AAAATGTGAT
* * * * * * * *
4810020 GGGAAAGGTTAAGGCCGTC-ACGGTGAACCCGATACC-ATGGAGATATAAAAGGAAAGATTGAGG
1 GGGAAAGGTTGAGGCCG-CAACGGTGAACCCGGTACCTAAGAAGATGTGATAGGAAAGGTTGAGG
* ** * *
4810083 CCGCAACGGTGAACCTAGTACCATGAATATTTGAA
65 CCGCAACGGCGAACCCGGTACCATGAAGATATGAA
* * * * *
4810118 GGG-AAGGATTGAGGCCGCGATGGTGAATCCGGTACCTTAGAAGATGTGATAGGAAAGGTTGGGG
1 GGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATAGGAAAGGTTGAGG
* *
4810182 CTGCAACGGTGAACCCGGTACCATGAAGATATGAA
65 CCGCAACGGCGAACCCGGTACCATGAAGATATGAA
* * * * * *
4810217 GGGAAAGGTTGAGGCTGCAACGGTGAACTCGGTACCTAAGAAGAGGTGATAAGAAAGGTTAAGGG
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATAGGAAAGGTTGAGGC
* **
4810282 CGCAACGGCGAACCCTGTACCATGAAGATACAAA
66 CGCAACGGCGAACCCGGTACCATGAAGATATGAA
* * * * *
4810316 GGGAAAGGCTGAGGCCGCAATGGCGAACCCGGTACCTAAGAAGATGAGATGGGAAAGGTTGAGGC
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATAGGAAAGGTTGAGGC
** * *
4810381 TACAACGGCGAACCCGGTACCACGAAGATATAAA
66 CGCAACGGCGAACCCGGTACCATGAAGATATGAA
* * * * *
4810415 GGGAAAGATTGAGGCCGCAACGATGAATCTGGTACCTTAA-AAGATGTGATGGGAAAGGTTGAGG
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACC-TAAGAAGATGTGATAGGAAAGGTTGAGG
* * *
4810479 CCGCAACGACGAACCCGGTACCATGAAGAGACGAA
65 CCGCAACGGCGAACCCGGTACCATGAAGATATGAA
* * * **
4810514 GGGAAAGGTTGAAGCCGCAACGGCGAACCCGGTACCTAAGAAGATGCGAGGGGAAAGGTTGAGGC
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATAGGAAAGGTTGAGGC
** * * * *
4810579 AACAAGGGCGAACCCGGTACCACGGAGATATAAA
66 CGCAACGGCGAACCCGGTACCATGAAGATATGAA
** * * * * ** * * *
4810613 GGGAAAGGTTG-GTATCGCAACAGCGAACTCGATA-CTATAGAAGATGCAATGGGAAAGATTAAG
1 GGGAAAGGTTGAG-GCCGCAACGGTGAACCCGGTACCTA-AGAAGATGTGATAGGAAAGGTTGAG
* * * * *
4810676 GTCGCAACAGTGAATCCGATACCATGAAGATATGAA
64 GCCGCAACGGCGAACCCGGTACCATGAAGATATGAA
* *
4810712 GGGAAAGGTTAAGGCTGCAACGGTGAACC
1 GGGAAAGGTTGAGGCCGCAACGGTGAACC
4810741 TAACACCTTA
Statistics
Matches: 505, Mismatches: 109, Indels: 17
0.80 0.17 0.03
Matches are distributed among these distances:
97 5 0.01
98 31 0.06
99 461 0.91
100 8 0.02
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (99 bp):
GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAGAAGATGTGATAGGAAAGGTTGAGGC
CGCAACGGCGAACCCGGTACCATGAAGATATGAA
Found at i:4810193 original size:148 final size:148
Alignment explanation
Indices: 4809925--4810244 Score: 381
Period size: 148 Copynumber: 2.2 Consensus size: 148
4809915 TTTGACATGG
* * ** * *
4809925 AAGATTGAGGCCGTAACGGTAAATTTAATACCCTAAAAATATGAAGGGAAGGATTAAGGCCATGA
1 AAGATTGAGGCCGCAACGGTGAACCTAATACCATAAAAATATGAAGGGAAGGATTAAGGCCACGA
*
4809990 CGGCGAATCCAATACCTTAGAAAATGTGATGGGAAAGGTTAAGGCCGTCACGGTGAACCCGATAC
66 CGGCGAATCCAATACCTTAGAAAATGTGATAGGAAAGGTTAAGGCCGTCACGGTGAACCCGATAC
*
4810055 CATGGAGATATAAAAGGA
131 CATGAAGATATAAAAGGA
* * * * * *
4810073 AAGATTGAGGCCGCAACGGTGAACCTAGTACCATGAATATTTGAAGGGAAGGATTGAGGCCGCGA
1 AAGATTGAGGCCGCAACGGTGAACCTAATACCATAAAAATATGAAGGGAAGGATTAAGGCCACGA
* * ** * ** * *
4810138 TGGTGAATCCGGTACCTTAGAAGATGTGATAGGAAAGGTTGGGGCTG-CAACGGTGAACCCGGTA
66 CGGCGAATCCAATACCTTAGAAAATGTGATAGGAAAGGTTAAGGCCGTC-ACGGTGAACCCGATA
* *
4810202 CCATGAAGATATGAAGGGA
130 CCATGAAGATATAAAAGGA
* *
4810221 AAGGTTGAGGCTGCAACGGTGAAC
1 AAGATTGAGGCCGCAACGGTGAAC
4810245 TCGGTACCTA
Statistics
Matches: 144, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
147 1 0.01
148 143 0.99
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (148 bp):
AAGATTGAGGCCGCAACGGTGAACCTAATACCATAAAAATATGAAGGGAAGGATTAAGGCCACGA
CGGCGAATCCAATACCTTAGAAAATGTGATAGGAAAGGTTAAGGCCGTCACGGTGAACCCGATAC
CATGAAGATATAAAAGGA
Found at i:4810252 original size:148 final size:148
Alignment explanation
Indices: 4809963--4810558 Score: 554
Period size: 148 Copynumber: 4.0 Consensus size: 148
4809953 TACCCTAAAA
*** ** * *
4809963 ATATGAAGGGAAGGATTAAGGCCATGACGGCGAATCCAATACCTTAGAAAATGTGATGGGAAAGG
1 ATATGAAGGGAAGGATTAAGGCCGCAACGGCGAATCCGGTACCTTAGAAGATGTGATAGGAAAGG
* * * * * * *
4810028 TTAAGGCCGTC-ACGGTGAACCCGATACCATGGAGATATAAAAGGAAAGATTGAGGCCGCAACGG
66 TTGAGGCCG-CAACGGCGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGG
* ** * *
4810092 TGAACCTAGTACCATGAAT
130 CGAACCCGGTACCAAGAAG
* * * * *
4810111 ATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCCGGTACCTTAGAAGATGTGATAGGAAAGG
1 ATATGAAGGGAAGGATTAAGGCCGCAACGGCGAATCCGGTACCTTAGAAGATGTGATAGGAAAGG
* * * * *
4810176 TTGGGGCTGCAACGGTGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACGGT
66 TTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGC
*
4810241 GAACTCGGTACCTAAGAAG
131 GAACCCGGTACC-AAGAAG
** * * * * * * ** *
4810260 AGGTGATAAGAAAGG-TTAAGGGCGCAACGGCGAACCCTGTACCAT-GAAGAT-ACAAAGGGAAA
1 ATATGA-AGGGAAGGATTAAGGCCGCAACGGCGAATCCGGTACCTTAGAAGATGTGATA-GGAAA
* * * * **
4810322 GGCTGAGGCCGCAATGGCGAACCCGGTACCTAAGAAGATGA-GATGGGAAAGGTTGAGGCTACAA
64 GGTTGAGGCCGCAACGGCGAACCCGGTACC-ATGAAGAT-ATGAAGGGAAAGGTTGAGGCCGCAA
*
4810386 CGGCGAACCCGGTACCACGAAG
127 CGGCGAACCCGGTACCAAGAAG
* * * ** * * *
4810408 ATATAAAGGGAAAGATTGAGGCCGCAACGATGAATCTGGTACCTTAAAAGATGTGATGGGAAAGG
1 ATATGAAGGGAAGGATTAAGGCCGCAACGGCGAATCCGGTACCTTAGAAGATGTGATAGGAAAGG
* * * *
4810473 TTGAGGCCGCAACGACGAACCCGGTACCATGAAGAGACGAAGGGAAAGGTTGAAGCCGCAACGGC
66 TTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGC
4810538 GAACCCGGTACCTAAGAAG
131 GAACCCGGTACC-AAGAAG
4810557 AT
1 AT
4810559 GCGAGGGGAA
Statistics
Matches: 358, Mismatches: 79, Indels: 21
0.78 0.17 0.05
Matches are distributed among these distances:
147 9 0.03
148 225 0.63
149 116 0.32
150 8 0.02
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (148 bp):
ATATGAAGGGAAGGATTAAGGCCGCAACGGCGAATCCGGTACCTTAGAAGATGTGATAGGAAAGG
TTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGC
GAACCCGGTACCAAGAAG
Found at i:4810589 original size:50 final size:50
Alignment explanation
Indices: 4810002--4810740 Score: 504
Period size: 49 Copynumber: 14.9 Consensus size: 50
4809992 GCGAATCCAA
* * * * * *
4810002 TACCTTAGAAAATGTGATGGGAAAGGTTAAGGCCGTC-ACGGTGAACCCGA
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCG-CAACGGCGAACCCGG
* * * * * * * **
4810052 TACC-ATGGAGATATAAAAGGAAAGATTGAGGCCGCAACGGTGAACCTAG
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * * * * * *
4810101 TACC-ATGAATATTTGAAGGG-AAGGATTGAGGCCGCGATGGTGAATCCGG
1 TACCTAAGAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGG
* * * *
4810150 TACCTTAGAAGATGTGATA-GGAAAGGTTGGGGCTGCAACGGTGAACCCGG
1 TACCTAAGAAGATGTGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * * * *
4810200 TACC-ATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACGGTGAACTCGG
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * * * *
4810249 TACCTAAGAAGAGGTGATA-AGAAAGGTTAAGGGCGCAACGGCGAACCCTG
1 TACCTAAGAAGATGTGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* *** * *
4810299 TACC-ATGAAGATACAAAGGGAAAGGCTGAGGCCGCAATGGCGAACCCGG
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * **
4810348 TACCTAAGAAGATGAGATGGGAAAGGTTGAGGCTACAACGGCGAACCCGG
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * * * ** * *
4810398 TACC-ACGAAGATATAAAGGGAAAGATTGAGGCCGCAACGATGAATCTGG
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* *
4810447 TACCTTAA-AAGATGTGATGGGAAAGGTTGAGGCCGCAACGACGAACCCGG
1 TACC-TAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * *
4810497 TACC-ATGAAGA-GACGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCCGG
1 TACCTAAGAAGATG-TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * ** *
4810546 TACCTAAGAAGATGCGAGGGGAAAGGTTGAGGCAACAAGGGCGAACCCGG
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * * * ** * * *
4810596 TACC-ACGGAGATATAAAGGGAAAGGTTG-GTATCGCAACAGCGAACTCGA
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAG-GCCGCAACGGCGAACCCGG
* * * * * * * *
4810645 TA-CTATAGAAGATG-CAATGGGAAAGATTAAGGTCGCAACAGTGAATCCGA
1 TACCTA-AGAAGATGTGAA-GGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
* * * * *
4810695 TACC-ATGAAGATATGAAGGGAAAGGTTAAGGCTGCAACGGTGAACC
1 TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACC
4810741 TAACACCTTA
Statistics
Matches: 535, Mismatches: 131, Indels: 47
0.75 0.18 0.07
Matches are distributed among these distances:
48 10 0.02
49 287 0.54
50 228 0.43
51 10 0.02
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.16
Consensus pattern (50 bp):
TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGG
Found at i:4812988 original size:30 final size:29
Alignment explanation
Indices: 4812954--4813253 Score: 293
Period size: 30 Copynumber: 10.2 Consensus size: 29
4812944 GAGGCCCCTG
*
4812954 AACTTCGCAAAAATCACATTTTAACCCTCA
1 AACTTC-CAAAAATCACATTTTTACCCTCA
* * * * *
4812984 AACTTTCCAAAAATTATATTTTAACTCTCG
1 AAC-TTCCAAAAATCACATTTTTACCCTCA
* * *
4813014 AACTTTCTAAAAATTACATTTTAACCC-CTA
1 AAC-TTCCAAAAATCACATTTTTACCCTC-A
* *
4813044 AATTTCTCAAAAATCACATTTTTACCCTCG
1 AACTTC-CAAAAATCACATTTTTACCCTCA
4813074 AACTTCTCAAAAAAT-ACATTTTTACCCTCA
1 AACTTC-C-AAAAATCACATTTTTACCCTCA
* * *
4813104 AACTTCTCAAAAATGACATTTGTACCCTTA
1 AACTTC-CAAAAATCACATTTTTACCCTCA
* **
4813134 AACTTCCAAAAATCACATTTTTACCTTTG
1 AACTTCCAAAAATCACATTTTTACCCTCA
* *
4813163 AGCTTCCAAAAATCACATTTTTACCCTCG
1 AACTTCCAAAAATCACATTTTTACCCTCA
*
4813192 AACTTCTCAAAAATTACATTTTT-CCCTCA
1 AACTTC-CAAAAATCACATTTTTACCCTCA
* *
4813221 AACTT-CTAAAATCACATTTTTACCCCCA
1 AACTTCCAAAAATCACATTTTTACCCTCA
4813249 AACTT
1 AACTT
4813254 TTCAAAACTT
Statistics
Matches: 232, Mismatches: 30, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.06
28 10 0.04
29 70 0.30
30 128 0.55
31 10 0.04
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
AACTTCCAAAAATCACATTTTTACCCTCA
Found at i:4818050 original size:51 final size:51
Alignment explanation
Indices: 4817944--4818181 Score: 352
Period size: 51 Copynumber: 4.6 Consensus size: 51
4817934 TTTCATTTAA
* * * *
4817944 TACTCACGATGACA-TATTGTCATCGGACCATTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACC-TTTAATCCGTAAAGGATTCATT
*
4817996 TACTCATGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
4818047 TACTCACGATGACACTTAGTCATCGAAACTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
4818098 TACTCACGATGACACTTAGTCATCGAAACTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
4818149 TACTCACGATGACACTTAGTCACCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
4818182 CGTTTATAGC
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
51 143 0.83
52 29 0.17
53 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:4820081 original size:71 final size:71
Alignment explanation
Indices: 4819956--4820152 Score: 272
Period size: 71 Copynumber: 2.8 Consensus size: 71
4819946 GTTTAAATAG
* * *
4819956 TTAGAGAGAGTTACAAACTCCCAATTGTCACATTAAGGCTCACAGG-TTACAAACCACAGCCGCC
1 TTAGCGAGAGTTACAAACTCCCAACTGTCACATTAAGGCTCACAGGATCA-AAACCACAGCCGCC
4820020 AACACAA
65 AACACAA
* * **
4820027 TTAGCGA-ATGTTACAAACTCCCAACTGACACATTAAGGCTCACAGGATCAAAACCATAGCCTTC
1 TTAGCGAGA-GTTACAAACTCCCAACTGTCACATTAAGGCTCACAGGATCAAAACCACAGCCGCC
4820091 AACACAA
65 AACACAA
* **
4820098 TTAGTGAGAGTTACAAACTCCCAACTGTCACATTAAGGCTCGTAGGATCAAAACC
1 TTAGCGAGAGTTACAAACTCCCAACTGTCACATTAAGGCTCACAGGATCAAAACC
4820153 GCAACATCTA
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
70 1 0.01
71 108 0.96
72 3 0.03
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (71 bp):
TTAGCGAGAGTTACAAACTCCCAACTGTCACATTAAGGCTCACAGGATCAAAACCACAGCCGCCA
ACACAA
Found at i:4822336 original size:35 final size:35
Alignment explanation
Indices: 4822297--4822364 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
4822287 TCAATCAAAT
*
4822297 AAGAGA-TTACTTGTAACTCAAGTTAAACAAAATCG
1 AAGAGACTT-CTTGCAACTCAAGTTAAACAAAATCG
*
4822332 AAGAGACTTCTTGCAAGTCAAGTTAAACAAAAT
1 AAGAGACTTCTTGCAACTCAAGTTAAACAAAAT
4822365 ATATTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (35 bp):
AAGAGACTTCTTGCAACTCAAGTTAAACAAAATCG
Found at i:4823012 original size:38 final size:38
Alignment explanation
Indices: 4822961--4823035 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
4822951 TCATCTCAGG
**
4822961 CTTGCAAGTTCAACACCGCAGCCTCCAAAATAGTTAGA
1 CTTGCAAGTTCAACACAACAGCCTCCAAAATAGTTAGA
4822999 CTTGCAAGTTCAACACAACAGCCTCCAAAATAGTTAG
1 CTTGCAAGTTCAACACAACAGCCTCCAAAATAGTTAG
4823036 TGCGAACCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (38 bp):
CTTGCAAGTTCAACACAACAGCCTCCAAAATAGTTAGA
Found at i:4823358 original size:3 final size:3
Alignment explanation
Indices: 4823350--4823386 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4823340 TTAATTACTG
4823350 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4823387 CAAGCAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:4824853 original size:30 final size:30
Alignment explanation
Indices: 4824819--4824886 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
4824809 GTTAAAAAAC
*
4824819 AGTCACTGAATTGTTTGAAAG-TTTCATTTA
1 AGTCACT-AATTATTTGAAAGTTTTCATTTA
*
4824849 AGTCACATAATTATTTGAAAGTTTTTATTTA
1 AGTCAC-TAATTATTTGAAAGTTTTCATTTA
*
4824880 CGTCACT
1 AGTCACT
4824887 TTTTTTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (30 bp):
AGTCACTAATTATTTGAAAGTTTTCATTTA
Found at i:4832798 original size:22 final size:22
Alignment explanation
Indices: 4832773--4832816 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4832763 TAAGTTGTGG
*
4832773 GAAATCATATTCTTGTACTAAC
1 GAAATCAGATTCTTGTACTAAC
*
4832795 GAAATTAGATTCTTGTACTAAC
1 GAAATCAGATTCTTGTACTAAC
4832817 CTATCTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (22 bp):
GAAATCAGATTCTTGTACTAAC
Found at i:4840125 original size:17 final size:17
Alignment explanation
Indices: 4840103--4840141 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4840093 AGGTGGAGAA
* *
4840103 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
4840120 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
4840137 CTTGT
1 CTTGT
4840142 CAATGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:4842710 original size:38 final size:40
Alignment explanation
Indices: 4842661--4842746 Score: 131
Period size: 38 Copynumber: 2.2 Consensus size: 40
4842651 AACTATATTG
* *
4842661 AATACAATAAAATATTTATTATATTTAT-TTGTGTTTTT-
1 AATATAATAAAATATTTATTATATTTATATAGTGTTTTTA
4842699 AATATAATAAAATATTTATTATATTTATGATAGTGTTTTTA
1 AATATAATAAAATATTTATTATATTTAT-ATAGTGTTTTTA
4842740 AATATAA
1 AATATAA
4842747 ACACTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 27 0.63
40 9 0.21
41 7 0.16
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (40 bp):
AATATAATAAAATATTTATTATATTTATATAGTGTTTTTA
Found at i:4843344 original size:14 final size:14
Alignment explanation
Indices: 4843325--4843358 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4843315 TAAAATAATT
4843325 AAAATACAAAACTA
1 AAAATACAAAACTA
**
4843339 AAAATAGTAAACTA
1 AAAATACAAAACTA
4843353 AAAATA
1 AAAATA
4843359 ATGTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAATACAAAACTA
Found at i:4843564 original size:15 final size:15
Alignment explanation
Indices: 4843546--4843574 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4843536 AAATTAAAAA
4843546 AATAAAAATAATTAT
1 AATAAAAATAATTAT
4843561 AATAAAAATAATTA
1 AATAAAAATAATTA
4843575 AGATCAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAAAATAATTAT
Found at i:4849505 original size:24 final size:24
Alignment explanation
Indices: 4849459--4849505 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4849449 TGACTCAAAC
**
4849459 AAATAAACAGAGTTTAATTGAAAT
1 AAATAAACAGAGTTTAACCGAAAT
4849483 AAATAAACAGAGTTTAACCGAAA
1 AAATAAACAGAGTTTAACCGAAA
4849506 AATTATTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.23
Consensus pattern (24 bp):
AAATAAACAGAGTTTAACCGAAAT
Found at i:4856802 original size:25 final size:23
Alignment explanation
Indices: 4856773--4856819 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
4856763 AATTGGATCC
4856773 AAATTAAATTCTAAAAAGATAATTA
1 AAATTAAA-TCTAAAAA-ATAATTA
*
4856798 AAATTAAATCTAAACAATAATT
1 AAATTAAATCTAAAAAATAATT
4856820 CCCTAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATTAAATCTAAAAAATAATTA
Found at i:4857825 original size:19 final size:19
Alignment explanation
Indices: 4857803--4857843 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4857793 TTATCTTTTC
4857803 TTTTT-CTTTTTTCCAATT
1 TTTTTCCTTTTTTCCAATT
*
4857821 TTTTTCCTTTTTTTCAATT
1 TTTTTCCTTTTTTCCAATT
4857840 TTTT
1 TTTT
4857844 CGATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCCTTTTTTCCAATT
Found at i:4857844 original size:18 final size:17
Alignment explanation
Indices: 4857820--4857886 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 17
4857810 TTTTTCCAAT
4857820 TTTTTTCCTTTTTTTCAA
1 TTTTTTCCTTTTTTTC-A
*
4857838 TTTTTTCGATTTTTTTCA
1 TTTTTTC-CTTTTTTTCA
4857856 TTTTTTCGACTTTTTTTCA
1 TTTTTTC--CTTTTTTTCA
4857875 TTTTTT-CTTTTT
1 TTTTTTCCTTTTT
4857887 CTAAATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.14
18 15 0.34
19 23 0.52
ACGTcount: A:0.09, C:0.13, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTTCCTTTTTTTCA
Found at i:4857850 original size:19 final size:18
Alignment explanation
Indices: 4857828--4857881 Score: 90
Period size: 19 Copynumber: 2.9 Consensus size: 18
4857818 ATTTTTTTCC
4857828 TTTTTTTCAATTTTTTCGA
1 TTTTTTTC-ATTTTTTCGA
4857847 TTTTTTTCATTTTTTCGA
1 TTTTTTTCATTTTTTCGA
4857865 CTTTTTTTCATTTTTTC
1 -TTTTTTTCATTTTTTC
4857882 TTTTTCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.29
19 24 0.71
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTTTTTCATTTTTTCGA
Found at i:4857885 original size:7 final size:8
Alignment explanation
Indices: 4857829--4857886 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 8
4857819 TTTTTTTCCT
4857829 TTTTTTCAA
1 TTTTTTC-A
4857838 TTTTTTCGA
1 TTTTTTC-A
4857847 TTTTTTTCA
1 -TTTTTTCA
4857856 TTTTTTCGA
1 TTTTTTC-A
4857865 CTTTTTTTCA
1 --TTTTTTCA
4857875 TTTTTTC-
1 TTTTTTCA
4857882 TTTTT
1 TTTTT
4857887 CTAAATAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
7 5 0.11
8 14 0.32
9 10 0.23
10 8 0.18
11 7 0.16
ACGTcount: A:0.10, C:0.12, G:0.03, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4858782 original size:6 final size:6
Alignment explanation
Indices: 4858773--4858856 Score: 109
Period size: 6 Copynumber: 14.3 Consensus size: 6
4858763 GGGAGATAAC
* * * *
4858773 AACTAA AACTAA AACTAA AACTAA AATTAA AATTAA AAATGA AA-TAA
1 AACTAA AACTAA AACTAA AACTAA AACTAA AACTAA AACTAA AACTAA
*
4858820 AA-TAA AACTAA AACTAA AACTAA AACTAA AATTAA AA
1 AACTAA AACTAA AACTAA AACTAA AACTAA AACTAA AA
4858857 ATGAAAATAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
5 9 0.12
6 63 0.88
ACGTcount: A:0.69, C:0.10, G:0.01, T:0.20
Consensus pattern (6 bp):
AACTAA
Found at i:4858843 original size:46 final size:47
Alignment explanation
Indices: 4858776--4858867 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 47
4858766 AGATAACAAC
*
4858776 TAAAACTAAAACTAAAACTAAAATTAAAATTAAAAATG-AAATAAAA
1 TAAAACTAAAACTAAAACTAAAACTAAAATTAAAAATGAAAATAAAA
4858822 TAAAACTAAAACTAAAACTAAAACTAAAATTAAAAATGAAAATAAA
1 TAAAACTAAAACTAAAACTAAAACTAAAATTAAAAATGAAAATAAA
4858868 TATACTAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 37 0.84
47 7 0.16
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.21
Consensus pattern (47 bp):
TAAAACTAAAACTAAAACTAAAACTAAAATTAAAAATGAAAATAAAA
Found at i:4858867 original size:12 final size:12
Alignment explanation
Indices: 4858776--4858867 Score: 91
Period size: 12 Copynumber: 7.8 Consensus size: 12
4858766 AGATAACAAC
*
4858776 TAAAACTAAAAC
1 TAAAACTAAAAA
*
4858788 TAAAACTAAAAT
1 TAAAACTAAAAA
*
4858800 TAAAATTAAAAA
1 TAAAACTAAAAA
*
4858812 TGAAA-T-AAAA
1 TAAAACTAAAAA
*
4858822 TAAAACTAAAAC
1 TAAAACTAAAAA
*
4858834 TAAAACTAAAAC
1 TAAAACTAAAAA
*
4858846 TAAAATTAAAAA
1 TAAAACTAAAAA
4858858 TGAAAA-TAAA
1 T-AAAACTAAA
4858868 TATACTAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.12
11 2 0.03
12 55 0.80
13 4 0.06
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.21
Consensus pattern (12 bp):
TAAAACTAAAAA
Found at i:4861728 original size:13 final size:13
Alignment explanation
Indices: 4861710--4861740 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4861700 TAAAAAAAGG
4861710 AAAAAATTAAAAT
1 AAAAAATTAAAAT
*
4861723 AAAAAATTAAATT
1 AAAAAATTAAAAT
4861736 AAAAA
1 AAAAA
4861741 TGTAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATTAAAAT
Found at i:4861746 original size:13 final size:12
Alignment explanation
Indices: 4861710--4861748 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
4861700 TAAAAAAAGG
4861710 AAAAAATTAAAAT
1 AAAAAATT-AAAT
4861723 AAAAAATTAAAT
1 AAAAAATTAAAT
*
4861735 TAAAAATGTAAAT
1 AAAAAAT-TAAAT
4861748 A
1 A
4861749 GTAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AAAAAATTAAAT
Found at i:4862856 original size:25 final size:23
Alignment explanation
Indices: 4862828--4862873 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
4862818 GTTGGATCCA
4862828 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
4862853 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
4862874 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:4863597 original size:17 final size:17
Alignment explanation
Indices: 4863575--4863610 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4863565 CTATTTCATA
*
4863575 GTTTAAGATAAATTGGT
1 GTTTAAGATAAACTGGT
4863592 GTTTAAGATAAACTGGT
1 GTTTAAGATAAACTGGT
4863609 GT
1 GT
4863611 GTTGTTGGGA
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:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (17 bp):
GTTTAAGATAAACTGGT
Found at i:4864656 original size:13 final size:13
Alignment explanation
Indices: 4864630--4864667 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4864620 TATAAACAAT
4864630 ATCCT-AATAATA
1 ATCCTAAATAATA
*
4864642 ATCCTAAATACTA
1 ATCCTAAATAATA
*
4864655 ATCCTAAAAAATA
1 ATCCTAAATAATA
4864668 GAGTTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (13 bp):
ATCCTAAATAATA
Found at i:4864841 original size:2 final size:2
Alignment explanation
Indices: 4864834--4864864 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4864824 GATCATACTC
4864834 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
4864865 ATTAATATCC
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
Done.