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 115 of 433
Found at i:35076254 original size:1 final size:1
Alignment explanation
Indices: 35076248--35076277 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
35076238 GAATTTATAG
35076248 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35076278 GACTTTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:35089750 original size:43 final size:43
Alignment explanation
Indices: 35089590--35089751 Score: 165
Period size: 44 Copynumber: 3.8 Consensus size: 43
35089580 CGATATGAGA
* *
35089590 TTACGTGTAAGACCACGTCTGGGACGTTGGCAT-TTATTTGAGAT
1 TTACGTGTAAGACCACGTCTGGGACATTGGCATCATATTT--GAT
* * *
35089634 TTATGTGTAAGACCATGTCCGGGACATTGGCATCAT-TTATGAT
1 TTACGTGTAAGACCACGTCTGGGACATTGGCATCATATT-TGAT
*
35089677 TT-CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTG-T
1 TTACGTGTAAGACCAC-GTCTGGGACATTGGCATC-ATATTTGAT
*
35089719 TTACATGTAAGACCACGTCTGGGA-ATTTGGCAT
1 TTACGTGTAAGACCACGTCTGGGACA-TTGGCAT
35089752 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
42 30 0.30
43 33 0.33
44 34 0.34
45 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCACGTCTGGGACATTGGCATCATATTTGAT
Found at i:35095206 original size:64 final size:64
Alignment explanation
Indices: 35095105--35095234 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
35095095 AGGCTTCGGA
*
35095105 GAAAGTGATCCCATCTCGACATGATATATGAGATGCGTGCGGCTTGGAGTAATATTGCATCATC
1 GAAAGTGATCCCATCTCGACATGATATATGAGATGCGTGCGGCTCGGAGTAATATTGCATCATC
35095169 GAAAGTGATCCCATCTCGACATGATATATGAGATGCGTGCGGCTCGGAGTAATATTGCATCATC
1 GAAAGTGATCCCATCTCGACATGATATATGAGATGCGTGCGGCTCGGAGTAATATTGCATCATC
35095233 GA
1 GA
35095235 CAACTCAAGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (64 bp):
GAAAGTGATCCCATCTCGACATGATATATGAGATGCGTGCGGCTCGGAGTAATATTGCATCATC
Found at i:35099281 original size:25 final size:25
Alignment explanation
Indices: 35099252--35099302 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35099242 GGGATAACTG
35099252 TCGATGCCATGTCCCTGACATGGTC
1 TCGATGCCATGTCCCTGACATGGTC
35099277 TCGATGCCATGTCCCTGACATGGTC
1 TCGATGCCATGTCCCTGACATGGTC
35099302 T
1 T
35099303 TACACTGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.31, G:0.24, T:0.29
Consensus pattern (25 bp):
TCGATGCCATGTCCCTGACATGGTC
Found at i:35099479 original size:46 final size:45
Alignment explanation
Indices: 35099421--35099591 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
35099411 ATACCGCTTA
*
35099421 GCCGATGGATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAG
* * * * * * * * *
35099467 GTCGATGTATGTCCTAAACATGTCTTACACTAGCACTCGTCTCTAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAG
* * * *
35099513 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTGATAAT-GTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAG
35099561 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
35099592 AGCTCACACA
Statistics
Matches: 97, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
46 50 0.52
47 26 0.27
48 20 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAG
Found at i:35105565 original size:96 final size:95
Alignment explanation
Indices: 35105449--35105636 Score: 295
Period size: 96 Copynumber: 2.0 Consensus size: 95
35105439 AAAGGAGGAA
* *
35105449 TACGATTAAGCTATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTCCC
1 TACGATTAAGATATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCA-AAGAGTTCCC
35105514 AATGTCCAATTAAATATCCAAATAGAGAGAC
65 AATGTCCAATTAAATATCCAAATAGAGAGAC
* **
35105545 TACGATTGAGATATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCAAAGAGTTTTCA
1 TACGATTAAGATATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCAAAGAGTTCCCA
* * *
35105610 ATGTCCAATTAAGTATCTAACTAGAGA
66 ATGTCCAATTAAATATCCAAATAGAGA
35105637 AGAAAGTAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 32 0.38
96 52 0.62
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (95 bp):
TACGATTAAGATATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCAAAGAGTTCCCA
ATGTCCAATTAAATATCCAAATAGAGAGAC
Found at i:35112254 original size:12 final size:12
Alignment explanation
Indices: 35112237--35112263 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35112227 TGGGGATAAA
35112237 ATCGACCCACCC
1 ATCGACCCACCC
35112249 ATCGACCCACCC
1 ATCGACCCACCC
35112261 ATC
1 ATC
35112264 CTTACACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.56, G:0.07, T:0.11
Consensus pattern (12 bp):
ATCGACCCACCC
Found at i:35114605 original size:39 final size:39
Alignment explanation
Indices: 35114562--35114696 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
35114552 ACCAATATGG
*
35114562 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAATTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
* * * *
35114601 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAATTGA
* * * * *
35114639 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATA-ATTGA
*
35114680 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
35114697 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
Found at i:35116237 original size:17 final size:17
Alignment explanation
Indices: 35116215--35116249 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35116205 GAATGCTCTC
*
35116215 TGTTTCTTATTCTTCTT
1 TGTTTCTTATTATTCTT
*
35116232 TGTTTCTTTTTATTCTT
1 TGTTTCTTATTATTCTT
35116249 T
1 T
35116250 TTCTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTATTATTCTT
Found at i:35116319 original size:13 final size:13
Alignment explanation
Indices: 35116279--35116312 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35116269 ACATATATAT
* *
35116279 ATAATATTATTTA
1 ATAATAATAGTTA
35116292 ATAATAATAGTTA
1 ATAATAATAGTTA
35116305 ATAATAAT
1 ATAATAAT
35116313 TTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:35122404 original size:39 final size:39
Alignment explanation
Indices: 35122361--35122495 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
35122351 ACCAATATGG
*
35122361 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAATTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
* * * *
35122400 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAATTGA
* * * * *
35122438 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATA-ATTGA
*
35122479 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
35122496 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
Found at i:35124035 original size:17 final size:17
Alignment explanation
Indices: 35124013--35124047 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35124003 GAATGCTCTC
*
35124013 TGTTTCTTATTCTTCTT
1 TGTTTCTTATTATTCTT
*
35124030 TGTTTCTTTTTATTCTT
1 TGTTTCTTATTATTCTT
35124047 T
1 T
35124048 TTCTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTATTATTCTT
Found at i:35124119 original size:13 final size:13
Alignment explanation
Indices: 35124079--35124112 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35124069 ATATATATAT
* *
35124079 ATAATATTATTTA
1 ATAATAATAGTTA
35124092 ATAATAATAGTTA
1 ATAATAATAGTTA
35124105 ATAATAAT
1 ATAATAAT
35124113 TTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:35130882 original size:31 final size:29
Alignment explanation
Indices: 35130847--35130923 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
35130837 TTAACAACTT
*
35130847 AGTGACTAAAATGTCACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
35130878 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
35130907 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
35130924 TTAAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:35133415 original size:2 final size:2
Alignment explanation
Indices: 35133408--35133437 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
35133398 TATATTTTAT
35133408 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
35133438 GTGTACGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35133593 original size:26 final size:27
Alignment explanation
Indices: 35133564--35133681 Score: 93
Period size: 26 Copynumber: 4.3 Consensus size: 27
35133554 CTAAATCAAT
*
35133564 TTAAATTAAATTATTATATGATG-TAA
1 TTAAATTAAATTATTATATAATGCTAA
* * *
35133590 TT-AATGGTGAAGTA-TATAAAATGCTAA
1 TTAAAT--TAAATTATTATATAATGCTAA
*
35133617 TTAAATT-AATTATTATATAATGTGGTTAAA
1 TTAAATTAAATTATTATATAA--T-GCT-AA
*
35133647 TTAAATTAAAATATTATATAATG-TAA
1 TTAAATTAAATTATTATATAATGCTAA
35133673 TTAAATTAA
1 TTAAATTAA
35133682 GTTAATAATG
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
25 7 0.09
26 27 0.36
27 11 0.15
28 5 0.07
29 3 0.04
30 9 0.12
31 12 0.16
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.42
Consensus pattern (27 bp):
TTAAATTAAATTATTATATAATGCTAA
Found at i:35133665 original size:31 final size:31
Alignment explanation
Indices: 35133615--35133686 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
35133605 ATAAAATGCT
* **
35133615 AATTAAATT-AATTATTATATAATGTGGTTA
1 AATTAAATTAAAATATTATATAATGTAATTA
35133645 AATTAAATTAAAATATTATATAATGTAATTA
1 AATTAAATTAAAATATTATATAATGTAATTA
*
35133676 AATTAAGTTAA
1 AATTAAATTAA
35133687 TAATGAGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 9 0.24
31 28 0.76
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (31 bp):
AATTAAATTAAAATATTATATAATGTAATTA
Found at i:35142109 original size:2 final size:2
Alignment explanation
Indices: 35142102--35142127 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35142092 ATTATTCAAC
35142102 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35142128 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35143693 original size:29 final size:31
Alignment explanation
Indices: 35143634--35143693 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 31
35143624 TGCGTTGCCT
* *
35143634 TATTTATTGAAATAAAAAAAATGAATGAAAA
1 TATTTATTGAAATAAAAAAAATAAAAGAAAA
35143665 TATTT-TT-AAAT-AAAAAAATAAAAGTAAAA
1 TATTTATTGAAATAAAAAAAATAAAAG-AAAA
35143694 GAAAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 11 0.42
29 8 0.31
30 2 0.08
31 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (31 bp):
TATTTATTGAAATAAAAAAAATAAAAGAAAA
Found at i:35144026 original size:20 final size:21
Alignment explanation
Indices: 35143989--35144032 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
35143979 AAACATAATA
35143989 ATAGTATTAAAAAGTATATAC
1 ATAGTATTAAAAAGTATATAC
35144010 ATAGTATTAAAAA-TATATAC
1 ATAGTATTAAAAAGTATATAC
35144030 ATA
1 ATA
35144033 ATATATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAGTATTAAAAAGTATATAC
Found at i:35144035 original size:11 final size:11
Alignment explanation
Indices: 35144003--35144043 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
35143993 TATTAAAAAG
*
35144003 TATATACATAG
1 TATATACATAA
*
35144014 TAT-TA-AAAA
1 TATATACATAA
35144023 TATATACATAA
1 TATATACATAA
35144034 TATATACATA
1 TATATACATA
35144044 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:35144064 original size:18 final size:20
Alignment explanation
Indices: 35144030--35144071 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
35144020 AAATATATAC
*
35144030 ATAATATATACATATTAGAA
1 ATAATATATACATATTAAAA
35144050 ATAATA-ATA-ATATTAAAA
1 ATAATATATACATATTAAAA
35144068 ATAA
1 ATAA
35144072 CTATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 3 0.14
20 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:35144064 original size:46 final size:47
Alignment explanation
Indices: 35143967--35144264 Score: 178
Period size: 46 Copynumber: 6.3 Consensus size: 47
35143957 ATACGTATAT
*
35143967 ATATT-AAAATATAAACATAATAATAGTATTAAAAAGTATATACATA
1 ATATTAAAAATATAAACATAATAATAATATTAAAAAGTATATACATA
* * *
35144013 GTATTAAAAATATATACATAATATATACATATTAGAAA-TA-ATA-ATA
1 ATATTAAAAATATAAACATAATA-ATA-ATATTAAAAAGTATATACATA
* * *
35144059 ATATT-AAAA-AT-AAC-TATTAATAATACTACATAAA-TATACACATATA
1 ATATTAAAAATATAAACATAATAATAATATTA-A-AAAGTATATAC--ATA
* *
35144105 TATATTAAAAATATATAA-ATAATAATGATATT-AAAAGTATGTACGTAATA
1 -ATATTAAAAATATA-AACATAATAATAATATTAAAAAGTATATAC---ATA
* * * *
35144155 TAGTGTTAAAAATACATACATAAT-ATAGTTATTAAAAA-TATATACATA
1 -A-TATTAAAAATATAAACATAATAATA-ATATTAAAAAGTATATACATA
* * * *
35144203 ATATAATAAAATATATGA-ATAAT-ATGATATTAACAA-TATATACATA
1 ATATTA-AAAATATA-AACATAATAATAATATTAAAAAGTATATACATA
35144249 ATATATAAAAATATAA
1 ATAT-TAAAAATATAA
35144265 TATTTAAAAA
Statistics
Matches: 196, Mismatches: 32, Indels: 49
0.71 0.12 0.18
Matches are distributed among these distances:
40 5 0.03
41 3 0.02
42 9 0.05
43 4 0.02
44 2 0.01
45 4 0.02
46 47 0.24
47 40 0.20
48 16 0.08
49 16 0.08
50 8 0.04
51 38 0.19
52 4 0.02
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.34
Consensus pattern (47 bp):
ATATTAAAAATATAAACATAATAATAATATTAAAAAGTATATACATA
Found at i:35144140 original size:25 final size:25
Alignment explanation
Indices: 35143950--35144251 Score: 111
Period size: 26 Copynumber: 12.5 Consensus size: 25
35143940 TAATGTTACC
*
35143950 TATATACATACGTATAT-ATATTAAAA
1 TATATACATA-ATA-ATGATATTAAAA
*
35143976 TATAAACATAATAAT-AGTATTAAAAA
1 TATATACATAATAATGA-TATT-AAAA
*
35144002 GTATATACATAGT-AT--TA--AAAA
1 -TATATACATAATAATGATATTAAAA
* *
35144023 TATATACATAAT-AT-ATA--CATA
1 TATATACATAATAATGATATTAAAA
* * *
35144044 T-TAGAAATAATAATAATATTAAAA
1 TATATACATAATAATGATATTAAAA
*
35144068 -ATA-ACTATTAATAAT-ACTA-CATAAA
1 TATATAC-A-TAATAATGA-TATTA-AAA
*
35144093 TATACACAT-AT-AT-ATATTAAAAA
1 TATATACATAATAATGATATT-AAAA
*
35144116 TATATAAATAATAATGATATTAAAA
1 TATATACATAATAATGATATTAAAA
* * *
35144141 GTATGTACGTAATATAGTG-T-TAAAAA
1 -TATATACATAATA-A-TGATATTAAAA
* *
35144167 TACATACATAAT-ATAGTTATTAAAAA
1 TATATACATAATAAT-GATATT-AAAA
35144193 TATATACATAAT-AT-A-A-TAAAA
1 TATATACATAATAATGATATTAAAA
35144214 TATATGA-ATAAT-ATGATATTAACAA
1 TATAT-ACATAATAATGATATTAA-AA
35144239 TATATACATAATA
1 TATATACATAATA
35144252 TATAAAAATA
Statistics
Matches: 216, Mismatches: 26, Indels: 68
0.70 0.08 0.22
Matches are distributed among these distances:
20 21 0.10
21 27 0.12
22 9 0.04
23 18 0.08
24 22 0.10
25 47 0.22
26 56 0.26
27 14 0.06
28 2 0.01
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (25 bp):
TATATACATAATAATGATATTAAAA
Found at i:35144178 original size:51 final size:51
Alignment explanation
Indices: 35144090--35144253 Score: 155
Period size: 51 Copynumber: 3.4 Consensus size: 51
35144080 AATACTACAT
* * *
35144090 AAATATACACAT-ATATA-TATTAAAAATATATAAATAATA-ATGATATTAA
1 AAATATATACATAATATAGTGTTAAAAATACATAAATAATATA-GATATTAA
* * * * *
35144139 AAGTATGTACGTAATATAGTGTTAAAAATACATACATAATATAGTTATTAA
1 AAATATATACATAATATAGTGTTAAAAATACATAAATAATATAGATATTAA
* * *
35144190 AAATATATACATAATATA---AT-AAAATATATGAATAATAT-GATATTAA
1 AAATATATACATAATATAGTGTTAAAAATACATAAATAATATAGATATTAA
*
35144236 CAATATATACATAATATA
1 AAATATATACATAATATA
35144254 TAAAAATATA
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
46 24 0.25
47 15 0.16
48 1 0.01
49 8 0.08
50 5 0.05
51 41 0.43
52 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (51 bp):
AAATATATACATAATATAGTGTTAAAAATACATAAATAATATAGATATTAA
Found at i:35144181 original size:73 final size:69
Alignment explanation
Indices: 35143953--35144263 Score: 209
Period size: 72 Copynumber: 4.4 Consensus size: 69
35143943 TGTTACCTAT
* *
35143953 ATACATACGTATATATATT-AAAATATA-AACATAATAATAGTATTAAAA-AGTATATACATAGT
1 ATACATACATATATATATTAAAAATATATAA-ATAATAATA-TATTAAAATAGTATA-ATATAGT
35144015 ATTAAAA
63 ATTAAAA
* * * * *
35144022 ATATATACATA-ATATA-TACATAT-TAGAAATAATAATAATATTAAAAATAACTATTAATA-A-
1 ATACATACATATATATATTAAAAATATATAAATAATAAT-ATATT-AAAAT-AGTA-TAATATAG
*
35144082 TACTACATAA
62 TATTA-A-AA
* *
35144092 ATATACACATATATATATTAAAAATATATAAATAATAATGATATTAAAAGTATGTACGTAATATA
1 ATACATACATATATATATTAAAAATATATAAATAATAAT-ATATTAAAA-TA-GTA--TAATATA
*
35144157 GTGTTAAAA
61 GTATTAAAA
*
35144166 ATACATACATAATATAGTTATTAAAAATATATACATAAT-ATA-A-TAAAATA-TATGAATAATA
1 ATACATACAT-ATATA--TATTAAAAATATATAAATAATAATATATTAAAATAGTAT-AAT-ATA
*
35144227 TGATATTAACA
61 -G-TATTAAAA
*
35144238 ATATATACATA-ATATA-TAAAAATATA
1 ATACATACATATATATATTAAAAATATA
35144264 ATATTTAAAA
Statistics
Matches: 196, Mismatches: 22, Indels: 50
0.73 0.08 0.19
Matches are distributed among these distances:
67 25 0.13
68 22 0.11
69 14 0.07
70 25 0.13
71 9 0.05
72 27 0.14
73 25 0.13
74 16 0.08
75 8 0.04
76 5 0.03
77 20 0.10
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (69 bp):
ATACATACATATATATATTAAAAATATATAAATAATAATATATTAAAATAGTATAATATAGTATT
AAAA
Found at i:35144207 original size:11 final size:10
Alignment explanation
Indices: 35144191--35144304 Score: 58
Period size: 11 Copynumber: 10.8 Consensus size: 10
35144181 AGTTATTAAA
35144191 AATATATACAT
1 AATATATA-AT
35144202 AATATAATAA-
1 AATAT-ATAAT
35144212 AATATATGAAT
1 AATATAT-AAT
*
35144223 AATATGATATTAAC
1 -A-AT-ATA-TAAT
35144237 AATATATACAT
1 AATATATA-AT
35144248 AATATATAA-
1 AATATATAAT
35144257 AA-ATATAAT
1 AATATATAAT
* *
35144266 -ATTTA-AAA
1 AATATATAAT
35144274 AATAATATACAT
1 AAT-ATATA-AT
*
35144286 AATATAATATT
1 AATAT-ATAAT
35144297 AATATATA
1 AATATATA
35144305 TATGCGTAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 31
0.68 0.06 0.26
Matches are distributed among these distances:
8 9 0.11
9 8 0.10
10 15 0.19
11 27 0.33
12 13 0.16
13 3 0.04
14 5 0.06
15 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:35144242 original size:35 final size:35
Alignment explanation
Indices: 35144212--35144291 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 35
35144202 AATATAATAA
* *
35144212 AATATATGAATAATATGATATTAACAATATATACAT
1 AATATAT-AAAAATATAATATTAACAATATATACAT
*
35144248 AATATATAAAAATATAATATTTAAAAAATAATATACAT
1 AATATATAAAAATATAATA-TT-AACAAT-ATATACAT
35144286 AATATA
1 AATATA
35144292 ATATTAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 10 0.26
36 9 0.24
37 5 0.13
38 14 0.37
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (35 bp):
AATATATAAAAATATAATATTAACAATATATACAT
Found at i:35144252 original size:25 final size:24
Alignment explanation
Indices: 35143963--35144255 Score: 197
Period size: 25 Copynumber: 12.3 Consensus size: 24
35143953 ATACATACGT
*
35143963 ATATATATT-AAAATATAAACATA
1 ATATATATTAAAAATATATACATA
35143986 ATAATAGTATTAAAAAGTATATAC---
1 AT-ATA-TATTAAAAA-TATATACATA
*
35144010 ATA-GTATTAAAAATATATACATA
1 ATATATATTAAAAATATATACATA
* * *
35144033 ATATATACATATTAGA-A-ATA-ATA
1 ATATATA-TTA-AAAATATATACATA
*
35144056 ATA-ATATTAAAAATA-ACTA-TTA
1 ATATATATTAAAAATATA-TACATA
* *
35144078 ATA-ATACTACATAAATATACACAT-
1 ATATATATTA-A-AAATATATACATA
*
35144102 ATATATATTAAAAATATATAAATA
1 ATATATATTAAAAATATATACATA
* * *
35144126 ATAATGATATTAAAAGTATGTACGTA
1 AT-AT-ATATTAAAAATATATACATA
* *
35144152 ATATAGTGTTAAAAATACATACATA
1 ATATA-TATTAAAAATATATACATA
35144177 ATATAGTTATTAAAAATATATACATA
1 ATATA--TATTAAAAATATATACATA
35144203 ATATA-A-T-AAAATATATGA-ATA
1 ATATATATTAAAAATATAT-ACATA
*
35144224 ATATGATATTAACAATATATACATA
1 ATAT-ATATTAAAAATATATACATA
35144249 ATATATA
1 ATATATA
35144256 AAAATATAAT
Statistics
Matches: 213, Mismatches: 29, Indels: 55
0.72 0.10 0.19
Matches are distributed among these distances:
20 9 0.04
21 29 0.14
22 18 0.08
23 25 0.12
24 28 0.13
25 52 0.24
26 46 0.22
27 6 0.03
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATATTAAAAATATATACATA
Found at i:35146081 original size:21 final size:21
Alignment explanation
Indices: 35146056--35146109 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
35146046 AAGATAAGAT
**
35146056 CTGCAACTTCAATGTGCTCCA
1 CTGCAACTTCAATCAGCTCCA
*
35146077 CTGCAACTTCGATCAGCTCCA
1 CTGCAACTTCAATCAGCTCCA
*
35146098 TTGCAACTTCAA
1 CTGCAACTTCAA
35146110 GAAGGCAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (21 bp):
CTGCAACTTCAATCAGCTCCA
Found at i:35146312 original size:89 final size:88
Alignment explanation
Indices: 35146150--35146383 Score: 253
Period size: 89 Copynumber: 2.7 Consensus size: 88
35146140 CAATCTTTAT
* * * * *
35146150 CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGCTGACTTTTTGGAAAACAAA
1 CCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTATGAAAAACAAA
*
35146215 CATTAAAAACAG-AACTTGAAAATA
65 CATTAAAAACAGAAAC-TAAAAATA
* * * *
35146239 CCTTAGCATATGACCCGAGGCTCAACTCACCTCTCGCAACATAAGTTGATTTGAT-AAAAACAGA
1 CCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-ATGAAAAACA-A
*
35146303 A-TTTGAAAAACAGAAACTAAAAATA
64 ACATT-AAAAACAGAAACTAAAAATA
* ** *
35146328 CCTCAGC--GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 CCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAA
35146384 CATAAATTGA
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
86 1 0.01
87 40 0.33
88 11 0.09
89 66 0.55
90 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (88 bp):
CCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAACAAAC
ATTAAAAACAGAAACTAAAAATA
Found at i:35146426 original size:71 final size:71
Alignment explanation
Indices: 35146322--35146454 Score: 248
Period size: 71 Copynumber: 1.9 Consensus size: 71
35146312 ACAGAAACTA
*
35146322 AAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAT
1 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAT
35146387 AAATTG
66 AAATTG
*
35146393 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAA
1 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
35146455 AACAGAAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAT
AAATTG
Found at i:35155055 original size:40 final size:40
Alignment explanation
Indices: 35155000--35155217 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
35154990 TGGATGATAA
* * * *
35155000 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
*
35155040 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
35155080 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
35155120 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
35155160 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
35155200 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35155218 TACTTGGCTT
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.10
40 151 0.90
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:35163191 original size:40 final size:40
Alignment explanation
Indices: 35163135--35163338 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
35163125 TGGATGATAA
* * * *
35163135 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* * *
35163175 TCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
35163215 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
35163255 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
35163295 CCGGGCTATGTCCCGAAGGCATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
35163335 CCGG
1 CCGG
35163339 TTAAATCCCA
Statistics
Matches: 152, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.02
40 149 0.98
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:35170092 original size:20 final size:21
Alignment explanation
Indices: 35170055--35170098 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
35170045 AAACATAATA
*
35170055 ATAGTCTTAAAAAGTATATAC
1 ATAGTATTAAAAAGTATATAC
35170076 ATAGTATTAAAAA-TATATAC
1 ATAGTATTAAAAAGTATATAC
35170096 ATA
1 ATA
35170099 ATATATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAGTATTAAAAAGTATATAC
Found at i:35170130 original size:46 final size:46
Alignment explanation
Indices: 35170033--35170251 Score: 160
Period size: 45 Copynumber: 4.9 Consensus size: 46
35170023 ATACGTATAT
* * *
35170033 ATATT-AAAATATAAACATAATAATAGTCTTAAAAAGTATATACATA
1 ATATTAAAAATATATACATAATAATACTATTAAAAA-TATATACATA
* *
35170079 GTATTAAAAATATATACATAATATATACTTATTAGAAATA-ATA-ATA
1 ATATTAAAAATATATACATAATA-ATAC-TATTAAAAATATATACATA
* * * *
35170125 ATATTAAAAATA-ACTA-TTAATAATACTA-CATAAATATACACATA
1 ATATTAAAAATATA-TACATAATAATACTATTAAAAATATATACATA
35170169 TATATTAAAAATATATACATAAT-ATA-TA--AAAAA-ATATA-AT-
1 -ATATTAAAAATATATACATAATAATACTATTAAAAATATATACATA
* * * *
35170209 ATTTTAAAAAATAATAGACATAAT-ATAATATTAAATATATATA
1 ATATT-AAAAAT-ATATACATAATAATACTATTAAAAATATATA
35170252 TATATATGAG
Statistics
Matches: 142, Mismatches: 16, Indels: 31
0.75 0.08 0.16
Matches are distributed among these distances:
39 4 0.03
40 6 0.04
41 15 0.11
42 12 0.08
43 8 0.06
44 13 0.09
45 28 0.20
46 25 0.18
47 19 0.13
48 5 0.04
49 7 0.05
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (46 bp):
ATATTAAAAATATATACATAATAATACTATTAAAAATATATACATA
Found at i:35170181 original size:21 final size:23
Alignment explanation
Indices: 35170156--35170206 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
35170146 AATACTACAT
*
35170156 AAATATACACAT-ATATAT-TAA
1 AAATATACACATAATATATAAAA
*
35170177 AAATATATACATAATATATAAAA
1 AAATATACACATAATATATAAAA
35170200 AAATATA
1 AAATATA
35170207 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 11 0.42
22 6 0.23
23 9 0.35
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATATACACATAATATATAAAA
Found at i:35170193 original size:32 final size:31
Alignment explanation
Indices: 35170080--35170194 Score: 89
Period size: 32 Copynumber: 3.7 Consensus size: 31
35170070 ATATACATAG
*
35170080 TATTAAAAATATATACATAATATATAC---T-
1 TATTAAAAATA-ATACATAATATAAACATATA
* *
35170108 TATTAGAAATAATA-ATAATATTAAAAATA-A
1 TATTAAAAATAATACATAATA-TAAACATATA
* * *
35170138 CTATTAATAATACTACATAAATATACACATATA
1 -TATTAAAAATAATACAT-AATATAAACATATA
35170171 TATTAAAAATATATACATAATATA
1 TATTAAAAATA-ATACATAATATA
35170195 TAAAAAAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
26 6 0.09
27 6 0.09
28 10 0.15
31 11 0.16
32 24 0.36
33 10 0.15
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.36
Consensus pattern (31 bp):
TATTAAAAATAATACATAATATAAACATATA
Found at i:35170209 original size:17 final size:17
Alignment explanation
Indices: 35170187--35170221 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35170177 AAATATATAC
35170187 ATAATATATAAAAAAAT
1 ATAATATATAAAAAAAT
* *
35170204 ATAATATTTTAAAAAAT
1 ATAATATATAAAAAAAT
35170221 A
1 A
35170222 ATAGACATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATATATAAAAAAAT
Found at i:35170245 original size:41 final size:41
Alignment explanation
Indices: 35170166--35170254 Score: 101
Period size: 41 Copynumber: 2.1 Consensus size: 41
35170156 AAATATACAC
* *
35170166 ATATATATT-AAAAATATATACATAATATATAAAAAAATAT
1 ATATATTTTAAAAAATATAGACATAATATATAAAAAAATAT
* *
35170206 A-ATATTTTAAAAAATAATAGACATAATATAATATTAAATATAT
1 ATATATTTTAAAAAAT-ATAGACATAATAT-ATA-AAAAAATAT
35170249 ATATAT
1 ATATAT
35170255 ATATGAGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
39 6 0.15
40 7 0.17
41 12 0.30
42 3 0.08
43 8 0.20
44 4 0.10
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (41 bp):
ATATATTTTAAAAAATATAGACATAATATATAAAAAAATAT
Found at i:35170469 original size:22 final size:20
Alignment explanation
Indices: 35170416--35170470 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
35170406 AATGAAATGC
*
35170416 TAATAAATAA-AAAATATAA
1 TAATAAATAATAAAACATAA
35170435 TAATAACAGTAATAAAACATAA
1 TAATAA-A-TAATAAAACATAA
35170457 TAGTATAAATAATA
1 TA--ATAAATAATA
35170471 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.20
20 1 0.03
21 3 0.10
22 15 0.50
23 1 0.03
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (20 bp):
TAATAAATAATAAAACATAA
Found at i:35171195 original size:7 final size:7
Alignment explanation
Indices: 35171183--35171217 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
35171173 GAACACCTTT
35171183 CGATTTC
1 CGATTTC
35171190 CGATTTC
1 CGATTTC
35171197 CGATTTC
1 CGATTTC
35171204 CGA-TTC
1 CGATTTC
*
35171210 TGATTTC
1 CGATTTC
35171217 C
1 C
35171218 CCTTTGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (7 bp):
CGATTTC
Found at i:35171214 original size:13 final size:14
Alignment explanation
Indices: 35171183--35171217 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
35171173 GAACACCTTT
35171183 CGATTTCCGATTTC
1 CGATTTCCGATTTC
35171197 CGATTTCCGA-TTC
1 CGATTTCCGATTTC
*
35171210 TGATTTCC
1 CGATTTCC
35171218 CCTTTGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (14 bp):
CGATTTCCGATTTC
Found at i:35176458 original size:30 final size:30
Alignment explanation
Indices: 35176411--35176497 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
35176401 GAACAATGAG
* *
35176411 TTACACGGCCT-GACACACGCCCGTGTGAC
1 TTACACAGCCTGGACACACGCCTGTGTGAC
* * *
35176440 TTACACCGCCTGGACACACGCTTATGTGAC
1 TTACACAGCCTGGACACACGCCTGTGTGAC
* *
35176470 TCACACAGCCTGGACACAAGCCTGTGTG
1 TTACACAGCCTGGACACACGCCTGTGTG
35176498 CTTGGCCGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
29 10 0.21
30 38 0.79
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (30 bp):
TTACACAGCCTGGACACACGCCTGTGTGAC
Found at i:35178177 original size:38 final size:40
Alignment explanation
Indices: 35178086--35178177 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
35178076 GTACCATTTG
* * * * * *
35178086 GTGTGTAGGATTAGATGGGTTGATTTTATCCCCATACTTG
1 GTGTGTAGGGTTGGGTGGGTCGATTTTATCCCCATACATA
35178126 GTGTGTAGGGTTGGGTGGGTCGATTTTAT-CCC-TACATA
1 GTGTGTAGGGTTGGGTGGGTCGATTTTATCCCCATACATA
*
35178164 GTGTGTTGGGTTGG
1 GTGTGTAGGGTTGG
35178178 ACAGAGATGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 17 0.38
39 3 0.07
40 25 0.56
ACGTcount: A:0.15, C:0.11, G:0.35, T:0.39
Consensus pattern (40 bp):
GTGTGTAGGGTTGGGTGGGTCGATTTTATCCCCATACATA
Found at i:35183359 original size:30 final size:30
Alignment explanation
Indices: 35183325--35183385 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
35183315 CTTCCAAGAG
*
35183325 TCTAAATAAAAAGTAAATTAATATTTTTAA
1 TCTAAATAAAAAATAAATTAATATTTTTAA
35183355 TCTAAATAAAAAATAAATTAATATTTTTAA
1 TCTAAATAAAAAATAAATTAATATTTTTAA
35183385 T
1 T
35183386 AAAAATTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (30 bp):
TCTAAATAAAAAATAAATTAATATTTTTAA
Found at i:35185857 original size:44 final size:44
Alignment explanation
Indices: 35185790--35185888 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
35185780 ATGGGCCTAT
* * * *
35185790 TCACATGAACTATGGGTCGCGGGATGTTAGCTACACGATGCTGC
1 TCACATGAGCTATGAGTCACGGGATATTAGCTACACGATGCTGC
* *
35185834 TCACATGAGCTATGAGTCACGGGATATTGGCTATACGATGCTGC
1 TCACATGAGCTATGAGTCACGGGATATTAGCTACACGATGCTGC
* *
35185878 TTACACGAGCT
1 TCACATGAGCT
35185889 CTGGAGAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (44 bp):
TCACATGAGCTATGAGTCACGGGATATTAGCTACACGATGCTGC
Found at i:35191400 original size:42 final size:41
Alignment explanation
Indices: 35191336--35191415 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 41
35191326 GTCACCTCAC
35191336 TAGAAGTATTCTCAACTGAAATCCCCAAAGTTTCCGACAAAG
1 TAGAAGTATTCTCAACTGAAAT-CCCAAAGTTTCCGACAAAG
*
35191378 TAGAGGTATTCTCAACTGAAATCCCAAAGTTTCCGACA
1 TAGAAGTATTCTCAACTGAAATCCCAAAGTTTCCGACA
35191416 CAGTGCTAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 16 0.43
42 21 0.57
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (41 bp):
TAGAAGTATTCTCAACTGAAATCCCAAAGTTTCCGACAAAG
Found at i:35195643 original size:40 final size:40
Alignment explanation
Indices: 35195595--35195676 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
35195585 TATCACAAAT
35195595 ATTAATTAATATTCCATTTAAAACAACAATAAAAAATATA
1 ATTAATTAATATTCCATTTAAAACAACAATAAAAAATATA
*
35195635 ATTAATTAATATTCCATTTAAAACAACAATAAAAAATTTA
1 ATTAATTAATATTCCATTTAAAACAACAATAAAAAATATA
35195675 AT
1 AT
35195677 CCTTATACGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (40 bp):
ATTAATTAATATTCCATTTAAAACAACAATAAAAAATATA
Found at i:35198588 original size:61 final size:61
Alignment explanation
Indices: 35198518--35198641 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 61
35198508 CATAATGAGG
* * **
35198518 TTGGGAATATTTTCCCATTCAGG-CCTTATTCTTTTTCGTGTGTTATATTTTAGTCCTTTAT
1 TTGGGAATATTTTCCCACTC-GGCCCCTATTCTTTTTCACGTGTTATATTTTAGTCCTTTAT
* *
35198579 TTGGGAATATTTTCCTACTCGGCCCCTGTTCTTTTTCACGTGTTATATTTTAGTCCTTTAT
1 TTGGGAATATTTTCCCACTCGGCCCCTATTCTTTTTCACGTGTTATATTTTAGTCCTTTAT
35198640 TT
1 TT
35198642 ACTTATTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 2 0.04
61 54 0.96
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (61 bp):
TTGGGAATATTTTCCCACTCGGCCCCTATTCTTTTTCACGTGTTATATTTTAGTCCTTTAT
Found at i:35209402 original size:2 final size:2
Alignment explanation
Indices: 35209395--35209423 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35209385 GAGTCTAGTC
35209395 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 A
35209424 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35211459 original size:30 final size:30
Alignment explanation
Indices: 35211425--35211485 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35211415 TCCTTAACTC
35211425 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35211455 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35211485 A
1 A
35211486 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:35216316 original size:18 final size:18
Alignment explanation
Indices: 35216293--35216329 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
35216283 TTTGGCCCAT
35216293 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
35216311 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
35216329 T
1 T
35216330 ATGCAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:35216514 original size:22 final size:22
Alignment explanation
Indices: 35216484--35216534 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
35216474 ATAATAGGCT
*
35216484 TAGAACCATCAGTGATTTACAG
1 TAGAGCCATCAGTGATTTACAG
*
35216506 TAGAGCCATCAGTGATTTGCAG
1 TAGAGCCATCAGTGATTTACAG
*
35216528 CAGAGCC
1 TAGAGCC
35216535 GCCAGTACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (22 bp):
TAGAGCCATCAGTGATTTACAG
Found at i:35216540 original size:22 final size:22
Alignment explanation
Indices: 35216493--35216540 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
35216483 TTAGAACCAT
* *
35216493 CAGTGATTTACAGTAGAGCCAT
1 CAGTGATTTACAGCAGAGCCAC
* *
35216515 CAGTGATTTGCAGCAGAGCCGC
1 CAGTGATTTACAGCAGAGCCAC
35216537 CAGT
1 CAGT
35216541 ACAGTACACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (22 bp):
CAGTGATTTACAGCAGAGCCAC
Found at i:35216714 original size:27 final size:27
Alignment explanation
Indices: 35216683--35216859 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
35216673 ACATAGGGGT
* * *
35216683 AAAACAGTCATCTTACCATAAAAGGGA
1 AAAACAGTCATTTTACCATATAAGGGC
*
35216710 AAAACAGTCATTTTACC-TCATAAAGGC
1 AAAACAGTCATTTTACCAT-ATAAGGGC
* *
35216737 AAAACAGTTATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
*
35216764 AAAACAGTCATTTTACC-TCATAAGGGT
1 AAAACAGTCATTTTACCAT-ATAAGGGC
* * *
35216791 AAAATAGTCATTTCACCACATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
* *
35216818 AAAACAATCATTTTACC-TCATAAGGGT
1 AAAACAGTCATTTTACCAT-ATAAGGGC
*
35216845 AAAATAGTCATTTTA
1 AAAACAGTCATTTTA
35216860 TCGATTAAGT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 123 0.99
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATATAAGGGC
Found at i:35216768 original size:54 final size:54
Alignment explanation
Indices: 35216674--35216859 Score: 264
Period size: 54 Copynumber: 3.4 Consensus size: 54
35216664 GCATACATCA
* * * * *
35216674 CATAGGGGTAAAACAGTCATCTTACCATAAAAGGGAAAAACAGTCATTTTACCT
1 CATAAGGGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCT
* * *
35216728 CATAAAGGCAAAACAGTTATTTTACCACATAAGGGCAAAACAGTCATTTTACCT
1 CATAAGGGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCT
* * *
35216782 CATAAGGGTAAAATAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCT
1 CATAAGGGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCT
*
35216836 CATAAGGGTAAAATAGTCATTTTA
1 CATAAGGGTAAAACAGTCATTTTA
35216860 TCGATTAAGT
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (54 bp):
CATAAGGGTAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCT
Found at i:35216813 original size:81 final size:81
Alignment explanation
Indices: 35216672--35216859 Score: 243
Period size: 81 Copynumber: 2.3 Consensus size: 81
35216662 AAGCATACAT
* * * *
35216672 CACATAGGGGTAAAACAGTCATCTTACCATAAAAGGGAAAAACAGTCATTTTACCTCATAAAGGC
1 CACATAAGGGTAAAACAGTCATTTTACCATAAAAGGGAAAAACAGTCATTTCACCACATAAAGGC
* *
35216737 AAAACAGTTATTTTAC
66 AAAACAATCATTTTAC
* * * * *
35216753 CACATAAGGGCAAAACAGTCATTTTACC-TCATAAGGGTAAAATAGTCATTTCACCACATAAGGG
1 CACATAAGGGTAAAACAGTCATTTTACCAT-AAAAGGGAAAAACAGTCATTTCACCACATAAAGG
35216817 CAAAACAATCATTTTAC
65 CAAAACAATCATTTTAC
* *
35216834 CTCATAAGGGTAAAATAGTCATTTTA
1 CACATAAGGGTAAAACAGTCATTTTA
35216860 TCGATTAAGT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 91 0.99
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (81 bp):
CACATAAGGGTAAAACAGTCATTTTACCATAAAAGGGAAAAACAGTCATTTCACCACATAAAGGC
AAAACAATCATTTTAC
Found at i:35228838 original size:40 final size:39
Alignment explanation
Indices: 35228794--35228918 Score: 137
Period size: 40 Copynumber: 3.2 Consensus size: 39
35228784 GGGACTCAAC
*
35228794 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
35228834 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
* *
35228874 CCGGATTTAGTCACTTACAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTC-GGATCTTAGT
35228913 CCGGAT
1 CCGGAT
35228919 ATCATTCGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
39 17 0.24
40 53 0.75
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:35236906 original size:40 final size:39
Alignment explanation
Indices: 35236862--35236987 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
35236852 GGGACTCAAC
*
35236862 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
35236902 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
35236942 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
35236982 CCGGAT
1 CCGGAT
35236988 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:35236946 original size:80 final size:80
Alignment explanation
Indices: 35236801--35236987 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
35236791 GCTACACATT
* * *
35236801 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
35236865 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
35236881 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
35236944 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
35236962 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
35236988 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:35239855 original size:40 final size:39
Alignment explanation
Indices: 35239811--35239936 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
35239801 GGGACTCAAC
*
35239811 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
35239851 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
35239891 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
35239931 CCGGAT
1 CCGGAT
35239937 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:35239895 original size:80 final size:80
Alignment explanation
Indices: 35239750--35239936 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
35239740 GCTACACATT
* * *
35239750 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
35239814 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
35239830 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
35239893 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
35239911 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
35239937 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:35247927 original size:40 final size:39
Alignment explanation
Indices: 35247883--35248008 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
35247873 GGGACTCAAC
*
35247883 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
35247923 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
35247963 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
35248003 CCGGAT
1 CCGGAT
35248009 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:35247967 original size:80 final size:80
Alignment explanation
Indices: 35247822--35248008 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
35247812 GCTACACATT
* * *
35247822 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
35247886 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
35247902 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
35247965 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
35247983 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
35248009 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:35251477 original size:27 final size:26
Alignment explanation
Indices: 35251446--35251622 Score: 210
Period size: 27 Copynumber: 6.6 Consensus size: 26
35251436 ACATAGGGGT
* *
35251446 AAAACAGTCATCTTACCATAAAAGGGC
1 AAAACAGTCATTTTACC-TATAAGGGC
35251473 AAAACAGTCATTTTACCTTATAAGGGC
1 AAAACAGTCATTTTACC-TATAAGGGC
* * *
35251500 AAAACAATCATTTTACCTCATCAGGGA
1 AAAACAGTCATTTTACCT-ATAAGGGC
* *
35251527 AAAATAGTCATTTTACTTTATAAGGGC
1 AAAACAGTCATTTTAC-CTATAAGGGC
* *
35251554 AAAACAGTCATTTCACCACATAAGGGC
1 AAAACAGTCATTTTACC-TATAAGGGC
35251581 AAAACAGTCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCT-ATAAGGGC
*
35251608 AAAATAGTCATTTTA
1 AAAACAGTCATTTTA
35251623 TAGATTAAGG
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 126 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (26 bp):
AAAACAGTCATTTTACCTATAAGGGC
Found at i:35251516 original size:54 final size:54
Alignment explanation
Indices: 35251446--35251622 Score: 239
Period size: 54 Copynumber: 3.3 Consensus size: 54
35251436 ACATAGGGGT
* *
35251446 AAAACAGTCATCTTACCATAAAAGGGCAAAACAGTCATTTTACCTTATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCTTATAAGGGC
* * * * *
35251500 AAAACAATCATTTTACC-TCATCAGGGAAAAATAGTCATTTTACTTTATAAGGGC
1 AAAACAGTCATTTTACCAT-ATAAGGGCAAAACAGTCATTTTACCTTATAAGGGC
* * *
35251554 AAAACAGTCATTTCACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCTTATAAGGGC
*
35251608 AAAATAGTCATTTTA
1 AAAACAGTCATTTTA
35251623 TAGATTAAGG
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 103 0.99
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (54 bp):
AAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCTTATAAGGGC
Found at i:35251586 original size:81 final size:81
Alignment explanation
Indices: 35251467--35251622 Score: 258
Period size: 81 Copynumber: 1.9 Consensus size: 81
35251457 CTTACCATAA
* ** *
35251467 AAGGGCAAAACAGTCATTTTACCTTATAAGGGCAAAACAATCATTTTACCTCATCAGGGAAAAAT
1 AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGAAAAAT
35251532 AGTCATTTTACTTTAT
66 AGTCATTTTACTTTAT
* *
35251548 AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAAT
1 AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGAAAAAT
35251613 AGTCATTTTA
66 AGTCATTTTA
35251623 TAGATTAAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (81 bp):
AAGGGCAAAACAGTCATTTCACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGAAAAAT
AGTCATTTTACTTTAT
Found at i:35257414 original size:21 final size:21
Alignment explanation
Indices: 35257388--35257429 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35257378 TAAGTCAGTA
*
35257388 TCGCACAC-GACCTGTGGACAC
1 TCGCACACAG-CCTATGGACAC
35257409 TCGCACACAGCCTATGGACAC
1 TCGCACACAGCCTATGGACAC
35257430 ACCGATGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.38, G:0.21, T:0.14
Consensus pattern (21 bp):
TCGCACACAGCCTATGGACAC
Found at i:35259506 original size:25 final size:25
Alignment explanation
Indices: 35259445--35259508 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
35259435 TATTTTGAAG
* *
35259445 TTTTTATAT-TATATTATTTTAACA
1 TTTTTATATATATTTTATTTAAACA
* *
35259469 TTATGTATA-ATATTTTATTTAAATA
1 TT-TTTATATATATTTTATTTAAACA
35259494 TTTTTATATATATTT
1 TTTTTATATATATTT
35259509 GTACATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTATATATATTTTATTTAAACA
Found at i:35263831 original size:19 final size:19
Alignment explanation
Indices: 35263807--35263853 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
35263797 TGATGCCTCC
*
35263807 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
35263826 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
35263845 TATGCATTA
1 TTTGCATTA
35263854 AAGACCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:35268797 original size:13 final size:13
Alignment explanation
Indices: 35268779--35268803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35268769 GAGACCTTAA
35268779 AAAAAATCAAAAT
1 AAAAAATCAAAAT
35268792 AAAAAATCAAAA
1 AAAAAATCAAAA
35268804 CCAAAACAAA
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:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATCAAAAT
Found at i:35268813 original size:24 final size:25
Alignment explanation
Indices: 35268781--35268853 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
35268771 GACCTTAAAA
**
35268781 AAAATCAAAATAAAAAATCAAAA-CC
1 AAAA-CAAAATAAAAAAGAAAAATCC
* *
35268806 AAAACAAAACAAAAAAGAAAAATTC
1 AAAACAAAATAAAAAAGAAAAATCC
*
35268831 AAAA-AAAATAAAATAAAAAAAAT
1 AAAACAAAATAAAA-AAGAAAAAT
35268854 AAAAAAAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 23 0.57
25 17 0.43
ACGTcount: A:0.78, C:0.10, G:0.01, T:0.11
Consensus pattern (25 bp):
AAAACAAAATAAAAAAGAAAAATCC
Found at i:35268833 original size:25 final size:25
Alignment explanation
Indices: 35268777--35268860 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
35268767 CTGAGACCTT
**
35268777 AAAAAAAATCAAAATAAAAAATCAAAACC
1 AAAAAAAA-CAAAAT-AAAAA--AAATTC
*
35268806 AAAACAAAACAAAA-AAGAAAAATTC
1 AAAA-AAAACAAAATAAAAAAAATTC
*
35268831 AAAAAAAATAAAATAAAAAAAA-T-
1 AAAAAAAACAAAATAAAAAAAATTC
35268854 AAAAAAA
1 AAAAAAA
35268861 GAAGAAAGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 7 0.15
24 9 0.19
25 15 0.31
27 4 0.08
29 9 0.19
30 4 0.08
ACGTcount: A:0.81, C:0.08, G:0.01, T:0.10
Consensus pattern (25 bp):
AAAAAAAACAAAATAAAAAAAATTC
Found at i:35268853 original size:14 final size:14
Alignment explanation
Indices: 35268831--35268857 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35268821 AGAAAAATTC
35268831 AAAAAAAATAAAAT
1 AAAAAAAATAAAAT
35268845 AAAAAAAATAAAA
1 AAAAAAAATAAAA
35268858 AAAGAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAAAATAAAAT
Found at i:35268858 original size:24 final size:24
Alignment explanation
Indices: 35268777--35268860 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
35268767 CTGAGACCTT
*
35268777 AAAAAAAATCAAAATAAAAAATCAAAA
1 AAAAAAAAT-AAAATAAAAAA--AATA
* * *
35268804 CCAAAACAAAACAAAA-AAGAAAAATTC
1 --AAAA-AAAATAAAATAA-AAAAAATA
35268831 AAAAAAAATAAAATAAAAAAAATA
1 AAAAAAAATAAAATAAAAAAAATA
35268855 AAAAAA
1 AAAAAA
35268861 GAAGAAAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
24 20 0.44
25 6 0.13
27 1 0.02
28 2 0.04
29 12 0.27
30 4 0.09
ACGTcount: A:0.81, C:0.08, G:0.01, T:0.10
Consensus pattern (24 bp):
AAAAAAAATAAAATAAAAAAAATA
Found at i:35270006 original size:64 final size:64
Alignment explanation
Indices: 35269933--35270061 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
35269923 TATCATCCAT
* * *
35269933 AACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC
1 AACACATCTAATTAGGAACAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC
* **
35269997 AACACATCTAATTAGGAACAGTTGATTCATTTTGATCATAGCATCCTAATTATTTTCCATAAGC
1 AACACATCTAATTAGGAACAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC
35270061 A
1 A
35270062 TAGATACATG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (64 bp):
AACACATCTAATTAGGAACAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC
Found at i:35270473 original size:44 final size:44
Alignment explanation
Indices: 35270403--35270487 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
35270393 CCACCAGCCC
** *
35270403 TATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGTTTGAAGTCT
1 TATCTCTCTGAAGTAGCAAGAGAGCAGACTGAAGATTGAAGTCT
* *
35270447 TATCTTTCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAG
1 TATCTCTCTGAAGTAGCAAGAG-AGCAGACTGAAGATTGAAG
35270488 ATCTATTTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (44 bp):
TATCTCTCTGAAGTAGCAAGAGAGCAGACTGAAGATTGAAGTCT
Found at i:35275353 original size:22 final size:21
Alignment explanation
Indices: 35275322--35275387 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
35275312 TTACATAATC
35275322 CAAAAGGCATTCGTCGATAAG
1 CAAAAGGCATTCGTCGATAAG
* *
35275343 CAAAAGAGCATT--AC-ATAATC
1 CAAAAG-GCATTCGTCGATAA-G
35275363 CAAAAGGCATTCGTCGATAAG
1 CAAAAGGCATTCGTCGATAAG
35275384 CAAA
1 CAAA
35275388 CATACCGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
19 9 0.25
20 7 0.19
21 11 0.31
22 9 0.25
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (21 bp):
CAAAAGGCATTCGTCGATAAG
Found at i:35275357 original size:41 final size:41
Alignment explanation
Indices: 35275305--35275387 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
35275295 GAAAAGTAGC
35275305 AAGAGCATTACATAATCCAAAAGGCATTCGTCGATAAGCAA
1 AAGAGCATTACATAATCCAAAAGGCATTCGTCGATAAGCAA
35275346 AAGAGCATTACATAATCCAAAAGGCATTCGTCGATAAGCAA
1 AAGAGCATTACATAATCCAAAAGGCATTCGTCGATAAGCAA
35275387 A
1 A
35275388 CATACCGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (41 bp):
AAGAGCATTACATAATCCAAAAGGCATTCGTCGATAAGCAA
Found at i:35275372 original size:19 final size:19
Alignment explanation
Indices: 35275309--35275373 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
35275299 AGTAGCAAGA
35275309 GCATTACATAATCCAAAAG
1 GCATTACATAATCCAAAAG
* *
35275328 GCATTCGTCGATAA-GCAAAAG
1 GCATT--AC-ATAATCCAAAAG
35275349 AGCATTACATAATCCAAAAG
1 -GCATTACATAATCCAAAAG
35275369 GCATT
1 GCATT
35275374 CGTCGATAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
19 14 0.38
20 7 0.19
21 7 0.19
22 9 0.24
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (19 bp):
GCATTACATAATCCAAAAG
Found at i:35281327 original size:28 final size:28
Alignment explanation
Indices: 35281287--35281344 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
35281277 CAAGCCAAGG
35281287 CTTGAACTCAGGACTTCTCCAACACTTC
1 CTTGAACTCAGGACTTCTCCAACACTTC
35281315 CTTGAACTCAGGACTTCTCCAACACTTC
1 CTTGAACTCAGGACTTCTCCAACACTTC
35281343 CT
1 CT
35281345 AAAACACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.36, G:0.10, T:0.29
Consensus pattern (28 bp):
CTTGAACTCAGGACTTCTCCAACACTTC
Found at i:35281876 original size:25 final size:25
Alignment explanation
Indices: 35281848--35281924 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
35281838 TTCTATGACC
35281848 AACTAAGTATATTTTTTATTCTCCT
1 AACTAAGTATATTTTTTATTCTCCT
* * * * *
35281873 AACTAA-AACATTGTGT-TT-ACC-
1 AACTAAGTATATTTTTTATTCTCCT
*
35281894 AACTAAGTGTATTTTTTATTCTCCT
1 AACTAAGTATATTTTTTATTCTCCT
35281919 AACTAA
1 AACTAA
35281925 AGCATTGTGT
Statistics
Matches: 37, Mismatches: 11, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
21 6 0.16
22 7 0.19
23 4 0.11
24 8 0.22
25 12 0.32
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.44
Consensus pattern (25 bp):
AACTAAGTATATTTTTTATTCTCCT
Found at i:35281912 original size:46 final size:46
Alignment explanation
Indices: 35281845--35281937 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
35281835 ACTTTCTATG
35281845 ACCAACTAAGTATATTTTTTATTCTCCTAACTAAAACATTGTGTTT
1 ACCAACTAAGTATATTTTTTATTCTCCTAACTAAAACATTGTGTTT
* *
35281891 ACCAACTAAGTGTATTTTTTATTCTCCTAACTAAAGCATTGTGTTT
1 ACCAACTAAGTATATTTTTTATTCTCCTAACTAAAACATTGTGTTT
35281937 A
1 A
35281938 GCCTTCTCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (46 bp):
ACCAACTAAGTATATTTTTTATTCTCCTAACTAAAACATTGTGTTT
Found at i:35283620 original size:30 final size:29
Alignment explanation
Indices: 35283584--35283659 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
35283574 AATGTAGTGT
* *
35283584 TCACACAAGCTGACA-GTATTTCAGGGTTGC
1 TCACACAAGCTGACATGTA-ATC-GGATTGC
35283614 TCACACAAGCTGACATTGTAATCGGATTGC
1 TCACACAAGCTGACA-TGTAATCGGATTGC
*
35283644 TCACACAAGGTGACAT
1 TCACACAAGCTGACAT
35283660 CATATTAAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 35 0.85
31 2 0.05
32 3 0.07
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (29 bp):
TCACACAAGCTGACATGTAATCGGATTGC
Found at i:35286741 original size:30 final size:30
Alignment explanation
Indices: 35286705--35286764 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
35286695 ATTTAGAATT
35286705 TAACTTTTGTAGTTTTATTTTAAAATTTTA
1 TAACTTTTGTAGTTTTATTTTAAAATTTTA
*
35286735 TAACTTTTGTAGTTTTGTTTTAAAATTTTA
1 TAACTTTTGTAGTTTTATTTTAAAATTTTA
35286765 ATCTTTCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.60
Consensus pattern (30 bp):
TAACTTTTGTAGTTTTATTTTAAAATTTTA
Found at i:35287306 original size:15 final size:16
Alignment explanation
Indices: 35287286--35287319 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35287276 TCATAAACAT
35287286 AATTTA-ACCTAAAAC
1 AATTTATACCTAAAAC
*
35287301 AATTTATACCTAACAC
1 AATTTATACCTAAAAC
35287317 AAT
1 AAT
35287320 CATGTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTTATACCTAAAAC
Found at i:35306528 original size:25 final size:25
Alignment explanation
Indices: 35306500--35306550 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
35306490 AAATTGTTAC
*
35306500 AATATTATAGATAGTCTATTCTGAA
1 AATATTATAGATAGTCTATACTGAA
* * *
35306525 AATATTCTAGTTAGTGTATACTGAA
1 AATATTATAGATAGTCTATACTGAA
35306550 A
1 A
35306551 CTGTACTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (25 bp):
AATATTATAGATAGTCTATACTGAA
Found at i:35319089 original size:2 final size:2
Alignment explanation
Indices: 35319082--35319120 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
35319072 GTTTGAAGGT
35319082 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35319121 CCAAATGACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35322727 original size:46 final size:46
Alignment explanation
Indices: 35322677--35322852 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
35322667 TGGTTGAGCA
*
35322677 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
35322723 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
35322770 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
35322816 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35322853 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35322833 original size:93 final size:93
Alignment explanation
Indices: 35322674--35322844 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35322664 GGATGGTTGA
* *
35322674 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35322739 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
35322767 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35322832 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35322845 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:35326800 original size:93 final size:93
Alignment explanation
Indices: 35326688--35326859 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35326678 CGCCCATAAG
* *
35326688 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35326753 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
35326781 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35326846 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35326860 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35326856 original size:46 final size:46
Alignment explanation
Indices: 35326681--35326856 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35326671 TGTAACCCGC
* * *
35326681 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
35326727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
35326777 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35326820 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35326857 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35333938 original size:93 final size:93
Alignment explanation
Indices: 35333826--35333997 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35333816 CGCCCATAAG
* *
35333826 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35333891 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
35333919 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35333984 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35333998 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35333994 original size:46 final size:46
Alignment explanation
Indices: 35333819--35333994 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35333809 TGTAACCCGC
* * *
35333819 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
35333865 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
35333915 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35333958 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35333995 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35339662 original size:46 final size:46
Alignment explanation
Indices: 35339612--35339787 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
35339602 TGGTTGAGCA
*
35339612 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
35339658 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
35339705 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
35339751 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35339788 GGGGTTACAT
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35339768 original size:93 final size:93
Alignment explanation
Indices: 35339609--35339779 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35339599 GGATGGTTGA
* *
35339609 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35339674 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
35339702 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35339767 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35339780 ACTTATGGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:35342945 original size:24 final size:25
Alignment explanation
Indices: 35342895--35342948 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
35342885 TTTCACCACC
35342895 AAATTCAATTTCTATGATTTTTAGT
1 AAATTCAATTTCTATGATTTTTAGT
35342920 AAATTCAATTTCTATGA-TTTTAGT
1 AAATTCAATTTCTATGATTTTTAGT
35342944 AAATT
1 AAATT
35342949 TTCAAACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (25 bp):
AAATTCAATTTCTATGATTTTTAGT
Found at i:35350839 original size:93 final size:93
Alignment explanation
Indices: 35350727--35350898 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35350717 CGCCCATAAG
* *
35350727 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35350792 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
35350820 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35350885 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35350899 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35350895 original size:46 final size:46
Alignment explanation
Indices: 35350720--35350895 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35350710 TGTAACCCGC
* * *
35350720 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
35350766 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
35350816 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35350859 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35350896 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35357980 original size:93 final size:93
Alignment explanation
Indices: 35357868--35358039 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35357858 CGCCCATAAG
* *
35357868 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35357933 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
35357961 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35358026 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35358040 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35358036 original size:46 final size:46
Alignment explanation
Indices: 35357861--35358036 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35357851 TGTAACCCGC
* * *
35357861 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
35357907 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
35357957 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35358000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35358037 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35361410 original size:40 final size:40
Alignment explanation
Indices: 35361331--35361488 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
35361321 TTCGAATGAT
* * * *
35361331 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTAACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
35361371 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
35361411 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
**
35361451 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
35361489 GTAACCGGGC
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 90 0.93
41 6 0.06
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:35361474 original size:80 final size:80
Alignment explanation
Indices: 35361331--35361518 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
35361321 TTCGAATGAT
* * *
35361331 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTAACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGACTAAGTCCCGAAGGCTTTGAGCTAAGTAACTAAATCCGGACTAAGATCCGAAGGCATA
35361396 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
**
35361411 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGACTAAG-TCCCGAAGGCTTT-GAGCTAAG-TAACTAAATCCGGACTAAGAT-CCGAAGG
* *
35361472 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
* *
35361492 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGACTAAGTCCCGAAGGC-TTTGA
35361519 ATGTGTAGCC
Statistics
Matches: 92, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
79 2 0.02
80 80 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATCCGGACTAAGTCCCGAAGGCTTTGAGCTAAGTAACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:35363040 original size:15 final size:15
Alignment explanation
Indices: 35363001--35363080 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
35362991 GTATCTTGGG
*
35363001 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
35363016 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
35363031 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
35363046 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
35363061 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
35363075 TTTCTT
1 TTTCTT
35363081 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:35363070 original size:30 final size:30
Alignment explanation
Indices: 35362992--35363079 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
35362982 CATAGTATCG
* * *
35362992 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
35363022 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
35363052 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
35363080 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:35367791 original size:24 final size:25
Alignment explanation
Indices: 35367738--35367791 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
35367728 TTTTCAATTA
**
35367738 ATAAAATAATTAATTATATAAAACT
1 ATAAAATAATTAAACATATAAAACT
*
35367763 A-AAAATATTTAAACATATAAAA-T
1 ATAAAATAATTAAACATATAAAACT
35367786 ATAAAA
1 ATAAAA
35367792 AATATCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 22 0.88
25 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (25 bp):
ATAAAATAATTAAACATATAAAACT
Found at i:35378072 original size:40 final size:40
Alignment explanation
Indices: 35377996--35378080 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
35377986 CAAAACTTAC
* * *
35377996 TTTTTAAAAAAGAAAAAAATATTATTTCTAGGGTATTTAT
1 TTTTTAAAAAAGAAAAAAAAATTATTCCTAGCGTATTTAT
* *
35378036 TTTTTAGAAAGGAAAAAAAAATTATTCCT-GACGTATTTAT
1 TTTTTAAAAAAGAAAAAAAAATTATTCCTAG-CGTATTTAT
*
35378076 ATTTT
1 TTTTT
35378081 CTTCATTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (40 bp):
TTTTTAAAAAAGAAAAAAAAATTATTCCTAGCGTATTTAT
Found at i:35379599 original size:2 final size:2
Alignment explanation
Indices: 35379592--35379620 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35379582 CTTTAGTATC
35379592 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 T
35379621 TCCTGATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35381061 original size:33 final size:33
Alignment explanation
Indices: 35381019--35381085 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
35381009 TAAAATTTTA
35381019 CTTAGTTTTGAAAATAAGCGTATTTATGTTGAT
1 CTTAGTTTTGAAAATAAGCGTATTTATGTTGAT
35381052 CTTAGTTTTGAAAATAAGCGTATTTATGTTGAT
1 CTTAGTTTTGAAAATAAGCGTATTTATGTTGAT
35381085 C
1 C
35381086 CTTAAGCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (33 bp):
CTTAGTTTTGAAAATAAGCGTATTTATGTTGAT
Found at i:35381127 original size:4 final size:4
Alignment explanation
Indices: 35381118--35381164 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
35381108 TCGTGACATA
35381118 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
35381165 ATTCTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:35400499 original size:267 final size:267
Alignment explanation
Indices: 35400045--35400584 Score: 1080
Period size: 267 Copynumber: 2.0 Consensus size: 267
35400035 TTTTAGTAAA
35400045 AAAATGGACAAATTAGTGCTGTACGTTACATCAAAGAGCAAATTGGTCCTGTCTATTAAAACATT
1 AAAATGGACAAATTAGTGCTGTACGTTACATCAAAGAGCAAATTGGTCCTGTCTATTAAAACATT
35400110 TCATCCATTTTTACTGTTAAAAACTGACATGATTGACGAAATAACCAGAAAGCTACATGTAGTGT
66 TCATCCATTTTTACTGTTAAAAACTGACATGATTGACGAAATAACCAGAAAGCTACATGTAGTGT
35400175 GCCATGTGCACCTCATGCTAATATACAAGGAATAGTTTTTAATAGTAGAAATGGATGAAAGTTTT
131 GCCATGTGCACCTCATGCTAATATACAAGGAATAGTTTTTAATAGTAGAAATGGATGAAAGTTTT
35400240 AACAAAAGGACCAATTTGCTCTTTGATCTAATGTATAGGGACTACTTTGCCCATTTTTTTAGTAG
196 AACAAAAGGACCAATTTGCTCTTTGATCTAATGTATAGGGACTACTTTGCCCATTTTTTTAGTAG
35400305 AGGGGAC
261 AGGGGAC
35400312 AAAATGGACAAATTAGTGCTGTACGTTACATCAAAGAGCAAATTGGTCCTGTCTATTAAAACATT
1 AAAATGGACAAATTAGTGCTGTACGTTACATCAAAGAGCAAATTGGTCCTGTCTATTAAAACATT
35400377 TCATCCATTTTTACTGTTAAAAACTGACATGATTGACGAAATAACCAGAAAGCTACATGTAGTGT
66 TCATCCATTTTTACTGTTAAAAACTGACATGATTGACGAAATAACCAGAAAGCTACATGTAGTGT
35400442 GCCATGTGCACCTCATGCTAATATACAAGGAATAGTTTTTAATAGTAGAAATGGATGAAAGTTTT
131 GCCATGTGCACCTCATGCTAATATACAAGGAATAGTTTTTAATAGTAGAAATGGATGAAAGTTTT
35400507 AACAAAAGGACCAATTTGCTCTTTGATCTAATGTATAGGGACTACTTTGCCCATTTTTTTAGTAG
196 AACAAAAGGACCAATTTGCTCTTTGATCTAATGTATAGGGACTACTTTGCCCATTTTTTTAGTAG
35400572 AGGGGAC
261 AGGGGAC
35400579 AAAATG
1 AAAATG
35400585 CAATTAGATT
Statistics
Matches: 273, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 273 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (267 bp):
AAAATGGACAAATTAGTGCTGTACGTTACATCAAAGAGCAAATTGGTCCTGTCTATTAAAACATT
TCATCCATTTTTACTGTTAAAAACTGACATGATTGACGAAATAACCAGAAAGCTACATGTAGTGT
GCCATGTGCACCTCATGCTAATATACAAGGAATAGTTTTTAATAGTAGAAATGGATGAAAGTTTT
AACAAAAGGACCAATTTGCTCTTTGATCTAATGTATAGGGACTACTTTGCCCATTTTTTTAGTAG
AGGGGAC
Found at i:35403119 original size:13 final size:13
Alignment explanation
Indices: 35403101--35403175 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
35403091 CACTTTCTCT
*
35403101 TTTTTTTTTTTAC
1 TTTTTTATTTTAC
35403114 TTTTTTATTTTAC
1 TTTTTTATTTTAC
* * *
35403127 TTTTGTCTTTTTC
1 TTTTTTATTTTAC
*
35403140 -TCTTTATTTTA-
1 TTTTTTATTTTAC
* *
35403151 TTTATTTATTTGAT
1 TTT-TTTATTTTAC
35403165 TTTATTTATTT
1 TTT-TTTATTT
35403176 ATTATTATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
12 8 0.16
13 30 0.61
14 11 0.22
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTTATTTTAC
Found at i:35403156 original size:9 final size:9
Alignment explanation
Indices: 35403142--35403175 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
35403132 TCTTTTTCTC
35403142 TTTATTTTA
1 TTTATTTTA
35403151 TTTA-TTTA
1 TTTATTTTA
35403159 TTTGATTTTA
1 TTT-ATTTTA
35403169 TTTATTT
1 TTTATTT
35403176 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.30
9 9 0.39
10 7 0.30
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:35403170 original size:14 final size:13
Alignment explanation
Indices: 35403142--35403184 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
35403132 TCTTTTTCTC
35403142 TTTATTT-TATTTA
1 TTTATTTAT-TTTA
35403155 TTTATTTGATTTTA
1 TTTATTT-ATTTTA
35403169 TTTATTTATTATTA
1 TTTATTTATT-TTA
35403183 TT
1 TT
35403185 AACTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.37
14 16 0.59
15 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:35403281 original size:22 final size:22
Alignment explanation
Indices: 35403246--35403336 Score: 71
Period size: 23 Copynumber: 4.0 Consensus size: 22
35403236 TTGAATTTAC
*
35403246 TTTTTAAAATTTTAAATATTATT
1 TTTTTAATA-TTTAAATATTATT
35403269 TTTTTAATATTTAAATATT-TT
1 TTTTTAATATTTAAATATTATT
* * *
35403290 AAACTTTTAA-ATTT-ATTATTAGT
1 ---TTTTTAATATTTAAATATTATT
*
35403313 TTTATAATAATTTAAATATTATT
1 TTTTTAAT-ATTTAAATATTATT
35403336 T
1 T
35403337 AATTTGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
20 5 0.09
21 2 0.04
22 19 0.36
23 21 0.40
24 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTTAATATTTAAATATTATT
Found at i:35403331 original size:45 final size:39
Alignment explanation
Indices: 35403247--35403332 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 39
35403237 TGAATTTACT
35403247 TTTTAAAATTTTAAATATTATTTTTTTAATATTTAAATA
1 TTTTAAAATTTTAAATATTATTTTTTTAATATTTAAATA
*
35403286 TTTTAAACTTTTAAATTTATTATTAGTTTTATAATAATTTAAATA
1 TTTTAAAATTTTAAA--TATTATT--TTTT-TAAT-ATTTAAATA
35403331 TT
1 TT
35403333 ATTTAATTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
39 14 0.35
41 7 0.17
43 4 0.10
44 4 0.10
45 11 0.28
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (39 bp):
TTTTAAAATTTTAAATATTATTTTTTTAATATTTAAATA
Found at i:35403370 original size:14 final size:15
Alignment explanation
Indices: 35403345--35403377 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
35403335 TTAATTTGTT
35403345 TTATAATATTTTAAA
1 TTATAATATTTTAAA
35403360 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
35403374 TTAT
1 TTAT
35403378 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:35403607 original size:22 final size:21
Alignment explanation
Indices: 35403572--35403613 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35403562 TTTTTCTTGT
*
35403572 TTTATTTTGTTTATTTATTTA
1 TTTATTTTGTTTATTAATTTA
*
35403593 TTTATTTTTTGTTATTAATTT
1 TTTATTTTGT-TTATTAATTT
35403614 TAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATTTTGTTTATTAATTTA
Found at i:35403900 original size:12 final size:13
Alignment explanation
Indices: 35403846--35403900 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
35403836 AAACATTTAA
35403846 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
35403860 A-ATTTTAAAATT
1 ATATTTTAAAATT
35403872 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
35403889 ATA-TTTAAAATT
1 ATATTTTAAAATT
35403901 TAAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Done.