Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 207 of 433
Found at i:65144272 original size:27 final size:27
Alignment explanation
Indices: 65144095--65144270 Score: 228
Period size: 27 Copynumber: 6.6 Consensus size: 27
65144085 GGGGCAAAAT
* * * *
65144095 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65144121 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65144148 GGCAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65144175 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65144202 GATAATTCTACCCTAAAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65144229 GATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65144256 GGTAATTCTACCCTA
1 GGTAATTCTACCCTA
65144271 TATTTTGGTA
Statistics
Matches: 131, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 15 0.11
27 116 0.89
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65144339 original size:27 final size:27
Alignment explanation
Indices: 65144271--65144689 Score: 224
Period size: 27 Copynumber: 15.5 Consensus size: 27
65144261 TTCTACCCTA
* *
65144271 TATTTTGGTAATTTCACAAATCAGGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
65144298 TATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
*** *
65144325 TATTTTGGTAATTTTATTGATC-GAGGG
1 TATTTTGGTAATTTTACAAACCAG-GGG
* ** *
65144352 TATTTTGGTAAATTTGTAAACCAAGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
** ** *
65144379 TATTTCAGTAATTTTGTAAATC-GAGGG
1 TATTTTGGTAATTTTACAAACCAG-GGG
*** * * * *
65144406 TAAAATGGTAATTCTATAAATC-GAGAG
1 TATTTTGGTAATTTTACAAACCAG-GGG
**** * *
65144433 TAAAACGGTAATTCTGTA-AATCGA-GGG
1 TATTTTGGTAATT-T-TACAAACCAGGGG
*** * ** *
65144460 TAAAATGGTAATTCTATCTTA-CAGGAG
1 TATTTTGGTAATTTTA-CAAACCAGGGG
* * *
65144487 TATTTTTGTAATTTTAAAAATC-GAGGG
1 TATTTTGGTAATTTTACAAACCAG-GGG
*** **
65144514 TATTTCAATAATTTTACAAGTC-GAGGG
1 TATTTTGGTAATTTTACAAACCAG-GGG
** * ** *
65144541 TATTTCAGTAATTTCACAAATTAGGGA
1 TATTTTGGTAATTTTACAAACCAGGGG
* *
65144568 TATTTTGGTAATTTTAAAAACTAGGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
*
65144595 TATTTTGATAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
65144622 TATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACCAGGGG
* *
65144649 TATTTTGGTAATTTTACAAACTAGGGA
1 TATTTTGGTAATTTTACAAACCAGGGG
65144676 TATTTTGGTAATTT
1 TATTTTGGTAATTT
65144690 GGTAAATTAA
Statistics
Matches: 311, Mismatches: 69, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
25 2 0.01
26 4 0.01
27 300 0.96
28 3 0.01
29 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACCAGGGG
Found at i:65144353 original size:54 final size:54
Alignment explanation
Indices: 65144271--65144689 Score: 276
Period size: 54 Copynumber: 7.8 Consensus size: 54
65144261 TTCTACCCTA
* *
65144271 TATTTTGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAACCAGGGG
** * ** *
65144325 TATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAAATTTGTAAACCAAGGG
1 TATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAGGGG
** * *** * * * *
65144379 TATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC-GAGAG
1 TATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAG-GGG
**** * * *** * ** *
65144433 TAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATCTTA-CAGGAG
1 TATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTA-CAAACCAGGGG
* * *** **
65144487 TATTTTTGTAATTTTAAAAATCGAGGGTATTTCAATAATTTTACAAGTC-GAGGG
1 TATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAG-GGG
** * * * * *
65144541 TATTTCAGTAATTTCACAAAT-TAGGGATATTTTGGTAATTTTAAAAACTAGGGG
1 TATTTTGGTAATTTTATAAATCGAGGG-TATTTTGGTAATTTTACAAACCAGGGG
* * *
65144595 TATTTTGATAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAACCAGGGG
* *
65144649 TATTTTGGTAATTTTACAAA-CTAGGGATATTTTGGTAATTT
1 TATTTTGGTAATTTTATAAATCGAGGG-TATTTTGGTAATTT
65144690 GGTAAATTAA
Statistics
Matches: 284, Mismatches: 70, Indels: 22
0.76 0.19 0.06
Matches are distributed among these distances:
53 9 0.03
54 268 0.94
55 7 0.02
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (54 bp):
TATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAGGGG
Found at i:65152778 original size:2 final size:2
Alignment explanation
Indices: 65152771--65152795 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65152761 GAGACTAGTC
65152771 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 A
65152796 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65154808 original size:30 final size:30
Alignment explanation
Indices: 65154774--65154834 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65154764 TCCTTAACTC
65154774 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65154804 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65154834 A
1 A
65154835 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65157969 original size:50 final size:50
Alignment explanation
Indices: 65157914--65158140 Score: 346
Period size: 50 Copynumber: 4.5 Consensus size: 50
65157904 TCATGGCAAC
* * *
65157914 AAGTGATAAGTGATAGCTTCGGCTATACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
65157964 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
65158014 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAATTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * * *
65158064 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGTCAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * *
65158114 TAAGTGAAAAGTGGTAGCCTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
65158141 CTGATTAGTG
Statistics
Matches: 164, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 142 0.87
51 22 0.13
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
Found at i:65158154 original size:31 final size:31
Alignment explanation
Indices: 65158111--65158232 Score: 190
Period size: 31 Copynumber: 3.9 Consensus size: 31
65158101 CAAGGTCAAA
* *
65158111 TGATAAGTGAAAAGTGGTAGCCTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
65158142 TGATTAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* *
65158173 TGATCAGTGAAAAATGGTAGCTTCGGCTACT
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
65158204 TGATCAGTGAATAGTGGTAGCTTCGGCTA
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTA
65158233 AAAGTGACAA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 84 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:65169417 original size:92 final size:92
Alignment explanation
Indices: 65169260--65169446 Score: 338
Period size: 92 Copynumber: 2.0 Consensus size: 92
65169250 ACCAACCATT
* *
65169260 ATCCTCATCTTCCACAACTACTCTGTATAGCCAAATTGGAAGAAGGATATTGCCTTGAAAACCAA
1 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
*
65169325 CTATGGAGATTCCTCTGAACCTTCTCC
66 CCATGGAGATTCCTCTGAACCTTCTCC
65169352 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
1 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
*
65169417 CCATGGAGATTCCTCTGAACCTTTTCC
66 CCATGGAGATTCCTCTGAACCTTCTCC
65169444 ATC
1 ATC
65169447 TTCAAAGCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (92 bp):
ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
CCATGGAGATTCCTCTGAACCTTCTCC
Found at i:65169918 original size:24 final size:23
Alignment explanation
Indices: 65169890--65169943 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
65169880 AGATAAATCT
65169890 TAGAATAAATTATTTGAGATATTC
1 TAGAATAAATTATTT-AGATATTC
** *
65169914 TAGAATATTTTATTTTGATATTC
1 TAGAATAAATTATTTAGATATTC
65169937 TAGAATA
1 TAGAATA
65169944 TTTTATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (23 bp):
TAGAATAAATTATTTAGATATTC
Found at i:65169937 original size:23 final size:23
Alignment explanation
Indices: 65169907--65169952 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
65169897 AATTATTTGA
65169907 GATATTCTAGAATATTTTATTTT
1 GATATTCTAGAATATTTTATTTT
65169930 GATATTCTAGAATATTTTATTTT
1 GATATTCTAGAATATTTTATTTT
65169953 ATCTTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
GATATTCTAGAATATTTTATTTT
Found at i:65170003 original size:41 final size:41
Alignment explanation
Indices: 65169951--65170032 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
65169941 ATATTTTATT
*
65169951 TTATCTTTTAGTAGTTGATTATAATAAGGAAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGGAAATTATTTTCC
* *
65169992 TTATCTTTTAGTAGTTTATTAGAATAATGAAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGGAAATTATTTTCC
65170033 CAATTAGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTGATTAGAATAAGGAAATTATTTTCC
Found at i:65171338 original size:27 final size:28
Alignment explanation
Indices: 65171282--65171351 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
65171272 AAACTTGTAC
65171282 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65171310 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65171337 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65171352 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65171362 original size:27 final size:27
Alignment explanation
Indices: 65171282--65171363 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
65171272 AAACTTGTAC
* *
65171282 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
65171310 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
65171337 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
65171364 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:65178686 original size:27 final size:28
Alignment explanation
Indices: 65178630--65178699 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
65178620 AAACTTGTAC
65178630 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65178658 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65178685 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65178700 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65178710 original size:27 final size:27
Alignment explanation
Indices: 65178630--65178711 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
65178620 AAACTTGTAC
* *
65178630 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
65178658 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
65178685 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
65178712 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:65181570 original size:37 final size:37
Alignment explanation
Indices: 65181517--65181602 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
65181507 TTATTATGAA
65181517 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
65181554 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
65181591 GTCTCACCCGGA
1 GTCTTACCCGGA
65181603 ACATTTTCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:65181758 original size:49 final size:49
Alignment explanation
Indices: 65181703--65182019 Score: 475
Period size: 49 Copynumber: 6.6 Consensus size: 49
65181693 TTTTACATTA
65181703 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
65181752 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
65181801 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
65181850 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
65181899 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* * * *
65181946 GCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTA-GGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
65181993 GCCATTCA-GCCTTATCACACATATATA
1 GCCATT-AGGCCTTATCACATATATATA
65182020 TATATCATAC
Statistics
Matches: 255, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
46 2 0.01
47 83 0.33
48 1 0.00
49 169 0.66
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:65189244 original size:30 final size:30
Alignment explanation
Indices: 65189210--65189269 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65189200 ATTTAATACG
65189210 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
65189240 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65189270 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:65196167 original size:46 final size:46
Alignment explanation
Indices: 65196100--65196318 Score: 275
Period size: 46 Copynumber: 4.7 Consensus size: 46
65196090 AACCCGCCCC
* * * *
65196100 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
65196146 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * * *
65196194 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
65196239 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
65196285 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65196319 TGCTCAACCA
Statistics
Matches: 149, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 2 0.01
46 104 0.70
47 28 0.19
48 2 0.01
49 1 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65196773 original size:30 final size:30
Alignment explanation
Indices: 65196739--65196798 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
65196729 ATTTAATACG
*
65196739 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
65196769 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
65196799 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:65198085 original size:19 final size:19
Alignment explanation
Indices: 65198061--65198101 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
65198051 TATTTTAAAG
65198061 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
65198080 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
65198099 TTA
1 TTA
65198102 GAATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:65198170 original size:41 final size:41
Alignment explanation
Indices: 65198138--65198219 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
65198128 ATATTTTATT
65198138 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
* *
65198179 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
65198220 CAATTAGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
Found at i:65200398 original size:12 final size:12
Alignment explanation
Indices: 65200363--65200404 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
65200353 GAACCTTAGG
65200363 AATAGATTGAGA
1 AATAGATTGAGA
* *
65200375 TATGAAATTGAGA
1 AAT-AGATTGAGA
65200388 AATAGATTGAGA
1 AATAGATTGAGA
65200400 AATAG
1 AATAG
65200405 CTACATCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (12 bp):
AATAGATTGAGA
Found at i:65213900 original size:43 final size:43
Alignment explanation
Indices: 65213730--65213901 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
65213720 ACATAGGATT
*
65213730 TCGATATGTG-TTATCATGTAAGA-CATGTCTGGGACATTGGCA
1 TCGATATTTGATTA-CATGTAAGACCATGTCTGGGACATTGGCA
* * * **
65213772 TCGAT-TTGAGATTTACATGGAAGATCATGTCTGGGACATCAGCA
1 TCGATATT-TGA-TTACATGTAAGACCATGTCTGGGACATTGGCA
* * ** * *
65213816 TCG-TATTTGATTTCGTAAAAGACCCTGTCTGGGACAGTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGACATTGGCA
* **
65213858 TCGATATTTGATTACATGTAAGACCAAGTCTGGGATGTTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGACATTGGCA
65213901 T
1 T
65213902 TGTACGAGAT
Statistics
Matches: 100, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.01
42 32 0.32
43 42 0.42
44 25 0.25
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCATGTCTGGGACATTGGCA
Found at i:65217532 original size:29 final size:28
Alignment explanation
Indices: 65217500--65217602 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
65217490 GTGACGAGAT
* *
65217500 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
65217529 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
65217558 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
65217587 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65217603 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:65225300 original size:29 final size:28
Alignment explanation
Indices: 65225268--65225370 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
65225258 GTGACGAGAT
* *
65225268 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
65225297 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
65225326 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
65225355 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65225371 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:65233998 original size:37 final size:37
Alignment explanation
Indices: 65233945--65234047 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
65233935 CGAATAGTCC
*
65233945 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
65233982 TCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
65234019 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
65234048 ATATATTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:65234246 original size:48 final size:48
Alignment explanation
Indices: 65234188--65235042 Score: 1561
Period size: 48 Copynumber: 17.9 Consensus size: 48
65234178 ATATACACAC
* *
65234188 ATCTCCTACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65234236 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65234284 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65234332 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65234380 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65234428 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65234476 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
65234524 ATCTCATACATATTTCAAATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65234572 ATCTCATACATA--TCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65234618 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65234666 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65234714 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
**
65234762 ATCTCATATTTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65234810 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65234858 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65234906 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65234954 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
65235002 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
65235043 CACATATATA
Statistics
Matches: 785, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
46 45 0.06
48 740 0.94
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:65239293 original size:27 final size:27
Alignment explanation
Indices: 65239254--65239457 Score: 202
Period size: 27 Copynumber: 7.7 Consensus size: 27
65239244 CCCTAATTGA
*
65239254 TAAAATGATTGTTTTGCCTTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
*
65239281 TAAACTGACTGTTTTGTCC-TTATGTGG
1 TAAAATGACTGTTTTG-CCTTTATGTGG
* ** * *
65239308 TAAAATGGC-AATTTGGCTCTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* *
65239334 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* **
65239361 TAAAATGATTGTTTTTTCTTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
*
65239388 TAAAATGACTGTTTTGTCC-TTATATGG
1 TAAAATGACTGTTTTG-CCTTTATGTGG
* * * *
65239415 TAGAATGATTG-TTTGCCCTTA-ATGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
65239440 TAAAATGACTGTTTTGCC
1 TAAAATGACTGTTTTGCC
65239458 CCTATGTGAG
Statistics
Matches: 145, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
25 16 0.11
26 31 0.21
27 95 0.66
28 3 0.02
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.44
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCTTTATGTGG
Found at i:65239347 original size:80 final size:81
Alignment explanation
Indices: 65239254--65239465 Score: 261
Period size: 80 Copynumber: 2.7 Consensus size: 81
65239244 CCCTAATTGA
* * *
65239254 TAAAATGATTGTTTTGCCTTTATGTGGTAAACTGACTGTTTTGTCCTTATGTGGTAAAATGGCAA
1 TAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTGGTAAAATGACAA
*
65239319 TTTGG--CTCTATGTGG
66 TTTGGTCCT-TATATGG
* * * **
65239334 TAAAATGATTGTTTTGCCCTTATGTGGTAAAATGATTGTTTTTTCTTTATGTGGTAAAATGACTG
1 TAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTGGTAAAATGACAA
*
65239399 TTTTGTCCTTATATGG
66 TTTGGTCCTTATATGG
* * * *
65239415 TAGAATGATTG-TTTGCCCTTA-ATGGTAAAATGACTGTTTTGCCCCTATGTG
1 TAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTG
65239466 AGTATATATA
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
79 24 0.21
80 71 0.63
81 16 0.14
82 2 0.02
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.44
Consensus pattern (81 bp):
TAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTGGTAAAATGACAA
TTTGGTCCTTATATGG
Found at i:65246965 original size:643 final size:643
Alignment explanation
Indices: 65245485--65247412 Score: 3626
Period size: 643 Copynumber: 3.0 Consensus size: 643
65245475 TTATTGTGTA
65245485 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
65245550 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
65245615 GTTTGAGACTTTGTTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGTTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
65245680 CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
* *
65245745 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCATGCTTACTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
*
65245810 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAAACCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
*
65245875 AATAGCTTCCGCATAATTTATTTAGAAACA-TTTTTTTGAACAAACCGAACGATACTTTCTCATA
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTTGAACAAACCGAACGATACTTTCTCGTA
* * *
65245939 GACGATCGGGCAAACTCGCATACGACTCTACTCTCCCCGAGGCAGTTCGCATCATTTGGTATCAA
456 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
*
65246004 AGCTTGTAAATCGAGAGGCGCCGACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAA
521 AGCTTGTAAATCGAGAGGCGCCGACATTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAA
*
65246069 -TTAAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
586 TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
65246126 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
65246191 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
* *
65246256 GTTTGAGACTTTGTTGACTTATCTACCTAATAGTGGCGTCAACCCTATTTCGTTCACCCATATAC
131 GTTTGAGACTTTGTTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
*
65246321 CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCTCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
65246386 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
65246451 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
*
65246516 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTTGAACAAACCAAACGATACTTTCTCGTA
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTTGAACAAACCGAACGATACTTTCTCGTA
*
65246581 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGTGGTTCGCATCATTTGGTATCAG
456 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
65246646 AGCTTGTAAATCGAGAGGCGCCGACATTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAA
521 AGCTTGTAAATCGAGAGGCGCCGACATTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAA
65246711 TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
586 TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
65246769 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
65246834 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
*
65246899 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGTTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
*
65246964 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
*
65247029 TATAAACATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
65247094 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
* *
65247159 AATAGCTTTCGCATAATTTATTTAGAAACATTTTTGTTGAACAAACCGAACGATACTTTCTCGTA
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTTGAACAAACCGAACGATACTTTCTCGTA
65247224 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
456 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
* * **
65247289 AGCTTGTAAATCGAGAGGCGCCGACTTTCATAACAAGATTAAAATAGGTTCGTAGTTAAAAAAAA
521 AGCTTGTAAATCGAGAGGCGCCGACATTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAA
65247354 TTTGAATTAAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
586 TTTGAATT-AAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
65247413 TGTGAAGTAT
Statistics
Matches: 1256, Mismatches: 28, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
641 414 0.33
642 157 0.12
643 635 0.51
644 50 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (643 bp):
AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
GTTTGAGACTTTGTTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTTGAACAAACCGAACGATACTTTCTCGTA
GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
AGCTTGTAAATCGAGAGGCGCCGACATTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAA
TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
Found at i:65248407 original size:21 final size:20
Alignment explanation
Indices: 65248384--65248452 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 20
65248374 AAGAGAAAAC
65248384 AAAGAAAAGAAAAGAAAAAGCA
1 AAAGAAAAG-AAAGAAAAAG-A
65248406 AAAGCAAAAG-AAGAAAAAGAA
1 AAAG-AAAAGAAAGAAAAAG-A
*
65248427 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAA-GAAAGAAAAAGA
65248448 AAAGA
1 AAAGA
65248453 GAGGCAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.10
21 21 0.50
22 12 0.29
23 5 0.12
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (20 bp):
AAAGAAAAGAAAGAAAAAGA
Found at i:65248408 original size:6 final size:5
Alignment explanation
Indices: 65248384--65248452 Score: 61
Period size: 5 Copynumber: 13.0 Consensus size: 5
65248374 AAGAGAAAAC
*
65248384 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A AAAGAA AAAGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA
65248432 AAATGA AATA-A AAAGA AAAGA
1 AAA-GA AA-AGA AAAGA AAAGA
65248453 GAGGCAAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
4 4 0.07
5 25 0.45
6 25 0.45
7 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:65248414 original size:12 final size:10
Alignment explanation
Indices: 65248384--65248452 Score: 61
Period size: 11 Copynumber: 6.5 Consensus size: 10
65248374 AAGAGAAAAC
65248384 AAAGAAAAGA
1 AAAGAAAAGA
65248394 AAAGAAAAAGCA
1 AAAG-AAAAG-A
65248406 AAAGCAAAAGA
1 AAAG-AAAAGA
*
65248417 AGA-AAAAGAA
1 AAAGAAAAG-A
65248427 AAAGAAAATGA
1 AAAGAAAA-GA
65248438 AATA-AAAAGA
1 AA-AGAAAAGA
65248448 AAAGA
1 AAAGA
65248453 GAGGCAAGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
9 6 0.12
10 12 0.24
11 19 0.39
12 12 0.24
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:65248532 original size:11 final size:12
Alignment explanation
Indices: 65248500--65248530 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65248490 TTGAGAGAAC
65248500 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65248512 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65248524 TTGAAAA
1 TTGAAAA
65248531 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:65248541 original size:12 final size:12
Alignment explanation
Indices: 65248533--65248557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65248523 TTTGAAAAGC
65248533 AAAAAGAAAATG
1 AAAAAGAAAATG
65248545 AAAAAGAAAATG
1 AAAAAGAAAATG
65248557 A
1 A
65248558 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65248554 original size:18 final size:18
Alignment explanation
Indices: 65248527--65248582 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
65248517 AAAGCCTTTG
65248527 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
65248546 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
65248564 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
65248581 AA
1 AA
65248583 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:65248567 original size:30 final size:31
Alignment explanation
Indices: 65248533--65248614 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
65248523 TTTGAAAAGC
*
65248533 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
65248563 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
65248593 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
65248615 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:65250821 original size:30 final size:30
Alignment explanation
Indices: 65250727--65250822 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
65250717 AGCTCACTCC
* *
65250727 TAGCTC-ACTTTCAACTCAC-AGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * **
65250756 TAGCTCAACTTTAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
65250786 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
65250816 TAGCTCA
1 TAGCTCA
65250823 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
29 12 0.24
30 36 0.71
31 3 0.06
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:65252429 original size:45 final size:45
Alignment explanation
Indices: 65252365--65252627 Score: 402
Period size: 45 Copynumber: 5.8 Consensus size: 45
65252355 ATTATCGTAC
65252365 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
65252410 GACACTATTCGGGCCTTTGAGCCTAGCAGGCAATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
65252455 GACACTATTTGGGACTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
65252500 GACACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * * *
65252545 GATACTATTCGGGCCTTTGAGCCTAGTAGGCTACAATGCCTGTAA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
65252590 GATACTATTCGGG-CTTTCAAGCCTAGCAGGCTATAATG
1 GACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATG
65252628 TTGGTGAAAG
Statistics
Matches: 200, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 4 0.02
45 196 0.98
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:65253856 original size:18 final size:18
Alignment explanation
Indices: 65253827--65253896 Score: 133
Period size: 18 Copynumber: 3.9 Consensus size: 18
65253817 CACATTGAAG
65253827 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
65253844 TGTTTTCATCGAAAACCT
1 TGTTTTCATCGAAAACCT
65253862 TGTTTTCATCGAAAACCT
1 TGTTTTCATCGAAAACCT
65253880 TGTTTTCATCGAAAACC
1 TGTTTTCATCGAAAACC
65253897 CTTCTTTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 6 0.12
18 46 0.88
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:65255141 original size:28 final size:28
Alignment explanation
Indices: 65255094--65255168 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
65255084 TGGCCCATTT
*
65255094 AGGCCCAATCTCATTCATATAGCCCATC
1 AGGCCCAATCACATTCATATAGCCCATC
* * * ***
65255122 AGGCCCAATCACTTTTATATGGCTTGTC
1 AGGCCCAATCACATTCATATAGCCCATC
65255150 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
65255169 ATCATGCAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATAGCCCATC
Found at i:65257847 original size:17 final size:17
Alignment explanation
Indices: 65257827--65257864 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
65257817 TTAACCGATT
*
65257827 CATGCATCTTGAG-TGTC
1 CATGCACCTT-AGCTGTC
65257844 CATGCACCTTAGCTGTC
1 CATGCACCTTAGCTGTC
65257861 CATG
1 CATG
65257865 TACCCTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (17 bp):
CATGCACCTTAGCTGTC
Found at i:65263565 original size:86 final size:84
Alignment explanation
Indices: 65263432--65263606 Score: 221
Period size: 86 Copynumber: 2.1 Consensus size: 84
65263422 TTTTTTTGAA
* * * *
65263432 TTTTTTTATATACTTTTTTTTATAACTACTAAAAATGATAATTACAATACAATACTTGAATTTCA
1 TTTTTTTATATACTTTTTTTTATAACAACTAAAAAAGATAATAACAATACAATACTTAAATTTCA
*
65263497 TGAAGTAAAATTTTTTTTATT
66 AGAAG--AAATTTTTTTTATT
*
65263518 TTTTTTGTATATAC-TTTTTTTATAAACAACTAAAATAAGA-AA-AACAATATAATACTTAAATT
1 TTTTTT-TATATACTTTTTTTTAT-AACAACTAAAA-AAGATAATAACAATACAATACTTAAATT
*
65263580 TCAAGAAGAAATTTTTTTTCTT
63 TCAAGAAGAAATTTTTTTTATT
65263602 TTTTT
1 TTTTT
65263607 ACTCTTTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
84 18 0.23
86 39 0.49
87 19 0.24
88 3 0.04
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.49
Consensus pattern (84 bp):
TTTTTTTATATACTTTTTTTTATAACAACTAAAAAAGATAATAACAATACAATACTTAAATTTCA
AGAAGAAATTTTTTTTATT
Found at i:65269483 original size:27 final size:27
Alignment explanation
Indices: 65269455--65269527 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
65269445 TTAACCCTAG
*
65269455 GGGTATATCAGTAATTTTCCTCCTA-A
1 GGGTATATCAGTAATTTTCCACCTATA
* * *
65269481 GGGTAAATCTGTAAAATTTCCACCTATAA
1 GGGTATATCAGT-AATTTTCCACCTAT-A
* *
65269510 AGGTATTTCAGTAATTTT
1 GGGTATATCAGTAATTTT
65269528 ATCAGTTTTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 10 0.29
27 11 0.31
28 5 0.14
29 9 0.26
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (27 bp):
GGGTATATCAGTAATTTTCCACCTATA
Found at i:65271901 original size:19 final size:18
Alignment explanation
Indices: 65271858--65271895 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
65271848 ATACATACAG
65271858 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
65271875 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
65271894 TA
1 TA
65271896 CAAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:65273075 original size:19 final size:18
Alignment explanation
Indices: 65273049--65273089 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
65273039 AAGTCTCTTT
65273049 AAAA-CAAAATTTTTCCA
1 AAAATCAAAATTTTTCCA
65273066 GAAAATCAAAATTTTTCCA
1 -AAAATCAAAATTTTTCCA
65273085 AAAAT
1 AAAAT
65273090 ACCCTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATCAAAATTTTTCCA
Found at i:65275585 original size:30 final size:30
Alignment explanation
Indices: 65275510--65275586 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
65275500 TCAACTCACA
* * * *
65275510 AGCTAAACCTTAGCTCAACTTTAGTTTAGG
1 AGCTAAAGCTTAGCTCAACTTTAGCTCAAG
** *
65275540 AG-TTTAGCCTCAGCTCAACTTTAGCTCAAG
1 AGCTAAAG-CTTAGCTCAACTTTAGCTCAAG
65275570 AGCTAAAGCTTAGCTCA
1 AGCTAAAGCTTAGCTCA
65275587 TTTTAGTTTG
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 30 0.86
31 3 0.09
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (30 bp):
AGCTAAAGCTTAGCTCAACTTTAGCTCAAG
Found at i:65276468 original size:22 final size:20
Alignment explanation
Indices: 65276436--65276484 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
65276426 GCCGAATTTA
65276436 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
65276459 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
65276479 TGAACA
1 TGAACA
65276485 CCTAGATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:65278304 original size:2 final size:2
Alignment explanation
Indices: 65278292--65278328 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
65278282 ACAATACTTT
*
65278292 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65278329 TTTTCCTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:65278492 original size:19 final size:18
Alignment explanation
Indices: 65278455--65278498 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
65278445 ATACATACAG
65278455 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
65278472 TAATAATTTTATCTGATAA
1 TAATAATTTT-TCTAATAA
*
65278491 TACTAATT
1 TAATAATT
65278499 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:65281091 original size:29 final size:29
Alignment explanation
Indices: 65281025--65281081 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
65281015 GATTCAAAGA
*
65281025 TGGGTTTATGGATATGAATTTTATGTAGT
1 TGGGTTTATGGATATAAATTTTATGTAGT
65281054 TGGGTTTATGGATATAAAGTTTT-TGTAG
1 TGGGTTTATGGATATAAA-TTTTATGTAG
65281082 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (29 bp):
TGGGTTTATGGATATAAATTTTATGTAGT
Found at i:65282102 original size:14 final size:14
Alignment explanation
Indices: 65282060--65282104 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65282050 TTAAAGAAGC
65282060 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65282074 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65282087 AACTCATTTAATTA
1 AACTCATTAAATTA
65282101 AACT
1 AACT
65282105 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65282670 original size:18 final size:18
Alignment explanation
Indices: 65282649--65282698 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
65282639 AAACTCTTTT
65282649 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
65282667 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
65282685 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
65282699 TTTTCTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:65283757 original size:17 final size:17
Alignment explanation
Indices: 65283730--65283763 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65283720 TATGTTCAAA
65283730 TTTTCAGATTTTGTTTTT
1 TTTTCAGATTTT-TTTTT
65283748 TTTTCA-ATTTTTTTTT
1 TTTTCAGATTTTTTTTT
65283764 GAAACATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTCAGATTTTTTTTT
Found at i:65284048 original size:29 final size:29
Alignment explanation
Indices: 65283982--65284038 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
65283972 GATTCAAAGA
*
65283982 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
65284011 TGGGTTTATGGATATAAAGGTTT-TGTAG
1 TGGGTTTATGGATATAAA-GTTTATGTAG
65284039 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:65285044 original size:14 final size:14
Alignment explanation
Indices: 65285002--65285046 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65284992 TTAAAGAAGC
65285002 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65285016 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65285029 AACTCATTTAATTA
1 AACTCATTAAATTA
65285043 AACT
1 AACT
65285047 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65285613 original size:18 final size:18
Alignment explanation
Indices: 65285592--65285641 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
65285582 AAACACTTTT
65285592 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
65285610 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
65285628 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
65285642 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:65286070 original size:14 final size:14
Alignment explanation
Indices: 65286023--65286070 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
65286013 GTACGAATGG
* *
65286023 AATGGTAGGAACGA
1 AATGGTAAGAACAA
*
65286037 AAGGGTAAGAACAA
1 AATGGTAAGAACAA
*
65286051 AATGGTATGAACAA
1 AATGGTAAGAACAA
*
65286065 ATTGGT
1 AATGGT
65286071 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAAGAACAA
Found at i:65292615 original size:14 final size:15
Alignment explanation
Indices: 65292591--65292629 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
65292581 AAATCACTCT
65292591 TTTTCTTTTTTTCG-A
1 TTTT-TTTTTTTCGAA
65292606 TTTTTTTTTTTCGAA
1 TTTTTTTTTTTCGAA
65292621 TTTTTTTTT
1 TTTTTTTTT
65292630 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTTTTTTTTTCGAA
Found at i:65293059 original size:14 final size:14
Alignment explanation
Indices: 65293012--65293059 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
65293002 GTACGAATGG
*
65293012 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
65293026 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
65293040 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
65293054 ATTGGT
1 AATGGT
65293060 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:65295697 original size:29 final size:29
Alignment explanation
Indices: 65295631--65295687 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
65295621 GATTCAAAGA
*
65295631 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
65295660 TGGGTTTATGGATATAAAGGTTT-TGTAG
1 TGGGTTTATGGATATAAA-GTTTATGTAG
65295688 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:65296705 original size:14 final size:14
Alignment explanation
Indices: 65296663--65296707 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65296653 TTAAAGAAGC
65296663 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65296677 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65296690 AACTCATTTAATTA
1 AACTCATTAAATTA
65296704 AACT
1 AACT
65296708 AAGAGGCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65300496 original size:15 final size:15
Alignment explanation
Indices: 65300476--65300523 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65300466 TCAAAGATGG
65300476 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
65300491 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
65300505 GTTTATGGATATAAA
1 GTTTATGGATATGAA
65300520 GTTT
1 GTTT
65300524 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:65300510 original size:14 final size:14
Alignment explanation
Indices: 65300470--65300513 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
65300460 AAGGATTCAA
65300470 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
65300484 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
65300499 AGATGGGTTTATGG
1 AGATGGGTTTATGG
65300513 A
1 A
65300514 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:65300539 original size:29 final size:29
Alignment explanation
Indices: 65300470--65300529 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65300460 AAGGATTCAA
*
65300470 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
65300499 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
65300528 AG
1 AG
65300530 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:65301546 original size:14 final size:14
Alignment explanation
Indices: 65301504--65301548 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65301494 TTAAAGAAGC
65301504 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65301518 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65301531 AACTCATTTAATTA
1 AACTCATTAAATTA
65301545 AACT
1 AACT
65301549 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65303987 original size:18 final size:18
Alignment explanation
Indices: 65303964--65304009 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
65303954 TTTATCTCAA
65303964 TTTCTTTTTCCACTCTT-T
1 TTTCTTTTTCCACT-TTCT
*
65303982 TTTCTTGTT-CACTTTCT
1 TTTCTTTTTCCACTTTCT
65303999 TTCTCTTTTTC
1 TT-TCTTTTTC
65304010 GCTTCTCTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 7 0.30
18 14 0.61
ACGTcount: A:0.04, C:0.26, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCCACTTTCT
Found at i:65305093 original size:8 final size:9
Alignment explanation
Indices: 65305073--65305105 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
65305063 TGTTTGAAAT
*
65305073 TTTTTTTCG
1 TTTTTTTCA
65305082 TTTTTTT-A
1 TTTTTTTCA
65305090 TTTTTTTCA
1 TTTTTTTCA
65305099 TTTTTTT
1 TTTTTTT
65305106 TTGAAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:65305093 original size:17 final size:17
Alignment explanation
Indices: 65305073--65305105 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65305063 TGTTTGAAAT
*
65305073 TTTTTTTCGTTTTTTTA
1 TTTTTTTCATTTTTTTA
65305090 TTTTTTTCATTTTTTT
1 TTTTTTTCATTTTTTT
65305106 TTGAAACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTTTCATTTTTTTA
Found at i:65305391 original size:29 final size:29
Alignment explanation
Indices: 65305325--65305381 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
65305315 GATTCAAAGA
* *
65305325 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGCAGT
*
65305354 TGGGTTTATGGATATAAAGTTTTTGCAG
1 TGGGTTTATGGATATAAAGTTTATGCAG
65305382 GTTTGGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.44
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGCAGT
Found at i:65306924 original size:46 final size:46
Alignment explanation
Indices: 65306874--65307002 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
65306864 TGGTTGAGCA
*
65306874 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
65306920 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
65306966 CCCGAGCTCGTCGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65307003 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:65309120 original size:14 final size:14
Alignment explanation
Indices: 65309078--65309122 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65309068 TTAAATAAGC
65309078 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65309092 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65309105 AACTCATTTAATTA
1 AACTCATTAAATTA
65309119 AACT
1 AACT
65309123 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65311915 original size:13 final size:13
Alignment explanation
Indices: 65311886--65311925 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
65311876 AACCGACCAA
*
65311886 TTTGTTCATATCCC
1 TTTGTTCCTA-CCC
65311900 TTTGTTCCTACCC
1 TTTGTTCCTACCC
65311913 TTTCGTTCCTACC
1 TTT-GTTCCTACC
65311926 ATTCCGTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.10, C:0.35, G:0.07, T:0.47
Consensus pattern (13 bp):
TTTGTTCCTACCC
Found at i:65316411 original size:30 final size:30
Alignment explanation
Indices: 65316377--65316474 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 30
65316367 AGCTCACCCC
65316377 TAGCTCATATTCAGCTTACGAGCTAAACCT
1 TAGCTCATATTCAGCTTACGAGCTAAACCT
* * * * *
65316407 TAGCTTAGT-TTCAGCTTAGGAGTTTAATCT
1 TAGCTCA-TATTCAGCTTACGAGCTAAACCT
* * *
65316437 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCC-
1 TAGCTCATA-TTCAGCTTACGAGCTAAA-CCT
65316467 TAGCTCAT
1 TAGCTCAT
65316475 TTTAGTTTAA
Statistics
Matches: 49, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
30 47 0.96
31 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (30 bp):
TAGCTCATATTCAGCTTACGAGCTAAACCT
Found at i:65319076 original size:16 final size:16
Alignment explanation
Indices: 65319055--65319098 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
65319045 ACATTCTTGT
65319055 AAAGAAAAAACAAAG-A
1 AAAGAAAAAA-AAAGCA
65319071 AAAGAAAAGAAAAAGCA
1 AAAGAAAA-AAAAAGCA
65319088 AAAGAAGAAAA
1 AAAGAA-AAAA
65319099 GAAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.48
17 11 0.44
18 2 0.08
ACGTcount: A:0.80, C:0.05, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAAAGCA
Found at i:65319090 original size:6 final size:5
Alignment explanation
Indices: 65319055--65319121 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
65319045 ACATTCTTGT
*
65319055 AAAGA AAAAA CAAAGA AAAGA AAAGAA AAAGCA AAAG- -AAGA AAAGA
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA
65319101 AAATGA AATA-A AAAGA AAAGA
1 AAA-GA AA-AGA AAAGA AAAGA
65319122 GAGGCAAGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 29 0.56
6 18 0.35
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:65319095 original size:20 final size:21
Alignment explanation
Indices: 65319055--65319103 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
65319045 ACATTCTTGT
65319055 AAAGAAAAAACAAAGAAAAGA
1 AAAGAAAAAACAAAGAAAAGA
* *
65319076 AAAGAAAAAGCAAA-AGAAGA
1 AAAGAAAAAACAAAGAAAAGA
65319096 AAAGAAAA
1 AAAGAAAA
65319104 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAACAAAGAAAAGA
Found at i:65319222 original size:13 final size:12
Alignment explanation
Indices: 65319194--65319237 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
65319184 AAAAAAAAAC
* *
65319194 AAAAAGAAAAAG
1 AAAAAGAGAATG
* *
65319206 AAAATGAGATTG
1 AAAAAGAGAATG
65319218 AAAAAGAGAATG
1 AAAAAGAGAATG
65319230 AAAAAGAG
1 AAAAAGAG
65319238 TTTGAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (12 bp):
AAAAAGAGAATG
Found at i:65319222 original size:24 final size:24
Alignment explanation
Indices: 65319194--65319255 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
65319184 AAAAAAAAAC
*
65319194 AAAAAGAAAAAGAAAATGAGATTG
1 AAAAAGAAAAAGAAAAAGAGATTG
* * *
65319218 AAAAAGAGAATGAAAAAGAGTTTG
1 AAAAAGAAAAAGAAAAAGAGATTG
* *
65319242 AGAGAGAAAAAGAA
1 AAAAAGAAAAAGAA
65319256 TGTGAACAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.11
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAAGAGATTG
Found at i:65321550 original size:30 final size:30
Alignment explanation
Indices: 65321516--65321612 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
65321506 AGCTCACTCC
65321516 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
65321546 TAGCT-AGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
65321575 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
65321605 TAGCTCAT
1 TAGCTCAT
65321613 TTTAGTTTAA
Statistics
Matches: 48, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
29 21 0.44
30 27 0.56
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:65323417 original size:25 final size:25
Alignment explanation
Indices: 65323249--65323410 Score: 279
Period size: 25 Copynumber: 6.5 Consensus size: 25
65323239 AAAGCTTGAT
* *
65323249 AATTTTCTCTTAATAATTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
65323274 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
65323299 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
65323324 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
65323349 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
65323374 AATTTGCTCTTAATATTTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
65323399 AATTTGCCCTTA
1 AATTTGCTCTTA
65323411 TTATTTCGGA
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 132 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.46
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCCGGTTA
Found at i:65325773 original size:15 final size:15
Alignment explanation
Indices: 65325753--65325800 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65325743 TCAAAGGTTG
65325753 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
65325768 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
65325783 -TTTATGGATATAAA
1 GTTTATGGATATGAA
65325797 GTTT
1 GTTT
65325801 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:65325816 original size:29 final size:28
Alignment explanation
Indices: 65325749--65325806 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
65325739 GGATTCAAAG
*
65325749 GTTGGTTTATGGATATGAAGTTTATGTA
1 GTTGGTTTATGGATATAAAGTTTATGTA
* *
65325777 GATGGATTTATGGATATAAAGTTTTTGTA
1 GTTGG-TTTATGGATATAAAGTTTATGTA
65325806 G
1 G
65325807 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (28 bp):
GTTGGTTTATGGATATAAAGTTTATGTA
Found at i:65331054 original size:50 final size:52
Alignment explanation
Indices: 65330998--65331117 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 52
65330988 TTAATAAAGT
* *
65330998 CATGCATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGA
* * *
65331048 CATGCATTATGTAATTCCCATGTTAGTTAAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTAAGTT-AAAGTTTGCATCATTAAATTAAGA
*
65331101 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
65331118 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 25 0.42
52 12 0.20
53 23 0.38
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:65333874 original size:30 final size:30
Alignment explanation
Indices: 65333840--65333936 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
65333830 TAAACTAAAA
65333840 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65333870 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
65333900 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65333930 TGAGCTA
1 TGAGCTA
65333937 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65336237 original size:12 final size:12
Alignment explanation
Indices: 65336220--65336264 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
65336210 CTCTCTCAAA
65336220 CTCTTTTTCATT
1 CTCTTTTTCATT
*
65336232 CTCTTTTTCAAT
1 CTCTTTTTCATT
* *
65336244 CTCATTTTCTTT
1 CTCTTTTTCATT
*
65336256 GTCTTTTTC
1 CTCTTTTTC
65336265 TTTTTGTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.09, C:0.24, G:0.02, T:0.64
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:65336251 original size:24 final size:24
Alignment explanation
Indices: 65336215--65336264 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
65336205 TTTTTCTCTC
*
65336215 TCAAACTCTTTTTCATTCTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
* * *
65336239 TCAATCTCATTTTCTTTGTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
65336263 TC
1 TC
65336265 TTTTTGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.60
Consensus pattern (24 bp):
TCAAACTCATTTTCATTCTCTTTT
Found at i:65336378 original size:15 final size:14
Alignment explanation
Indices: 65336356--65336406 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 14
65336346 TTTTATTTTA
65336356 TTTTCTTTTTCTTC
1 TTTTCTTTTTCTTC
65336370 TTTTGCTTTTTCTTTTC
1 TTTT-CTTTTTC--TTC
*
65336387 TTTTCTTTGT-TT-
1 TTTTCTTTTTCTTC
65336399 TTTTCTTT
1 TTTTCTTT
65336407 ACAAGAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 8 0.24
13 2 0.06
14 4 0.12
15 7 0.21
16 5 0.15
17 7 0.21
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTTCTTC
Found at i:65336395 original size:21 final size:22
Alignment explanation
Indices: 65336356--65336406 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
65336346 TTTTATTTTA
65336356 TTTTCTTTTTCTTCTTTTG-CT
1 TTTTCTTTTTCTTCTTTTGTCT
* *
65336377 TTTTC-TTTTCTTTTCTTTGTTT
1 TTTTCTTTTTCTTCT-TTTGTCT
65336399 TTTTCTTT
1 TTTTCTTT
65336407 ACAAGAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 6 0.24
23 2 0.08
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (22 bp):
TTTTCTTTTTCTTCTTTTGTCT
Found at i:65354835 original size:13 final size:13
Alignment explanation
Indices: 65354817--65354841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65354807 TAACCTACAA
65354817 AATTAAATAACAT
1 AATTAAATAACAT
65354830 AATTAAATAACA
1 AATTAAATAACA
65354842 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:65355099 original size:10 final size:10
Alignment explanation
Indices: 65355066--65355114 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
65355056 AAAAAGGAAT
*
65355066 GAGCTGAAAC
1 GAGCTCAAAC
65355076 GAGCT-AAATTC
1 GAGCTCAAA--C
65355087 GAGCTCAAAC
1 GAGCTCAAAC
*
65355097 GAGCTAAAAC
1 GAGCTCAAAC
65355107 GAGCTCAA
1 GAGCTCAA
65355115 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:65355121 original size:20 final size:21
Alignment explanation
Indices: 65355066--65355114 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
65355056 AAAAAGGAAT
* *
65355066 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
65355087 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
65355107 GAGCTCAA
1 GAGCTCAA
65355115 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:65358384 original size:30 final size:30
Alignment explanation
Indices: 65358350--65358446 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
65358340 TAAACTAAAA
65358350 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65358380 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
65358410 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65358440 TGAGCTA
1 TGAGCTA
65358447 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65365796 original size:13 final size:13
Alignment explanation
Indices: 65365778--65365802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65365768 TAACCTACAA
65365778 AATTAAATAACAT
1 AATTAAATAACAT
65365791 AATTAAATAACA
1 AATTAAATAACA
65365803 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:65366060 original size:10 final size:10
Alignment explanation
Indices: 65366027--65366075 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
65366017 AAAAAGGAAT
*
65366027 GAGCTGAAAC
1 GAGCTCAAAC
65366037 GAGCT-AAATTC
1 GAGCTCAAA--C
65366048 GAGCTCAAAC
1 GAGCTCAAAC
*
65366058 GAGCTAAAAC
1 GAGCTCAAAC
65366068 GAGCTCAA
1 GAGCTCAA
65366076 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:65366082 original size:20 final size:21
Alignment explanation
Indices: 65366027--65366075 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
65366017 AAAAAGGAAT
* *
65366027 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
65366048 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
65366068 GAGCTCAA
1 GAGCTCAA
65366076 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:65376731 original size:13 final size:13
Alignment explanation
Indices: 65376713--65376737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65376703 TAACCTACAA
65376713 AATTAAATAACAT
1 AATTAAATAACAT
65376726 AATTAAATAACA
1 AATTAAATAACA
65376738 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:65376995 original size:10 final size:10
Alignment explanation
Indices: 65376962--65377010 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
65376952 AAAAAGGAAT
*
65376962 GAGCTGAAAC
1 GAGCTCAAAC
65376972 GAGCT-AAATTC
1 GAGCTCAAA--C
65376983 GAGCTCAAAC
1 GAGCTCAAAC
*
65376993 GAGCTAAAAC
1 GAGCTCAAAC
65377003 GAGCTCAA
1 GAGCTCAA
65377011 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:65377017 original size:20 final size:21
Alignment explanation
Indices: 65376962--65377010 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
65376952 AAAAAGGAAT
* *
65376962 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
65376983 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
65377003 GAGCTCAA
1 GAGCTCAA
65377011 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:65380350 original size:30 final size:30
Alignment explanation
Indices: 65380316--65380412 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
65380306 TAAACTAAAA
65380316 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65380346 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
65380376 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65380406 TGAGCTA
1 TGAGCTA
65380413 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65382778 original size:15 final size:15
Alignment explanation
Indices: 65382732--65382779 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65382722 AAACCTACAA
*
65382732 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
65382747 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
65382761 AAACTTCATATCCAT
1 AAACTTCATATCCAT
65382776 AAAC
1 AAAC
65382780 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:65383015 original size:11 final size:11
Alignment explanation
Indices: 65382988--65383030 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
65382978 TCAAGTAAGT
65382988 TTCAAAAAAAA
1 TTCAAAAAAAA
**
65382999 -AAAAAAAAAA
1 TTCAAAAAAAA
65383009 TTCAAAAAAAA
1 TTCAAAAAAAA
65383020 TTCAAAAAAAA
1 TTCAAAAAAAA
65383031 ACAAAATCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:65384108 original size:30 final size:28
Alignment explanation
Indices: 65384072--65384127 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
65384062 AAGCGAAAAA
* *
65384072 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
65384102 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
65384128 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:65387410 original size:15 final size:15
Alignment explanation
Indices: 65387364--65387411 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65387354 AAACCTACAA
*
65387364 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
65387379 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
65387393 AAACTTCATATCCAT
1 AAACTTCATATCCAT
65387408 AAAC
1 AAAC
65387412 CTATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:65388949 original size:18 final size:18
Alignment explanation
Indices: 65388900--65388955 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
65388890 CACTCTCAAA
* *
65388900 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
*
65388917 TTTCAATTTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
65388935 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
65388954 TT
1 TT
65388956 CAAAGGCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 4 0.12
18 23 0.72
19 5 0.16
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:65388956 original size:12 final size:12
Alignment explanation
Indices: 65388863--65388949 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 12
65388853 GATTCTTTTG
*
65388863 TTTCAATTTCTT
1 TTTCATTTTCTT
*
65388875 TTTCATCTTCTT
1 TTTCATTTTCTT
* * **
65388887 TTTCACTCTCAAA
1 TTTCATTTTC-TT
*
65388900 TTTC-TTTTCGT
1 TTTCATTTTCTT
* * **
65388911 TCTCTTTTTCAA
1 TTTCATTTTCTT
65388923 TTTCATTTTCTT
1 TTTCATTTTCTT
65388935 TTTCATTTTCTT
1 TTTCATTTTCTT
65388947 TTT
1 TTT
65388950 GCTTTTCAAA
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
11 3 0.05
12 48 0.87
13 4 0.07
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.66
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:65388957 original size:30 final size:30
Alignment explanation
Indices: 65388863--65388949 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
65388853 GATTCTTTTG
* *
65388863 TTTCAATTTCTTTTTCATCTTCTTTTTCAC
1 TTTCAATTTCTTTTTCATTTTCTTTTTCAA
* * *
65388893 TCTCAAATTTC-TTTTCGTTCTCTTTTTCAA
1 TTTC-AATTTCTTTTTCATTTTCTTTTTCAA
*
65388923 TTTCATTTTCTTTTTCATTTTCTTTTT
1 TTTCAATTTCTTTTTCATTTTCTTTTT
65388950 GCTTTTCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 5 0.11
30 35 0.76
31 6 0.13
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTCAATTTCTTTTTCATTTTCTTTTTCAA
Found at i:65389028 original size:5 final size:5
Alignment explanation
Indices: 65389018--65389074 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
65389008 CTCTTGCCTC
* * *
65389018 TCTTT TCTTTT TATTT TGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TC-TTT TCTTT TCTTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
65389065 TCTTT TCTTT
1 TCTTT TCTTT
65389075 GTTTTCTCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
4 3 0.07
5 30 0.70
6 6 0.14
7 4 0.09
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:65389050 original size:25 final size:25
Alignment explanation
Indices: 65389022--65389070 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
65389012 TGCCTCTCTT
*
65389022 TTCTTTT-TATTTTGTTTTCTTTTTC
1 TTCTTTTCT-TTTTCTTTTCTTTTTC
65389047 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTTTTTCTTTTCTTTT
65389071 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTTTTTCTTTTCTTTTTC
Found at i:65389075 original size:21 final size:20
Alignment explanation
Indices: 65389031--65389085 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
65389021 TTTCTTTTTA
65389031 TTTTG-TTTTCTTTTTCTTC
1 TTTTGTTTTTCTTTTTCTTC
*
65389050 TTTTGCTTTTTC-TTTTCTTT
1 TTTTG-TTTTTCTTTTTCTTC
65389070 TCTTTGTTTTCTCTTT
1 T-TTTGTTTT-TCTTT
65389086 ACAAGAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.17
20 12 0.40
21 11 0.37
22 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTGTTTTTCTTTTTCTTC
Found at i:65391799 original size:30 final size:31
Alignment explanation
Indices: 65391707--65391801 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 31
65391697 AACTAAAATA
*
65391707 AGCTAAGCTTTAGCTCGTGAGCT-AAAGTTG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
* * * * * *
65391737 AGCTGAGGCTAAACTCCTAAGCTG-AAGTTG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
*
65391767 AGCTAAGGTTTAGCTCGTGAGTTGAAAG-TG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
65391797 AGCTA
1 AGCTA
65391802 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
30 46 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (31 bp):
AGCTAAGGTTTAGCTCGTGAGCTGAAAGTTG
Found at i:65392164 original size:19 final size:20
Alignment explanation
Indices: 65392140--65392180 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
65392130 AATCTCATTT
65392140 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
65392159 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
65392179 TC
1 TC
65392181 GATTTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:65394354 original size:13 final size:13
Alignment explanation
Indices: 65394336--65394360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65394326 TAACCTATAA
65394336 AATTAAATAACAT
1 AATTAAATAACAT
65394349 AATTAAATAACA
1 AATTAAATAACA
65394361 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:65396124 original size:6 final size:6
Alignment explanation
Indices: 65396105--65396208 Score: 52
Period size: 6 Copynumber: 16.2 Consensus size: 6
65396095 AATCAAACTT
*
65396105 TTTTTC TATTTTC TTTTTC TTGTTCATC TTTTTC TTTTCTC ATTTTC -TTTTC
1 TTTTTC T-TTTTC TTTTTC TT-TT--TC TTTTTC TTTT-TC TTTTTC TTTTTC
* * * *
65396157 TCTCTC TTTTGC TATTCTT- GTTTTC TTTTTC TCACTTTTC -TTTTC TTTTTC
1 TTTTTC TTTTTC T-TT-TTC TTTTTC TTTTTC T---TTTTC TTTTTC TTTTTC
65396208 T
1 T
65396209 CTCAATTGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 26
0.68 0.08 0.23
Matches are distributed among these distances:
5 12 0.16
6 37 0.49
7 15 0.20
8 3 0.04
9 9 0.12
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTTTC
Found at i:65396152 original size:13 final size:13
Alignment explanation
Indices: 65396105--65396159 Score: 67
Period size: 13 Copynumber: 4.1 Consensus size: 13
65396095 AATCAAACTT
65396105 TTTTTCTATTT-TC
1 TTTTTCT-TTTCTC
65396118 TTTTTCTTGTTCATC
1 TTTTTCTT-TTC-TC
65396133 TTTTTCTTTTCTC
1 TTTTTCTTTTCTC
*
65396146 ATTTTCTTTTCTC
1 TTTTTCTTTTCTC
65396159 T
1 T
65396160 CTCTTTTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 1 0.03
13 23 0.62
14 3 0.08
15 10 0.27
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:65396165 original size:30 final size:29
Alignment explanation
Indices: 65396105--65396202 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 29
65396095 AATCAAACTT
* * *
65396105 TTTTTCTATTT-TCTTTTTCTTGTTC-ATC
1 TTTTTCT-TTTCTCATTTTCTTTTTCTCTC
65396133 TTTTTCTTTTCTCATTTTCTTTTCTCTCTC
1 TTTTTCTTTTCTCATTTTCTTTT-TCTCTC
* * ** *
65396163 TTTTGCTATTCTTGTTTTCTTTTTCTCAC
1 TTTTTCTTTTCTCATTTTCTTTTTCTCTC
65396192 -TTTTCTTTTCT
1 TTTTTCTTTTCT
65396203 TTTTCTCTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.05
28 26 0.46
29 7 0.12
30 21 0.37
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTTTCTTTTCTCATTTTCTTTTTCTCTC
Found at i:65398250 original size:30 final size:29
Alignment explanation
Indices: 65398162--65398261 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 29
65398152 AGTTAAACTA
65398162 AAATGAGCT-AGGCTTTAGCTCGTGAGCT-
1 AAATGAGCTAAGG-TTTAGCTCGTGAGCTG
* * * * * *
65398190 AAAGTTGAGCTGAGATTAAACTCCTAAGCTG
1 AAA--TGAGCTAAGGTTTAGCTCGTGAGCTG
65398221 AAACTGAGCTAAGGTTTAGCTCGTGAGCTG
1 AAA-TGAGCTAAGGTTTAGCTCGTGAGCTG
65398251 AATATGAGCTA
1 AA-ATGAGCTA
65398262 GGGGTGAGCT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 3 0.05
30 46 0.84
31 6 0.11
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (29 bp):
AAATGAGCTAAGGTTTAGCTCGTGAGCTG
Found at i:65398272 original size:30 final size:30
Alignment explanation
Indices: 65398216--65398272 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
65398206 TAAACTCCTA
* *
65398216 AGCTGAAACTGAGCTAAGGTTTAGCTCGTG
1 AGCTGAAACTGAGCTAAGGGTGAGCTCGTG
*
65398246 AGCTGAATA-TGAGCTAGGGGTGAGCTC
1 AGCTGAA-ACTGAGCTAAGGGTGAGCTC
65398273 AGTTTAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 22 0.96
31 1 0.04
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (30 bp):
AGCTGAAACTGAGCTAAGGGTGAGCTCGTG
Found at i:65400524 original size:30 final size:30
Alignment explanation
Indices: 65400438--65400535 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
65400428 TTAAACTAAA
* *
65400438 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
65400468 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
65400498 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
65400528 ATGAGCTA
1 ATGAGCTA
65400536 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Done.