Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 18 of 163
Found at i:6136853 original size:15 final size:15
Alignment explanation
Indices: 6136830--6136886 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
6136820 CATCGGTGGT
6136830 TGCTCCTGCTGCTGC
1 TGCTCCTGCTGCTGC
*
6136845 TGTTCCTGCTGCTGC
1 TGCTCCTGCTGCTGC
6136860 TGCTCCTGCT-C--C
1 TGCTCCTGCTGCTGC
*
6136872 TGCTCCTGTTGCTGC
1 TGCTCCTGCTGCTGC
6136887 ATAAAGGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 10 0.28
13 1 0.03
14 1 0.03
15 24 0.67
ACGTcount: A:0.00, C:0.39, G:0.25, T:0.37
Consensus pattern (15 bp):
TGCTCCTGCTGCTGC
Found at i:6138336 original size:12 final size:12
Alignment explanation
Indices: 6138319--6138343 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6138309 ATAAGCATTA
6138319 TCGGTCATGTTG
1 TCGGTCATGTTG
6138331 TCGGTCATGTTG
1 TCGGTCATGTTG
6138343 T
1 T
6138344 GAAGGTTGTT
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:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (12 bp):
TCGGTCATGTTG
Found at i:6139629 original size:19 final size:21
Alignment explanation
Indices: 6139586--6139628 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6139576 TTTAACTTTC
*
6139586 TTTATATATATATTTCAATTT
1 TTTATAAATATATTTCAATTT
*
6139607 TTTATAAATAT-TTTGAATTT
1 TTTATAAATATATTTCAATTT
6139627 TT
1 TT
6139629 AAAAACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTATAAATATATTTCAATTT
Found at i:6141029 original size:458 final size:458
Alignment explanation
Indices: 6140279--6141194 Score: 1669
Period size: 458 Copynumber: 2.0 Consensus size: 458
6140269 AAGTTCTACT
6140279 TTTTTTAGTAATTGGTTGCGGATGGAATTGTTAAATTTAGGGTGGGTTTGGATGGGCGATTGGGT
1 TTTTTTAGTAATTGGTTGCGGATGGAATTGTTAAATTTAGGGTGGGTTTGGATGGGCGATTGGGT
6140344 GCGGTGCGGTGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTATCACTACAGTATCTAATCTCA
66 GCGGTGCGGTGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTATCACTACAGTATCTAATCTCA
*
6140409 CCGCCATCGCTGTTTTTACACTAAACATAGCTAAACGCACAGCCCATCCAAACTCACACATAGTC
131 CCGCCATCGCTGTTTTTACACTAAACAAAGCTAAACGCACAGCCCATCCAAACTCACACATAGTC
* *
6140474 TCGTACTTAAAAAAATATAATATCATTAGTCAATTATTAAAAAGGGGTAGGAACGAATTTCAATA
196 ACGTACTTAAAAAAATAAAATATCATTAGTCAATTATTAAAAAGGGGTAGGAACGAATTTCAATA
6140539 CTTTTTGTAGGGCATCGTATATTCTCGAATCATCGAGTCAATATTTGTACCTTTCGCCAAGCTAC
261 CTTTTTGTAGGGCATCGTATATTCTCGAATCATCGAGTCAATATTTGTACCTTTCGCCAAGCTAC
* *
6140604 CAAGCAAATTCTTGGGGATTTCTTCCTTTTTTTTTTCACATTTCAATCAGCAAAGACATTTTTCC
326 AAAGCAAAGTCTTGGGGATTTCTTCCTTTTTTTTTTCACATTTCAATCAGCAAAGACATTTTTCC
6140669 GTACCCATTACCTTTTTTGCAGTAACTACCACTCTTGGAAGCAAGTCTTAGATTGTCCAGAGGTA
391 GTACCCATTACCTTTTTTGCAGTAACTACCACTCTTGGAAGCAAGTCTTAGATTGTCCAGAGGTA
6140734 GAC
456 GAC
6140737 TTTTTTAGTAATTGGTTGCGGATGGAATTGTTAAATTTAGGGTGGGTTTGGATGGGCGATTGGGT
1 TTTTTTAGTAATTGGTTGCGGATGGAATTGTTAAATTTAGGGTGGGTTTGGATGGGCGATTGGGT
6140802 GCGGTGCGGTGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTATCACTACAGTATCTAATCTCA
66 GCGGTGCGGTGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTATCACTACAGTATCTAATCTCA
* * *
6140867 CCGCCATCGCTGTTTTTACACTAAACACAAG-TAAACGCACCGCCCATCCAAACTCACCCTTA-T
131 CCGCCATCGCTGTTTTTACACTAAACA-AAGCTAAACGCACAGCCCATCCAAACTCACACATAGT
** *
6140930 -ACG-GGTTAACCATAAATAAAAATATCATTAGTCAATTATTAAAAAGGGGTAGGAACGAATTTC
195 CACGTACTTAA--AAAAAT-AAAATATCATTAGTCAATTATTAAAAAGGGGTAGGAACGAATTTC
6140993 AATACTTTTTGTAGGGCATCGTATATTCTCGAATCATCGAGTCAATATTTGTACCTTTCGCCAAG
257 AATACTTTTTGTAGGGCATCGTATATTCTCGAATCATCGAGTCAATATTTGTACCTTTCGCCAAG
6141058 CTACAAAGCAAAGTCTTGGGGATTTCTTCCTTTTTTTTTTCACATTTCAATCAGCAAAGACATTT
322 CTACAAAGCAAAGTCTTGGGGATTTCTTCCTTTTTTTTTTCACATTTCAATCAGCAAAGACATTT
6141123 TTCCGTACCCATTACCTTTTTTGCAGTAACTACCACTCTTGGAAGCAAGTCTTAGATTGTCCAGA
387 TTCCGTACCCATTACCTTTTTTGCAGTAACTACCACTCTTGGAAGCAAGTCTTAGATTGTCCAGA
6141188 GGTAGAC
452 GGTAGAC
6141195 CACTTTATAA
Statistics
Matches: 443, Mismatches: 11, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
455 4 0.01
456 2 0.00
457 6 0.01
458 429 0.97
459 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (458 bp):
TTTTTTAGTAATTGGTTGCGGATGGAATTGTTAAATTTAGGGTGGGTTTGGATGGGCGATTGGGT
GCGGTGCGGTGCGTTTAGCTTACTTTTTGTCTCACGCTACAGTATCACTACAGTATCTAATCTCA
CCGCCATCGCTGTTTTTACACTAAACAAAGCTAAACGCACAGCCCATCCAAACTCACACATAGTC
ACGTACTTAAAAAAATAAAATATCATTAGTCAATTATTAAAAAGGGGTAGGAACGAATTTCAATA
CTTTTTGTAGGGCATCGTATATTCTCGAATCATCGAGTCAATATTTGTACCTTTCGCCAAGCTAC
AAAGCAAAGTCTTGGGGATTTCTTCCTTTTTTTTTTCACATTTCAATCAGCAAAGACATTTTTCC
GTACCCATTACCTTTTTTGCAGTAACTACCACTCTTGGAAGCAAGTCTTAGATTGTCCAGAGGTA
GAC
Found at i:6141515 original size:129 final size:129
Alignment explanation
Indices: 6141285--6141542 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
6141275 ATTGAATCTA
6141285 GATGTAGGGACTCAGTCAAGGGGTTGGAAAGGGCCCCACTTGCCCCTAAAATAGAAAAAAATTTC
1 GATGTAGGGACTCAGTCAAGGGGTTGGAAAGGGCCCCACTTGCCCCTAAAATAGAAAAAAATTTC
**
6141350 ATTTAGACATTTTTATAATTTATAAAATTTTAAATTAGTAATAATAAAATTACATTTTGACACC
66 ATTTAGACATTTTTATAATTTATAAAATTTTAAATTAGTAATAATAAAATTACATCGTGACACC
6141414 GATGTAGGGACTCAGTCAAGGGGTTGGAAAGGGCCCCACTTGCCCCTAAAATAGAAAAAAATTTC
1 GATGTAGGGACTCAGTCAAGGGGTTGGAAAGGGCCCCACTTGCCCCTAAAATAGAAAAAAATTTC
6141479 ATTTAGACATTTTTATAATTTATAAAATTTTAAATTAGTAATAATAAAATTACATCGTGACACC
66 ATTTAGACATTTTTATAATTTATAAAATTTTAAATTAGTAATAATAAAATTACATCGTGACACC
6141543 CAAAAATTAT
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (129 bp):
GATGTAGGGACTCAGTCAAGGGGTTGGAAAGGGCCCCACTTGCCCCTAAAATAGAAAAAAATTTC
ATTTAGACATTTTTATAATTTATAAAATTTTAAATTAGTAATAATAAAATTACATCGTGACACC
Found at i:6142999 original size:2 final size:2
Alignment explanation
Indices: 6142992--6143021 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6142982 AATTTCTATT
6142992 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6143022 TATCCATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6149678 original size:17 final size:17
Alignment explanation
Indices: 6149656--6149708 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
6149646 CATAATCAAA
6149656 CTTAACATAATTTAAGT
1 CTTAACATAATTTAAGT
*
6149673 CTTAAC---ATGT-A--
1 CTTAACATAATTTAAGT
6149684 CTTAACATAATTTAAGT
1 CTTAACATAATTTAAGT
6149701 CTTAACAT
1 CTTAACAT
6149709 GTATTGCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
11 6 0.21
13 1 0.04
14 6 0.21
15 1 0.04
17 14 0.50
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (17 bp):
CTTAACATAATTTAAGT
Found at i:6149695 original size:28 final size:28
Alignment explanation
Indices: 6149655--6149711 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
6149645 TCATAATCAA
6149655 ACTTAACATAATTTAAGTCTTAACATGT
1 ACTTAACATAATTTAAGTCTTAACATGT
6149683 ACTTAACATAATTTAAGTCTTAACATGT
1 ACTTAACATAATTTAAGTCTTAACATGT
6149711 A
1 A
6149712 TTGCAGGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (28 bp):
ACTTAACATAATTTAAGTCTTAACATGT
Found at i:6156597 original size:2 final size:2
Alignment explanation
Indices: 6156590--6156619 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6156580 GACAATGATA
6156590 AT AT 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 AT AT
6156620 GTTGATCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6159355 original size:24 final size:23
Alignment explanation
Indices: 6159328--6159397 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
6159318 ATTTAATCCT
6159328 TTAAAATTATAATAATATAAATTA
1 TTAAAATTATAA-AATATAAATTA
* * *
6159352 TTAAAATAATAAAAT-TATATTT
1 TTAAAATTATAAAATATAAATTA
**
6159374 TTATTATTATAAAAATATATAATT
1 TTAAAATTAT-AAAATATA-AATT
6159398 TAATTTCAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 12 0.33
23 8 0.22
24 13 0.36
25 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAAATTATAAAATATAAATTA
Found at i:6159359 original size:18 final size:17
Alignment explanation
Indices: 6159333--6159369 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
6159323 ATCCTTTAAA
*
6159333 ATTATAATAATATAAATT
1 ATTAAAATAATA-AAATT
6159351 ATTAAAATAATAAAATT
1 ATTAAAATAATAAAATT
6159368 AT
1 AT
6159370 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAATAATAAAATT
Found at i:6160969 original size:9 final size:9
Alignment explanation
Indices: 6160952--6160988 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6160942 TGAGTTTTCG
6160952 AATTCGAAT
1 AATTCGAAT
*
6160961 AACTCGAAT
1 AATTCGAAT
6160970 AATTCGAAT
1 AATTCGAAT
6160979 AATTCGAAT
1 AATTCGAAT
6160988 A
1 A
6160989 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6167653 original size:32 final size:32
Alignment explanation
Indices: 6167610--6167718 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 32
6167600 TAGAAATAAA
6167610 AAAATTTAAAAAAATTATTTTAAAAATATTTT
1 AAAATTTAAAAAAATTATTTTAAAAATATTTT
* * *
6167642 AAAA-TTAAAAAAAGTACTTTAAAACTATTTT
1 AAAATTTAAAAAAATTATTTTAAAAATATTTT
*
6167673 AAAATTTAAAAAAGTTATTTTAAAAATATTTT
1 AAAATTTAAAAAAATTATTTTAAAAATATTTT
6167705 AAAA-TTAAAAAAAT
1 AAAATTTAAAAAAAT
6167719 AAAAATATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
31 37 0.54
32 31 0.46
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (32 bp):
AAAATTTAAAAAAATTATTTTAAAAATATTTT
Found at i:6168329 original size:21 final size:21
Alignment explanation
Indices: 6168238--6168343 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
6168228 TAGTCTTTTT
* * * *
6168238 ATCTTGAACCATAAGCCATGA
1 ATCTTAAACCCTAAACCTTGA
* * *
6168259 ATCTCAAACCCTAAATCTTAA
1 ATCTTAAACCCTAAACCTTGA
* * * *
6168280 ACCTCAAACTCTAAACCTAGA
1 ATCTTAAACCCTAAACCTTGA
** *
6168301 GCCCTAAACCCTAAACCTTGA
1 ATCTTAAACCCTAAACCTTGA
*
6168322 ATCTTAAA-TCTCAAACCTTGA
1 ATCTTAAACCCT-AAACCTTGA
6168343 A
1 A
6168344 CACCAATCAT
Statistics
Matches: 63, Mismatches: 21, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
20 2 0.03
21 61 0.97
ACGTcount: A:0.40, C:0.29, G:0.07, T:0.25
Consensus pattern (21 bp):
ATCTTAAACCCTAAACCTTGA
Found at i:6168385 original size:7 final size:7
Alignment explanation
Indices: 6168365--6168408 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
6168355 GAACCTGATT
6168365 CCTGAAC
1 CCTGAAC
* *
6168372 TCAGAAC
1 CCTGAAC
6168379 CCTGAAC
1 CCTGAAC
6168386 CCTGAAC
1 CCTGAAC
6168393 CCTGAAC
1 CCTGAAC
6168400 CCTGAAC
1 CCTGAAC
6168407 CC
1 CC
6168409 CAAATAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.30, C:0.43, G:0.14, T:0.14
Consensus pattern (7 bp):
CCTGAAC
Found at i:6170150 original size:24 final size:25
Alignment explanation
Indices: 6170105--6170151 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6170095 AGATTTGCCT
6170105 ATTATAAAAAGATGATTGTTATACA
1 ATTATAAAAAGATGATTGTTATACA
* *
6170130 ATTATAACAATATG-TTGTTATA
1 ATTATAAAAAGATGATTGTTATA
6170152 GAGAGTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (25 bp):
ATTATAAAAAGATGATTGTTATACA
Found at i:6172155 original size:20 final size:20
Alignment explanation
Indices: 6172126--6172163 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6172116 GAAAGCTCTT
*
6172126 CGATTAGTCTCGTCGGATCC
1 CGATTAGTCTCGACGGATCC
*
6172146 CGATTTGTCTCGACGGAT
1 CGATTAGTCTCGACGGAT
6172164 GTTCTTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (20 bp):
CGATTAGTCTCGACGGATCC
Found at i:6184424 original size:27 final size:25
Alignment explanation
Indices: 6184393--6184452 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 25
6184383 AATTAATATA
6184393 ATTTTAATGGTTTTAATTTTTAAAAT
1 ATTTTAAT-GTTTTAATTTTTAAAAT
*
6184419 AGTTTTTATATTTTTTAATTTTTAAAA-
1 A--TTTTA-ATGTTTTAATTTTTAAAAT
6184446 ATTTTAA
1 ATTTTAA
6184453 AAATTAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
24 1 0.03
25 5 0.17
26 1 0.03
27 1 0.03
28 20 0.67
29 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (25 bp):
ATTTTAATGTTTTAATTTTTAAAAT
Found at i:6187513 original size:20 final size:19
Alignment explanation
Indices: 6187485--6187543 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
6187475 AATTGTTAAA
*
6187485 ATTATAAAAACAATAAATTT
1 ATTA-AAAAATAATAAATTT
* *
6187505 ATTACAAAATTATAATATTT
1 ATTAAAAAATAATAA-ATTT
*
6187525 ATTAATAAATAATAAATTT
1 ATTAAAAAATAATAAATTT
6187544 CAAAAATCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAAAAAATAATAAATTT
Found at i:6187629 original size:2 final size:2
Alignment explanation
Indices: 6187622--6187651 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6187612 ATTTAACCAA
6187622 AT AT 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 AT AT
6187652 GTGAATCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6189718 original size:16 final size:17
Alignment explanation
Indices: 6189691--6189723 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6189681 AAGATTTACA
6189691 CAAAATAGAATTTAAAG
1 CAAAATAGAATTTAAAG
6189708 CAAAATA-AATTTAAAG
1 CAAAATAGAATTTAAAG
6189724 AGAATTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (17 bp):
CAAAATAGAATTTAAAG
Found at i:6190023 original size:6 final size:6
Alignment explanation
Indices: 6190001--6190035 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
6189991 TAAGGATTGC
6190001 TAGGGA T-GGGTA TAGGGA TAGGGA TAGGGA TAGGG
1 TAGGGA TAGGG-A TAGGGA TAGGGA TAGGGA TAGGG
6190036 GATGAAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 3 0.11
6 21 0.78
7 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.51, T:0.20
Consensus pattern (6 bp):
TAGGGA
Found at i:6193400 original size:22 final size:22
Alignment explanation
Indices: 6193361--6193462 Score: 63
Period size: 22 Copynumber: 4.7 Consensus size: 22
6193351 AAAATATTCA
*
6193361 TAAAAATTAA-TAATAATTATAT
1 TAAAAA-TAATTAAAAATTATAT
*
6193383 TAAAAATAATTAAAAATT-GA-
1 TAAAAATAATTAAAAATTATAT
* *
6193403 -AAGAAT-ATGAAAAATTATATT
1 TAAAAATAATTAAAAATTATA-T
* *
6193424 TAAAAATAAATAAAAATGA-AT
1 TAAAAATAATTAAAAATTATAT
*
6193445 TAAAGCATAATTTAAAAA
1 TAAA-AATAA-TTAAAAA
6193463 ATATTTTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
18 9 0.15
19 6 0.10
21 9 0.15
22 23 0.38
23 14 0.23
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (22 bp):
TAAAAATAATTAAAAATTATAT
Found at i:6193494 original size:17 final size:18
Alignment explanation
Indices: 6193474--6193510 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6193464 TATTTTTTTG
6193474 TTAAAAATAAAAAAT-AA
1 TTAAAAATAAAAAATCAA
*
6193491 TTAAAAATAAGAAATCAA
1 TTAAAAATAAAAAATCAA
6193509 TT
1 TT
6193511 TTACCAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (18 bp):
TTAAAAATAAAAAATCAA
Found at i:6211331 original size:61 final size:61
Alignment explanation
Indices: 6211235--6211580 Score: 494
Period size: 61 Copynumber: 5.7 Consensus size: 61
6211225 GATACATGGT
* * * *
6211235 TGAATTTGGCTCTAAGTAGCAGATCAGTGACCCAATTCAGCTCCTTTCATAGTTAGATAGC
1 TGAATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGC
* * *
6211296 TGAATTTGGCTCTCAGTAGCACAACAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGC
1 TGAATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGC
* * * *
6211357 TGAATTTCGCTATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGC
1 TGAATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGC
* * * *
6211418 TGAATTCGGCTCTCAGTAGAATATCAGTGAGTCAATTAAGTTCCTTTCATAGTTAGATAGC
1 TGAATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGC
* * * * * *
6211479 TGAATTTGGCTCTAAGTAGAATATCAGTGAGTCGATTCAGCTCCTTCCATAGATACATAGC
1 TGAATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGC
*
6211540 TGAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGC
1 TGAATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGC
6211581 CCCTATAAAA
Statistics
Matches: 258, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 258 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (61 bp):
TGAATTTGGCTCTCAGTAGAATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGC
Found at i:6212473 original size:20 final size:20
Alignment explanation
Indices: 6212436--6212474 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6212426 TTGATATTTT
**
6212436 TGGAACCATTTCCCTGTTGG
1 TGGAACCATTTCAATGTTGG
*
6212456 TGGAACCTTTTCAATGTTG
1 TGGAACCATTTCAATGTTG
6212475 ATCCAAAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
TGGAACCATTTCAATGTTGG
Found at i:6215152 original size:6 final size:6
Alignment explanation
Indices: 6215141--6215166 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6215131 TGTTCAGTGT
6215141 TTGAAC TTGAAC TTGAAC TTGAAC TT
1 TTGAAC TTGAAC TTGAAC TTGAAC TT
6215167 TGGAGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (6 bp):
TTGAAC
Found at i:6216381 original size:17 final size:16
Alignment explanation
Indices: 6216359--6216393 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6216349 ATAAAGAAAT
6216359 ATTATAATAATAACATA
1 ATTATAATAATAAC-TA
*
6216376 ATTATAATATTAACTA
1 ATTATAATAATAACTA
6216392 AT
1 AT
6216394 ATAGTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATAATAATAACTA
Found at i:6216410 original size:6 final size:6
Alignment explanation
Indices: 6216399--6216423 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6216389 CTAATATAGT
6216399 TACTAA TACTAA TACTAA TACTAA T
1 TACTAA TACTAA TACTAA TACTAA T
6216424 TAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TACTAA
Found at i:6216456 original size:16 final size:15
Alignment explanation
Indices: 6216425--6216481 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 15
6216415 AATACTAATT
6216425 AATAATAATAGA-AAA
1 AATAATAATA-ATAAA
6216440 AATCAATAATAATAAA
1 AAT-AATAATAATAAA
*
6216456 AATAAAAATAATGTAAA
1 AATAATAATAA--TAAA
6216473 AATACATAA
1 AATA-ATAA
6216482 AAAAGGAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 11 0.31
16 13 0.37
17 8 0.23
18 3 0.09
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:6216580 original size:15 final size:14
Alignment explanation
Indices: 6216530--6216573 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
6216520 AAGGGTAGAG
*
6216530 AAAATAATAAAAGGT
1 AAAA-AATAAAAAGT
*
6216545 ATAAAAATAAATAGT
1 A-AAAAATAAAAAGT
6216560 AAAAAATAAAAAGT
1 AAAAAATAAAAAGT
6216574 TCAAAAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.48
15 10 0.40
16 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
AAAAAATAAAAAGT
Found at i:6218332 original size:22 final size:22
Alignment explanation
Indices: 6218289--6218360 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
6218279 AATAACAATA
* * **
6218289 AAATAGTAATAATATAATAACG
1 AAATAGTAACAAAATAGCAACG
6218311 AAATAGTAACAAAATAGCAACG
1 AAATAGTAACAAAATAGCAACG
* ** *
6218333 AAACAACAACAAAACAGCAACG
1 AAATAGTAACAAAATAGCAACG
6218355 AAATAG
1 AAATAG
6218361 CTCATACCTA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (22 bp):
AAATAGTAACAAAATAGCAACG
Found at i:6228139 original size:50 final size:50
Alignment explanation
Indices: 6228000--6228239 Score: 227
Period size: 50 Copynumber: 4.7 Consensus size: 50
6227990 GTAAATAACA
* ** **
6228000 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTGGTA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * *
6228048 TGCCAATGCCATATCCCAGA-TTGGTCTTACATGGGAGCTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
6228097 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
6228147 TGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCGTAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATATC---GG
* *
6228203 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
6228240 TCTCATCACC
Statistics
Matches: 160, Mismatches: 22, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
46 6 0.04
47 16 0.10
48 18 0.11
49 18 0.11
50 62 0.39
53 5 0.03
56 35 0.22
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:6232231 original size:27 final size:27
Alignment explanation
Indices: 6232201--6232264 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
6232191 TTTTTTTGGT
*
6232201 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
6232228 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
6232255 ATATTTTGGT
1 ATATTTTGGT
6232265 TATTTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:6233103 original size:39 final size:39
Alignment explanation
Indices: 6233055--6233129 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
6233045 TTATATATGA
*
6233055 AAAATAATTATTAGAAATAAAGAAATGAATAAAAAACTT
1 AAAAGAATTATTAGAAATAAAGAAATGAATAAAAAACTT
*
6233094 AAAAGAATTATTAGTAATAAAGAAATGAATAAAAAA
1 AAAAGAATTATTAGAAATAAAGAAATGAATAAAAAA
6233130 AACTTTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.24
Consensus pattern (39 bp):
AAAAGAATTATTAGAAATAAAGAAATGAATAAAAAACTT
Found at i:6236412 original size:27 final size:28
Alignment explanation
Indices: 6236377--6236441 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
6236367 AATAAAAATA
6236377 ACCAAAATATTATAAA-TTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
6236404 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
6236432 ACCAAAATAT
1 ACCAAAATAT
6236442 GCCAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 16 0.43
28 21 0.57
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAATTTTTTTTATTT
Found at i:6236531 original size:27 final size:27
Alignment explanation
Indices: 6236501--6236552 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
6236491 GGCCAATCAC
6236501 ATTGGAGGCACCAAAGGTGCCAAAGAG
1 ATTGGAGGCACCAAAGGTGCCAAAGAG
* *
6236528 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGAGGCACCAAAGGTGCCAAAG
6236553 GACTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.13
Consensus pattern (27 bp):
ATTGGAGGCACCAAAGGTGCCAAAGAG
Found at i:6237949 original size:27 final size:28
Alignment explanation
Indices: 6237919--6237983 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
6237909 TTTTTTTGGT
*
6237919 ATATTTTGGTAAAT-AAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
6237946 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
6237974 ATATTTTGGT
1 ATATTTTGGT
6237984 TTTTTTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.42
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:6243709 original size:45 final size:45
Alignment explanation
Indices: 6243643--6243734 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
6243633 ACCATCACCA
6243643 CACCTCAACCTTTGACATCTTCACACTCACCTAACCTACCAAGTT
1 CACCTCAACCTTTGACATCTTCACACTCACCTAACCTACCAAGTT
*
6243688 CACCTCAACCTTTGACTTCTTCACACTCACCTAACCTACCAAGTT
1 CACCTCAACCTTTGACATCTTCACACTCACCTAACCTACCAAGTT
6243733 CA
1 CA
6243735 ACACAGGCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.40, G:0.04, T:0.27
Consensus pattern (45 bp):
CACCTCAACCTTTGACATCTTCACACTCACCTAACCTACCAAGTT
Found at i:6254755 original size:25 final size:24
Alignment explanation
Indices: 6254726--6254773 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
6254716 ATCATGGGAA
6254726 AAATGTG-AAGACATTGAAATGTATT
1 AAATGTGAAAGA-ATTGAAA-GTATT
6254751 AAATGTGAAAGAATTGAAAGTAT
1 AAATGTGAAAGAATTGAAAGTAT
6254774 AATATATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (24 bp):
AAATGTGAAAGAATTGAAAGTATT
Found at i:6274571 original size:2 final size:2
Alignment explanation
Indices: 6274564--6274588 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6274554 ACTATAGGAT
6274564 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
6274589 ATACTATAGA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6285890 original size:31 final size:30
Alignment explanation
Indices: 6285855--6285932 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
6285845 ACCCAGAAAT
* *
6285855 TTAAATAAAATTTTTTGAATAGTTTAATGA
1 TTAAATAAAATTTTTTGAATAATTGAATGA
**
6285885 CTTAAATAAAAACTTTTGAATAATTGAATGA
1 -TTAAATAAAATTTTTTGAATAATTGAATGA
* *
6285916 TCAAATTATAATTTTTT
1 TTAAA-TAAAATTTTTT
6285933 TAATTAAGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 4 0.11
31 34 0.89
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (30 bp):
TTAAATAAAATTTTTTGAATAATTGAATGA
Found at i:6289815 original size:22 final size:22
Alignment explanation
Indices: 6289773--6289816 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6289763 ATGACATTAG
*
6289773 GTATATAATATATTACGTATAA
1 GTATATAATATATTACATATAA
*
6289795 GTATATAAT-TAGTTATATATAA
1 GTATATAATATA-TTACATATAA
6289817 CGCATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (22 bp):
GTATATAATATATTACATATAA
Found at i:6289851 original size:20 final size:19
Alignment explanation
Indices: 6289828--6289869 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
6289818 GCATATTTTC
6289828 TTTCTATATTATTAATATTA
1 TTTCTATATTATTAATA-TA
6289848 TTTCTATATTATTAATATA
1 TTTCTATATTATTAATATA
6289867 TTT
1 TTT
6289870 TTATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCTATATTATTAATATA
Found at i:6289879 original size:20 final size:19
Alignment explanation
Indices: 6289832--6289898 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
6289822 ATTTTCTTTC
*
6289832 TATATTATTAATATTATTTC
1 TATATTATTAATA-TATTTT
6289852 TATATTATTAATATATTTT
1 TATATTATTAATATATTTT
* * *
6289871 TATTTTTATTTATATATATT
1 TA-TATTATTAATATATTTT
*
6289891 TAAATTAT
1 TATATTAT
6289899 ATATTTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.28
20 29 0.73
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTATTAATATATTTT
Found at i:6289901 original size:13 final size:13
Alignment explanation
Indices: 6289883--6289908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6289873 TTTTTATTTA
6289883 TATATATTTAAAT
1 TATATATTTAAAT
6289896 TATATATTTAAAT
1 TATATATTTAAAT
6289909 GATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:6289934 original size:15 final size:15
Alignment explanation
Indices: 6289910--6289947 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
6289900 TATTTAAATG
*
6289910 ATAAATAATAATAAA
1 ATAAACAATAATAAA
6289925 ATAAACAATAATAAA
1 ATAAACAATAATAAA
6289940 ATAAACAA
1 ATAAACAA
6289948 ACCAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAACAATAATAAA
Found at i:6297475 original size:15 final size:15
Alignment explanation
Indices: 6297455--6297487 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6297445 TGCTATCAAC
6297455 ATGTCATCAACATAA
1 ATGTCATCAACATAA
6297470 ATGTCATCAACATAA
1 ATGTCATCAACATAA
6297485 ATG
1 ATG
6297488 AGTAGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (15 bp):
ATGTCATCAACATAA
Found at i:6299158 original size:26 final size:27
Alignment explanation
Indices: 6299107--6299163 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
6299097 ACAGAATAGC
* *
6299107 AAAACGAAAATAGGGGAGAAAGGAAAG
1 AAAAAGAAAATAGGGAAGAAAGGAAAG
6299134 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAATAGGGAA-GAAAGGAAAG
6299160 AAAA
1 AAAA
6299164 TTTGGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (27 bp):
AAAAAGAAAATAGGGAAGAAAGGAAAG
Found at i:6300253 original size:37 final size:38
Alignment explanation
Indices: 6300154--6300253 Score: 94
Period size: 37 Copynumber: 2.6 Consensus size: 38
6300144 AACTTGAGTT
**
6300154 GATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATTC
1 GATGAGACACTGGGTGTCA-AC--TTACTTCGGATAGAGCC
** ** * *
6300195 GATGAGGTACTGGGTACCAACTTACTTCGGCTTG-GCC
1 GATGAGACACTGGGTGTCAACTTACTTCGGATAGAGCC
6300232 GATGAGACACTGGGTGTCAACT
1 GATGAGACACTGGGTGTCAACT
6300254 ATTGCTTCGA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
37 19 0.40
38 11 0.23
40 2 0.04
41 15 0.32
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (38 bp):
GATGAGACACTGGGTGTCAACTTACTTCGGATAGAGCC
Found at i:6303392 original size:21 final size:22
Alignment explanation
Indices: 6303368--6303416 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
6303358 TGAATGCTTA
*
6303368 ATTTATTT-TAAATAAAATTTT
1 ATTTATTTAAAAATAAAATTTT
6303389 ATTT-TTTAAAAATAAAATTTT
1 ATTTATTTAAAAATAAAATTTT
6303410 ATTTATT
1 ATTTATT
6303417 CATAGTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTATTTAAAAATAAAATTTT
Found at i:6303590 original size:86 final size:84
Alignment explanation
Indices: 6303498--6303687 Score: 229
Period size: 85 Copynumber: 2.2 Consensus size: 84
6303488 TAGATAATAT
6303498 ATATTTTATATATCATACAC-AACAAAATACAAAATATTATAATGTCAAATTAAAATAACTTTAT
1 ATATTTTATA-ATC-TACACTAACAAAATACAAAATATTATAATGT-AAATTAAAATAACTTTAT
6303562 AGCTATAAAAGTTTAAACATAA
63 AGCTATAAAAGTTTAAACATAA
* * *** ** * **
6303584 ATATTTTCTAATCTCCACTTTTTATGATATAATTTATTATAATGTAAATTAAAATAACTTTATAG
1 ATATTTTATAATCTACAC-TAACAAAATACAAAATATTATAATGTAAATTAAAATAACTTTATAG
6303649 CTATAAAAGTTTAAACATAA
65 CTATAAAAGTTTAAACATAA
* *
6303669 ATATTTTCTAATCTCCACT
1 ATATTTTATAATCTACACT
6303688 TTTTATGATA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
84 5 0.05
85 61 0.66
86 26 0.28
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (84 bp):
ATATTTTATAATCTACACTAACAAAATACAAAATATTATAATGTAAATTAAAATAACTTTATAGC
TATAAAAGTTTAAACATAA
Found at i:6303646 original size:85 final size:86
Alignment explanation
Indices: 6303532--6303703 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 86
6303522 AAATACAAAA
6303532 TATTATAATGTCAAATTAAAATAACTTTATAGCTATAAAAGTTTAAACATAAATATTTTCTAATC
1 TATTATAATGTCAAATTAAAATAACTTTATAGCTATAAAAGTTTAAACATAAATATTTTCTAATC
6303597 TCCACTTTTTATGATATAATT
66 TCCACTTTTTATGATATAATT
6303618 TATTATAATGT-AAATTAAAATAACTTTATAGCTATAAAAGTTTAAACATAAATATTTTCTAATC
1 TATTATAATGTCAAATTAAAATAACTTTATAGCTATAAAAGTTTAAACATAAATATTTTCTAATC
6303682 TCCACTTTTTATGATATAATT
66 TCCACTTTTTATGATATAATT
6303703 T
1 T
6303704 TATCTCAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 75 0.87
86 11 0.13
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (86 bp):
TATTATAATGTCAAATTAAAATAACTTTATAGCTATAAAAGTTTAAACATAAATATTTTCTAATC
TCCACTTTTTATGATATAATT
Found at i:6305166 original size:41 final size:40
Alignment explanation
Indices: 6305050--6305166 Score: 114
Period size: 37 Copynumber: 3.0 Consensus size: 40
6305040 CCTCACCGGA
* * *
6305050 TAATTCGAAGTAATAATTTGACACCCAATGTCTCATCG-GT
1 TAATCCGAAGT-ATAAATTGACACCCAATGTCTCATCGAAT
* * * *
6305090 TAAACCGAA--ATAAATTGGCACCCAATGCCTAATCGAAT
1 TAATCCGAAGTATAAATTGACACCCAATGTCTCATCGAAT
* *
6305128 TAATCCGAAGTAGTAAATTGACACCCAGTATCTCATCGA
1 TAATCCGAAGTA-TAAATTGACACCCAATGTCTCATCGA
6305167 CTTGAAGTCG
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
37 22 0.37
38 9 0.15
40 8 0.13
41 21 0.35
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (40 bp):
TAATCCGAAGTATAAATTGACACCCAATGTCTCATCGAAT
Found at i:6305371 original size:24 final size:24
Alignment explanation
Indices: 6305326--6305372 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6305316 TATATATACC
6305326 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
6305350 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
6305373 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:6306052 original size:4 final size:4
Alignment explanation
Indices: 6306045--6306089 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
6306035 TTTCTCCTTC
6306045 CTTT CTTT CCTTT -TTT CTTTT CTTT CTTT CTTT C-TT -TTT CTTT CT
1 CTTT CTTT -CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT CT
6306090 GTTTCGTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 7 0.19
4 21 0.58
5 8 0.22
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:6306068 original size:17 final size:19
Alignment explanation
Indices: 6306046--6306088 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
6306036 TTCTCCTTCC
6306046 TTTCTTTCCTTT-TTTC-T
1 TTTCTTTCCTTTCTTTCTT
6306063 TTTCTTT-CTTTCTTTCTT
1 TTTCTTTCCTTTCTTTCTT
6306081 TTTCTTTC
1 TTTCTTTC
6306089 TGTTTCGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTCTTTCCTTTCTTTCTT
Found at i:6310529 original size:20 final size:20
Alignment explanation
Indices: 6310495--6310536 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6310485 AACTATTTAA
** *
6310495 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
6310515 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
6310535 AT
1 AT
6310537 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:6311165 original size:25 final size:25
Alignment explanation
Indices: 6311136--6311241 Score: 103
Period size: 25 Copynumber: 4.2 Consensus size: 25
6311126 TTCCTCATAC
*
6311136 AGGCTTTTCACAAGATTAGCTACAA
1 AGGCTTTTCACAAGATTAGCCACAA
* * *
6311161 AGGCTTTCCA-AATAATACGCCACAA
1 AGGCTTTTCACAAGATTA-GCCACAA
*
6311186 AGACTTTTCACAAGATTAGCCACAA
1 AGGCTTTTCACAAGATTAGCCACAA
6311211 AGGC-TTTC-C-AGATAATACGCCACAA
1 AGGCTTTTCACAAGAT--TA-GCCACAA
6311236 AGGCTT
1 AGGCTT
6311242 CCTAGGTAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
22 4 0.06
23 1 0.02
24 11 0.17
25 44 0.67
26 6 0.09
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (25 bp):
AGGCTTTTCACAAGATTAGCCACAA
Found at i:6311214 original size:50 final size:50
Alignment explanation
Indices: 6311139--6311237 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
6311129 CTCATACAGG
*
6311139 CTTTTCACAAGATTAGCTACAAAGGCTTTCCAAATAATACGCCACAAAGA
1 CTTTTCACAAGATTAGCCACAAAGGCTTTCCAAATAATACGCCACAAAGA
*
6311189 CTTTTCACAAGATTAGCCACAAAGGCTTTCCAGATAATACGCCACAAAG
1 CTTTTCACAAGATTAGCCACAAAGGCTTTCCAAATAATACGCCACAAAG
6311238 GCTTCCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.23
Consensus pattern (50 bp):
CTTTTCACAAGATTAGCCACAAAGGCTTTCCAAATAATACGCCACAAAGA
Found at i:6325724 original size:3 final size:3
Alignment explanation
Indices: 6325716--6325740 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6325706 TGCCAAAATC
6325716 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
6325741 TTTTGCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:6325907 original size:383 final size:372
Alignment explanation
Indices: 6325188--6325948 Score: 1351
Period size: 383 Copynumber: 2.0 Consensus size: 372
6325178 ATTAACATTT
* *
6325188 ATTTTACTTTGTATCCACACATAAGTATTATTGTGACATTTACTACTGGAAATGTTTAAATCAAT
1 ATTTTACTTTGTATCCACACATAAGTATTATTGTGACATTTAATACTAGAAATGTTTAAATCAAT
6325253 ATGAGGTCTATAATGTCACTAAGTCAACCAAATAAATATAAATTCCAAACAATTATATGTAGCAT
66 ATGAGGTCTATAATGTCACTAAGTCAACCAAATAAATATAAATTCCAAACAATTATATGTAGCAT
6325318 TTGCTTCATGGAATAAGCCAAAATCTCTTCTTCTTCTTTTTTTTGCATTGAGTCTTGACGATTTT
131 TTGCTTCATGGAATAAGCCAAAATCTCTTCTTCTTCTTTTTTTTGCATTGAGTCTTGACGATTTT
6325383 ATCAAGAAGTAAGCAAATTAAAATCTAGTAGTGGACTTTGAATCCAATCAGAATCTATTAATAGA
196 ATCAAGAAGTAAGCAAATTAAAATCTAGTAGTGGACTTTGAATCCAATCAGAATCTATTAATAGA
6325448 AAAATTTGAGAGTGTATCTTATTTTCTAAGTGTGCAACAGGTACATAACCAATGACATTTCATAC
261 AAAATTTGAGAGTGTATCTTATTTTCTAAGTGTGCAACAGGTACATAACCAATGACATTTCATAC
*
6325513 ATAAGTTTTCTCTCTTATAAGTTCTCATCAGTAATATTTTTTCATGTA
326 ATAAGTTTTCTCTCTTATAAGTTCTCATCAGTAATA-TTTTTCACGTA
*
6325561 ATTTTACTTTGTATCCACACATAAGTATTATTGTGACATTTAATACTAGAAATGTTTAAATGAAT
1 ATTTTACTTTGTATCCACACATAAGTATTATTGTGACATTTAATACTAGAAATGTTTAAATCAAT
6325626 ATGAGGTCTATAATGTCACTAAGTCAACCAAATAAATATAAATTCCAAACAATTATATGTAGCAT
66 ATGAGGTCTATAATGTCACTAAGTCAACCAAATAAATATAAATTCCAAACAATTATATGTAGCAT
*
6325691 TTGCTTCATGGAATATGCCAAAATCTCTTCTTCTTCTTCTTCTTCTTCTTTTTTGCATTGAGTCT
131 TTGCTTCATGGAATAAGCCAAAA--------TC-TCTTCTTCTTCTT-TTTTTTGCATTGAGTCT
*
6325756 TGACGATTTTATCAAGAAGTAAGCAAATTAAACTCTAGTAGTGGACTTTGAATCCAATCAGAATC
186 TGACGATTTTATCAAGAAGTAAGCAAATTAAAATCTAGTAGTGGACTTTGAATCCAATCAGAATC
*
6325821 TATTAATAGAAAACTTTGAGAGTGTATCTTATTTTCTAAGTGTGCAACAGGTACATAACCAATGA
251 TATTAATAGAAAAATTTGAGAGTGTATCTTATTTTCTAAGTGTGCAACAGGTACATAACCAATGA
*
6325886 CATTTCATACATAAGTTTTCTCTCTTGTAAGTTCTCATCAGTAATATTTTTCACGTA
316 CATTTCATACATAAGTTTTCTCTCTTATAAGTTCTCATCAGTAATATTTTTCACGTA
6325943 ATTTTA
1 ATTTTA
6325949 ATTGAGAACT
Statistics
Matches: 370, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
373 149 0.40
381 2 0.01
382 29 0.08
383 190 0.51
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (372 bp):
ATTTTACTTTGTATCCACACATAAGTATTATTGTGACATTTAATACTAGAAATGTTTAAATCAAT
ATGAGGTCTATAATGTCACTAAGTCAACCAAATAAATATAAATTCCAAACAATTATATGTAGCAT
TTGCTTCATGGAATAAGCCAAAATCTCTTCTTCTTCTTTTTTTTGCATTGAGTCTTGACGATTTT
ATCAAGAAGTAAGCAAATTAAAATCTAGTAGTGGACTTTGAATCCAATCAGAATCTATTAATAGA
AAAATTTGAGAGTGTATCTTATTTTCTAAGTGTGCAACAGGTACATAACCAATGACATTTCATAC
ATAAGTTTTCTCTCTTATAAGTTCTCATCAGTAATATTTTTCACGTA
Found at i:6328506 original size:26 final size:26
Alignment explanation
Indices: 6328477--6328553 Score: 145
Period size: 26 Copynumber: 3.0 Consensus size: 26
6328467 ATTGTCATAC
6328477 AAGAGAATTTAAAACAGTGTTGTACT
1 AAGAGAATTTAAAACAGTGTTGTACT
*
6328503 AAGAGAATTTAAAACAATGTTGTACT
1 AAGAGAATTTAAAACAGTGTTGTACT
6328529 AAGAGAATTTAAAACAGTGTTGTAC
1 AAGAGAATTTAAAACAGTGTTGTAC
6328554 AAGCTTGGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (26 bp):
AAGAGAATTTAAAACAGTGTTGTACT
Found at i:6333160 original size:9 final size:9
Alignment explanation
Indices: 6333141--6333173 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
6333131 AATAAAACTT
6333141 AAAATTTAAC
1 AAAA-TTAAC
6333151 AAAATTAAC
1 AAAATTAAC
6333160 AAAATTAAC
1 AAAATTAAC
6333169 AAAAT
1 AAAAT
6333174 GAATTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATTAAC
Found at i:6340798 original size:18 final size:18
Alignment explanation
Indices: 6340763--6340804 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6340753 TTTTTTTTAT
6340763 AATGC-TTTTGCCTCAAA
1 AATGCTTTTTGCCTCAAA
*
6340780 AGTGCTTTTTGCC-CTAAA
1 AATGCTTTTTGCCTC-AAA
6340798 AATGCTT
1 AATGCTT
6340805 CTTCGAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (18 bp):
AATGCTTTTTGCCTCAAA
Found at i:6341214 original size:143 final size:139
Alignment explanation
Indices: 6340873--6341245 Score: 448
Period size: 139 Copynumber: 2.7 Consensus size: 139
6340863 TCCCATCTTT
* * * *
6340873 ACCAGGCATATATCCTGCCTCCTCCATATGTGGAATAAGCAACTCTACAACCCCATTTGATCATT
1 ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCATA
* * * * *
6340938 TTCAGTAATTCAATTCCGTTTCTTAAGCTTCTCTTCTCTTCAAGTCCCACTTTCAAGATCATGTA
66 TTCAGTAATTCACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGGCCCACTTTCAAGATCATGTA
**
6341003 TCAATGTAA
131 TCAATCAAA
* * * *
6341012 ACCAGGCATTTACCCTGTTTCTTCCATATGTAGAACAAGCAACT-TAACAACCCCATTTGATCAT
1 ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCT-ACAACCCCATTTGATCAT
* * *
6341076 ATTCAGTACCTT-ACTTCAGTTTCTTCAGCTTCTCTCCT-TTGAAGGCCTA-TCTTCAAGATCAT
65 ATTCAGTA-ATTCACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGGCCCACT-TTCAAGATCAT
6341138 GTATCAAACAATCAAA
128 GTAT----CAATCAAA
* * *
6341154 ACCAGGCATGTATCCTAGCTTCTTCCATATTTAGAATAAGCAACTCTATAACCCCATTTGATCAT
1 ACCAGGCATATATCCT-GCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCAT
*
6341219 GTTCAGTAATTCACTTCAGTTTCTTCA
65 ATTCAGTAATTCACTTCAGTTTCTTCA
6341246 AATCCCATCT
Statistics
Matches: 198, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
137 1 0.01
138 24 0.12
139 84 0.42
140 2 0.01
142 22 0.11
143 64 0.32
144 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (139 bp):
ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCATA
TTCAGTAATTCACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGGCCCACTTTCAAGATCATGTA
TCAATCAAA
Found at i:6343615 original size:11 final size:11
Alignment explanation
Indices: 6343601--6343626 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6343591 TTTTTAATTA
6343601 TTTAATAATAT
1 TTTAATAATAT
6343612 TTTAATAATAT
1 TTTAATAATAT
6343623 TTTA
1 TTTA
6343627 TATTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:6345089 original size:42 final size:42
Alignment explanation
Indices: 6345041--6345229 Score: 207
Period size: 42 Copynumber: 4.3 Consensus size: 42
6345031 AGCCCCACAG
6345041 TTAATCCCACCTCAATTAGGATTTATCTTTTTAGCTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAGCTTTTCAT
* * *
6345083 TTAATCCTACCTCAATTAGGATTTATCATTTTAGCTTTTCTT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAGCTTTTCAT
* **
6345125 TTAATCCCACCTCCATTAGGATTTATATAAGCTTATCTTTTTAAATTTTCAT
1 TTAATCCCACCTCAATTAGG------AT----TTATCTTTTTAGCTTTTCAT
* * *
6345177 TTAATCTCACCTCAATTAGGATTTACCTTTTTAGTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAGCTTTTCAT
6345219 TTAATCCCACC
1 TTAATCCCACC
6345230 ATGTTTTTAG
Statistics
Matches: 122, Mismatches: 15, Indels: 20
0.78 0.10 0.13
Matches are distributed among these distances:
42 84 0.69
46 2 0.02
48 2 0.02
52 34 0.28
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.47
Consensus pattern (42 bp):
TTAATCCCACCTCAATTAGGATTTATCTTTTTAGCTTTTCAT
Found at i:6345246 original size:29 final size:29
Alignment explanation
Indices: 6345204--6345260 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
6345194 AGGATTTACC
*
6345204 TTTTTAGTTTTTCATTTAATCCCACCATG
1 TTTTTAGCTTTTCATTTAATCCCACCATG
6345233 TTTTTAGCTTTTCATTTAATCCCACCAT
1 TTTTTAGCTTTTCATTTAATCCCACCAT
6345261 TGAGGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (29 bp):
TTTTTAGCTTTTCATTTAATCCCACCATG
Found at i:6345313 original size:45 final size:44
Alignment explanation
Indices: 6345230--6345353 Score: 175
Period size: 45 Copynumber: 2.9 Consensus size: 44
6345220 TAATCCCACC
*
6345230 ATGTTTTTAGCTTTTCATTTAATCCCAC-C-ATT--GAGGATTT
1 ATGTTTTTAGCTTTTCATTTAATCCCCCTCAATTAGGAGGATTT
6345270 ATGTTTTTAGCTTTTCATTTAATCCCTCCTCAATTAGGAGGATTT
1 ATGTTTTTAGCTTTTCATTTAATCCC-CCTCAATTAGGAGGATTT
* *
6345315 ATGTTTTTAGTTTTTCATTTAATCCCGCCTGAATTAGGA
1 ATGTTTTTAGCTTTTCATTTAATCCC-CCTCAATTAGGA
6345354 TACTTCTGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
40 26 0.35
41 1 0.01
42 1 0.01
43 3 0.04
45 44 0.59
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.47
Consensus pattern (44 bp):
ATGTTTTTAGCTTTTCATTTAATCCCCCTCAATTAGGAGGATTT
Found at i:6348063 original size:23 final size:22
Alignment explanation
Indices: 6348021--6348063 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
6348011 ATTTTAACAA
*
6348021 AAATTTAATTATTAAAATATAT
1 AAATTTAATTATAAAAATATAT
6348043 AAATATTAA-TATAAAAGATAT
1 AAAT-TTAATTATAAAA-ATAT
6348064 TCTTTTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTTAATTATAAAAATATAT
Found at i:6350690 original size:42 final size:43
Alignment explanation
Indices: 6350631--6350727 Score: 137
Period size: 42 Copynumber: 2.3 Consensus size: 43
6350621 AAGCCCCAAG
* **
6350631 TTAATCTCACC-CGAATT-AGTATTTATCTTTTTATTTTTTCAT
1 TTAATCCCACCTCGAATTAAG-ATTTATCTTTTTAGCTTTTCAT
6350673 TTAATCCCACCTC-AATTAAGATTTATCTTTTTAGCTTTTCAT
1 TTAATCCCACCTCGAATTAAGATTTATCTTTTTAGCTTTTCAT
6350715 TTAATCCCACCTC
1 TTAATCCCACCTC
6350728 TTTATTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 47 0.94
43 3 0.06
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (43 bp):
TTAATCCCACCTCGAATTAAGATTTATCTTTTTAGCTTTTCAT
Found at i:6350737 original size:33 final size:33
Alignment explanation
Indices: 6350693--6350788 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 33
6350683 CTCAATTAAG
6350693 ATTTATCTTTTTAGCTTTTCATTTAATCCCACCT
1 ATTTATCTTTTTAG-TTTTCATTTAATCCCACCT
* **
6350727 CTTTA---TTTT--TTTTCATTTAATCCCA-GG
1 ATTTATCTTTTTAGTTTTCATTTAATCCCACCT
* *
6350754 ATTTATGTTTTTAGTTTTTCATTTAATCTCACCT
1 ATTTATCTTTTTAG-TTTTCATTTAATCCCACCT
6350788 A
1 A
6350789 AGTTTTATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
27 4 0.08
28 16 0.33
30 4 0.08
31 4 0.08
33 15 0.31
34 5 0.10
ACGTcount: A:0.21, C:0.19, G:0.05, T:0.55
Consensus pattern (33 bp):
ATTTATCTTTTTAGTTTTCATTTAATCCCACCT
Found at i:6353865 original size:6 final size:6
Alignment explanation
Indices: 6353854--6353884 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
6353844 GAATATAAAC
6353854 GTATAT GTATAT GTATAT GTATAT GTATAT G
1 GTATAT GTATAT GTATAT GTATAT GTATAT G
6353885 CATACCTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (6 bp):
GTATAT
Found at i:6360360 original size:4 final size:4
Alignment explanation
Indices: 6360351--6360385 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
6360341 TATTAAAATT
6360351 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
6360386 TATTTGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:6372882 original size:6 final size:6
Alignment explanation
Indices: 6372871--6372919 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
6372861 TCTATTTATT
6372871 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
6372919 T
1 T
6372920 CTATCCTGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:6374304 original size:13 final size:13
Alignment explanation
Indices: 6374286--6374311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6374276 TTTTATTTGT
6374286 TTATTCCCACCGG
1 TTATTCCCACCGG
6374299 TTATTCCCACCGG
1 TTATTCCCACCGG
6374312 CTGAATGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTCCCACCGG
Found at i:6376911 original size:29 final size:29
Alignment explanation
Indices: 6376873--6376930 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6376863 GGACTATATA
6376873 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
6376902 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
6376931 GAAATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (29 bp):
AATCGATAATGATTGAAATACATCAAAAT
Found at i:6379402 original size:49 final size:49
Alignment explanation
Indices: 6379345--6379448 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
6379335 TCATGTGTTA
* * ** * *
6379345 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
6379394 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
6379443 TAATTT
1 TAATTT
6379449 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:6381051 original size:39 final size:41
Alignment explanation
Indices: 6381006--6381111 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
6380996 TTTCCTTATG
* *
6381006 CTATTACATCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
6381046 C-ATTACACCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACACCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
*
6381091 CTATTACGCCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
6381112 ACAGCGAACT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.34
45 5 0.09
46 13 0.23
ACGTcount: A:0.37, C:0.30, G:0.03, T:0.30
Consensus pattern (41 bp):
CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:6381086 original size:44 final size:46
Alignment explanation
Indices: 6381023--6381114 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
6381013 ATCTCTATTC
*
6381023 CATTCAACCAAACACAAGAA-TACC-ATTACACCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTA
*
6381067 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTA
6381113 CA
1 CA
6381115 GCGAACTACC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTA
Found at i:6381127 original size:24 final size:24
Alignment explanation
Indices: 6381099--6381146 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6381089 ACCTATTACG
*
6381099 CCTCTATTCCATTACAGCGAACTA
1 CCTCTATTACATTACAGCGAACTA
6381123 CCTCTATTACATTACAGCGAACTA
1 CCTCTATTACATTACAGCGAACTA
6381147 AACGTATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (24 bp):
CCTCTATTACATTACAGCGAACTA
Found at i:6386795 original size:16 final size:17
Alignment explanation
Indices: 6386774--6386819 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
6386764 GGTAAAGAGT
6386774 TAAAATAATTTAAAT-A
1 TAAAATAATTTAAATCA
* *
6386790 TAAAATAATTAAAATCT
1 TAAAATAATTTAAATCA
*
6386807 TAAAATGATTTAA
1 TAAAATAATTTAA
6386820 TTATGAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAAATAATTTAAATCA
Found at i:6386896 original size:41 final size:41
Alignment explanation
Indices: 6386815--6386896 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
6386805 CTTAAAATGA
6386815 TTTAATTATGAATTGATCTGAACATATAACAAAAAAAATCC
1 TTTAATTATGAATTGATCTGAACATATAACAAAAAAAATCC
* * * * *
6386856 TTTAATTATGAATTTATTTGAACATGTAACCAAAATAATCC
1 TTTAATTATGAATTGATCTGAACATATAACAAAAAAAATCC
6386897 AAATTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (41 bp):
TTTAATTATGAATTGATCTGAACATATAACAAAAAAAATCC
Found at i:6393633 original size:73 final size:76
Alignment explanation
Indices: 6393476--6393638 Score: 224
Period size: 80 Copynumber: 2.1 Consensus size: 76
6393466 CTTCAACATT
** *
6393476 AATAGAAAATTTGACATTAATAAAAGGAGTTCCCTTTTAGGAAAACACAAACTAAAAAATTCCTA
1 AATAGAAAGGTTGACATTAATAAAAGGAGTTCCCTTTTAGGAAAACACAAACTAAAAAAGTCC--
6393541 TTGACGACCTAATTA
64 -TGA-GACCTAATTA
* *
6393556 AATAGAAAGGTTGATATTAATAAAAGGAGTTCTCTTTTAGGAAAACACAAACT-AAAAAGTCC-G
1 AATAGAAAGGTTGACATTAATAAAAGGAGTTCCCTTTTAGGAAAACACAAACTAAAAAAGTCCTG
6393619 -GACCTAATTA
66 AGACCTAATTA
6393629 AATAGAAAGG
1 AATAGAAAGG
6393639 ATAATTAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
73 20 0.26
75 1 0.01
79 8 0.10
80 49 0.63
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.26
Consensus pattern (76 bp):
AATAGAAAGGTTGACATTAATAAAAGGAGTTCCCTTTTAGGAAAACACAAACTAAAAAAGTCCTG
AGACCTAATTA
Found at i:6393651 original size:21 final size:21
Alignment explanation
Indices: 6393627--6393670 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6393617 CGGACCTAAT
*
6393627 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
6393648 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
6393669 TA
1 TA
6393671 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:6394477 original size:7 final size:7
Alignment explanation
Indices: 6394467--6394492 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6394457 CTAATTCCCC
6394467 TTCCCAT
1 TTCCCAT
6394474 TTCCCAT
1 TTCCCAT
6394481 TTCCCAT
1 TTCCCAT
6394488 TTCCC
1 TTCCC
6394493 GACCCGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.46, G:0.00, T:0.42
Consensus pattern (7 bp):
TTCCCAT
Found at i:6396624 original size:81 final size:81
Alignment explanation
Indices: 6396534--6396686 Score: 261
Period size: 81 Copynumber: 1.9 Consensus size: 81
6396524 AGATAACATG
* *
6396534 ACTACACCTTAATTTTTAATATAATATACTGTTTTAATATACTATTATAAAATTTGTAATATATT
1 ACTACACCTTAATTATTAATATAATATACTGTTTTAATATACTATTATAAAATTTGTAATATACT
6396599 GTTATAACTTATAAAT
66 GTTATAACTTATAAAT
* * *
6396615 ACTACACCTTAATTATTATTGTAATATACTGTTTTAATATACTGTTATAAAATTTGTAATATACT
1 ACTACACCTTAATTATTAATATAATATACTGTTTTAATATACTATTATAAAATTTGTAATATACT
6396680 GTTATAA
66 GTTATAA
6396687 ATATACTATT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (81 bp):
ACTACACCTTAATTATTAATATAATATACTGTTTTAATATACTATTATAAAATTTGTAATATACT
GTTATAACTTATAAAT
Found at i:6396654 original size:13 final size:13
Alignment explanation
Indices: 6396636--6396698 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
6396626 ATTATTATTG
6396636 TAATATACTGTTT
1 TAATATACTGTTT
*
6396649 TAATATACTGTTA
1 TAATATACTGTTT
*
6396662 TAA-A-A-T-TTG
1 TAATATACTGTTT
6396671 TAATATACTGTTAT
1 TAATATACTGTT-T
* *
6396685 AAATATACTATTT
1 TAATATACTGTTT
6396698 T
1 T
6396699 TAAAACGGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
9 5 0.13
10 2 0.05
11 2 0.05
12 2 0.05
13 18 0.46
14 10 0.26
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:6397777 original size:26 final size:27
Alignment explanation
Indices: 6397726--6397788 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
6397716 CATGTTAAAT
6397726 ATATATATTTGATTAAAAAATAAAAAA
1 ATATATATTTGATTAAAAAATAAAAAA
6397753 ATATATATTTGATT-AAAAATAAAAAA
1 ATATATATTTGATTAAAAAATAAAAAA
6397779 ATATATATTT
1 ATATATATTT
6397789 AATATATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
ATATATATTTGATTAAAAAATAAAAAA
Found at i:6398190 original size:16 final size:13
Alignment explanation
Indices: 6398167--6398215 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
6398157 GAGCAATTTA
6398167 ATTTTTTTCTCTTT
1 ATTTTTTT-TCTTT
*
6398181 ATGTTATTTTAACTTT
1 AT-TT-TTTT-TCTTT
6398197 ATTTTTTTTCTTT
1 ATTTTTTTTCTTT
6398210 ATTTTT
1 ATTTTT
6398216 CATTCTCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 10 0.33
14 6 0.20
15 4 0.13
16 10 0.33
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (13 bp):
ATTTTTTTTCTTT
Found at i:6398752 original size:3 final size:3
Alignment explanation
Indices: 6398744--6398783 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6398734 TCTATGCTGA
6398744 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6398784 CAAATTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6405499 original size:31 final size:31
Alignment explanation
Indices: 6405464--6405522 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
6405454 CTTAACAGTC
*
6405464 TAGTGACTTAAATAAAAACTTTTGAATATTT
1 TAGTGACTTAAATAAAAACTTTCGAATATTT
6405495 TAGTGACTTAAATAAAAACTTTCGAATA
1 TAGTGACTTAAATAAAAACTTTCGAATA
6405523 GTTCAATGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTCGAATATTT
Found at i:6405815 original size:6 final size:6
Alignment explanation
Indices: 6405804--6405829 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6405794 TCAATAAAAA
6405804 GCCTCG GCCTCG GCCTCG GCCTCG GC
1 GCCTCG GCCTCG GCCTCG GCCTCG GC
6405830 GTTGTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.35, T:0.15
Consensus pattern (6 bp):
GCCTCG
Found at i:6405839 original size:6 final size:6
Alignment explanation
Indices: 6405830--6405864 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
6405820 CGGCCTCGGC
*
6405830 GTTGTT GTTGTG GTTGTG GTTGTG GTTGTG GTTGT
1 GTTGTG GTTGTG GTTGTG GTTGTG GTTGTG GTTGT
6405865 AGATCTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
GTTGTG
Found at i:6411981 original size:165 final size:166
Alignment explanation
Indices: 6411800--6412130 Score: 655
Period size: 165 Copynumber: 2.0 Consensus size: 166
6411790 TATAAATTAC
6411800 ATAATATATAAAAATAACATAATACAAAACATTACAAACTTAAAAAAATGGGTCGGACTCAAACA
1 ATAATATATAAAAATAACATAATACAAAACATTACAAACTTAAAAAAATGGGTCGGACTCAAACA
6411865 TTAATTATTCAAGCTTGAACCCAGTCAATATTTTAAACGGACTTATTTTTTTATCCAAGCCACTT
66 TTAATTATTCAAGCTTGAACCCAGTCAATATTTTAAACGGACTTATTTTTTTATCCAAGCCACTT
6411930 TTGGGCCTAATATTTTCATCGAAACCCTCTTAAATT
131 TTGGGCCTAATATTTTCATCGAAACCCTCTTAAATT
6411966 ATAATATAT-AAAATAACATAATACAAAACATTACAAACTTAAAAAAATGGGTCGGACTCAAACA
1 ATAATATATAAAAATAACATAATACAAAACATTACAAACTTAAAAAAATGGGTCGGACTCAAACA
6412030 TTAATTATTCAAGCTTGAACCCAGTCAATATTTTAAACGGACTTATTTTTTTATCCAAGCCACTT
66 TTAATTATTCAAGCTTGAACCCAGTCAATATTTTAAACGGACTTATTTTTTTATCCAAGCCACTT
6412095 TTGGGCCTAATATTTTCATCGAAACCCTCTTAAATT
131 TTGGGCCTAATATTTTCATCGAAACCCTCTTAAATT
6412131 TTATACTGAC
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 156 0.95
166 9 0.05
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (166 bp):
ATAATATATAAAAATAACATAATACAAAACATTACAAACTTAAAAAAATGGGTCGGACTCAAACA
TTAATTATTCAAGCTTGAACCCAGTCAATATTTTAAACGGACTTATTTTTTTATCCAAGCCACTT
TTGGGCCTAATATTTTCATCGAAACCCTCTTAAATT
Found at i:6427881 original size:9 final size:9
Alignment explanation
Indices: 6427805--6427883 Score: 51
Period size: 9 Copynumber: 8.7 Consensus size: 9
6427795 AAAAATATTT
6427805 TATTTT-TA
1 TATTTTATA
6427813 T-TTTTATAA
1 TATTTTAT-A
6427822 CTATTATTATA
1 -TATT-TTATA
*
6427833 TATATTA-A
1 TATTTTATA
6427841 -ATTTTATA
1 TATTTTATA
*
6427849 TGCTTTTATAA
1 T-ATTTTAT-A
6427860 TATTTTA-A
1 TATTTTATA
6427868 CTATTTTATA
1 -TATTTTATA
6427878 TATTTT
1 TATTTT
6427884 TAATTAGATG
Statistics
Matches: 56, Mismatches: 4, Indels: 21
0.69 0.05 0.26
Matches are distributed among these distances:
7 9 0.16
8 5 0.09
9 17 0.30
10 16 0.29
11 5 0.09
12 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:6428313 original size:3 final size:3
Alignment explanation
Indices: 6428305--6428336 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6428295 TTTAGATTTG
6428305 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6428337 CATTGACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6431203 original size:3 final size:3
Alignment explanation
Indices: 6431191--6431260 Score: 115
Period size: 3 Copynumber: 23.3 Consensus size: 3
6431181 TTAATTCTTC
*
6431191 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6431238 TAT TAT TAT TAT TAT TAT ATAT T
1 TAT TAT TAT TAT TAT TAT -TAT T
6431261 TTAATTGGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:6433103 original size:25 final size:25
Alignment explanation
Indices: 6433075--6433140 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
6433065 CTAATATTTA
*
6433075 GCTCTCACGAGCTTCCCGATTAATG
1 GCTCTCATGAGCTTCCCGATTAATG
* *
6433100 GCTCTCTTGAGCTTCCCGATTTATG
1 GCTCTCATGAGCTTCCCGATTAATG
*
6433125 GCTCGCATGAGCTTCC
1 GCTCTCATGAGCTTCC
6433141 TGATGTACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.32, G:0.21, T:0.32
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATTAATG
Found at i:6433154 original size:25 final size:26
Alignment explanation
Indices: 6433126--6433190 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 26
6433116 CGATTTATGG
*
6433126 CTCGCATGAGCTTCCT-GATGTACAA
1 CTCGCATGAGCTTCCTCGATATACAA
** * *
6433151 CTCGGTTGAGCTT-CTCGTTATACAG
1 CTCGCATGAGCTTCCTCGATATACAA
*
6433176 CTCACATGAGCTTCC
1 CTCGCATGAGCTTCC
6433191 CGTTTACATG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
24 2 0.07
25 27 0.90
26 1 0.03
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (26 bp):
CTCGCATGAGCTTCCTCGATATACAA
Found at i:6433194 original size:25 final size:25
Alignment explanation
Indices: 6433157--6433211 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
6433147 ACAACTCGGT
*
6433157 TGAGCTTCTCGTTATACA-GCTC-ACA
1 TGAGCTTCCCGTT-TACATGCTCGA-A
6433182 TGAGCTTCCCGTTTACATGCTCGAA
1 TGAGCTTCCCGTTTACATGCTCGAA
6433207 TGAGC
1 TGAGC
6433212 ATTCTTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 22 0.81
26 1 0.04
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCCGTTTACATGCTCGAA
Found at i:6434527 original size:229 final size:229
Alignment explanation
Indices: 6434228--6434686 Score: 918
Period size: 229 Copynumber: 2.0 Consensus size: 229
6434218 GTCAGTATGC
6434228 TCAACACGGCCTAGCACACGAGCATGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTACATGGG
1 TCAACACGGCCTAGCACACGAGCATGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTACATGGG
6434293 TATGGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTTGAATGCCCATACGGCCTGAGACACG
66 TATGGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTTGAATGCCCATACGGCCTGAGACACG
6434358 GGCGTGTCTCTTGATCGTGTGAGTCACACGGGCTGGCCACACTGGCGTGTGTCCCCTGCACCTTT
131 GGCGTGTCTCTTGATCGTGTGAGTCACACGGGCTGGCCACACTGGCGTGTGTCCCCTGCACCTTT
6434423 GAAAAAAATTAATGTTTTCCAAAAAAATTTTGAG
196 GAAAAAAATTAATGTTTTCCAAAAAAATTTTGAG
6434457 TCAACACGGCCTAGCACACGAGCATGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTACATGGG
1 TCAACACGGCCTAGCACACGAGCATGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTACATGGG
6434522 TATGGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTTGAATGCCCATACGGCCTGAGACACG
66 TATGGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTTGAATGCCCATACGGCCTGAGACACG
6434587 GGCGTGTCTCTTGATCGTGTGAGTCACACGGGCTGGCCACACTGGCGTGTGTCCCCTGCACCTTT
131 GGCGTGTCTCTTGATCGTGTGAGTCACACGGGCTGGCCACACTGGCGTGTGTCCCCTGCACCTTT
6434652 GAAAAAAATTAATGTTTTCCAAAAAAATTTTGAG
196 GAAAAAAATTAATGTTTTCCAAAAAAATTTTGAG
6434686 T
1 T
6434687 ACCCGATTTA
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 230 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (229 bp):
TCAACACGGCCTAGCACACGAGCATGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTACATGGG
TATGGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTTGAATGCCCATACGGCCTGAGACACG
GGCGTGTCTCTTGATCGTGTGAGTCACACGGGCTGGCCACACTGGCGTGTGTCCCCTGCACCTTT
GAAAAAAATTAATGTTTTCCAAAAAAATTTTGAG
Found at i:6445760 original size:9 final size:9
Alignment explanation
Indices: 6445733--6445769 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6445723 TGAGTTTTCG
6445733 AATTCGAAT
1 AATTCGAAT
* *
6445742 AACTCAAAT
1 AATTCGAAT
6445751 AATTCGAAT
1 AATTCGAAT
6445760 AATTCGAAT
1 AATTCGAAT
6445769 A
1 A
6445770 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6448546 original size:19 final size:19
Alignment explanation
Indices: 6448522--6448625 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
6448512 AAAATTATTA
6448522 TTTTATAAAATTTTAAATT
1 TTTTATAAAATTTTAAATT
* * *
6448541 TTTTATATATTTTTAGATT
1 TTTTATAAAATTTTAAATT
* *
6448560 TTTT-TTAAATTTATAATTTT
1 TTTTATAAAATTT-TAA-ATT
6448580 TGTTTAAAATAAAAATTTTAGAA-T
1 T-TTT---AT-AAAATTTTA-AATT
6448604 TTTTATAAATATTTTAAATT
1 TTTTATAAA-ATTTTAAATT
6448624 TT
1 TT
6448626 AAAAATTACT
Statistics
Matches: 64, Mismatches: 10, Indels: 21
0.67 0.11 0.22
Matches are distributed among these distances:
18 5 0.08
19 27 0.42
20 14 0.22
21 3 0.05
23 3 0.05
24 2 0.03
25 3 0.05
26 7 0.11
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATTTTAAATT
Found at i:6448626 original size:18 final size:20
Alignment explanation
Indices: 6448588--6448625 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6448578 TTTGTTTAAA
*
6448588 ATAAAAATTTTAGAATTTTT
1 ATAAATATTTTAGAATTTTT
6448608 ATAAATATTTTA-AATTTT
1 ATAAATATTTTAGAATTTT
6448626 AAAAATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAGAATTTTT
Found at i:6448631 original size:18 final size:20
Alignment explanation
Indices: 6448590--6448631 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
6448580 TGTTTAAAAT
6448590 AAAA-ATTTTAGAATTTTTA
1 AAAATATTTTAGAATTTTTA
*
6448609 TAAATATTTTA-AA-TTTTA
1 AAAATATTTTAGAATTTTTA
6448627 AAAAT
1 AAAAT
6448632 TACTTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 5 0.25
20 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AAAATATTTTAGAATTTTTA
Found at i:6453087 original size:24 final size:24
Alignment explanation
Indices: 6453055--6453101 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6453045 GACAAAAAAA
6453055 AATGTTGTATGTAAATAAATGATG
1 AATGTTGTATGTAAATAAATGATG
*
6453079 AATGTTGTATTTAAATAAATGAT
1 AATGTTGTATGTAAATAAATGAT
6453102 CTCGGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (24 bp):
AATGTTGTATGTAAATAAATGATG
Found at i:6455959 original size:12 final size:12
Alignment explanation
Indices: 6455942--6455979 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
6455932 GAAGCCAGAA
6455942 CCGGAGCTGGAG
1 CCGGAGCTGGAG
* *
6455954 CCGGAGCCGGAT
1 CCGGAGCTGGAG
6455966 CCGGAGCTGGAG
1 CCGGAGCTGGAG
6455978 CC
1 CC
6455980 ACTGCTTCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.16, C:0.32, G:0.45, T:0.08
Consensus pattern (12 bp):
CCGGAGCTGGAG
Found at i:6455961 original size:24 final size:24
Alignment explanation
Indices: 6455934--6455979 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6455924 GATCAAGCGA
6455934 AGCCAGAACCGGAGCTGGAGCCGG
1 AGCCAGAACCGGAGCTGGAGCCGG
* *
6455958 AGCCGGATCCGGAGCTGGAGCC
1 AGCCAGAACCGGAGCTGGAGCC
6455980 ACTGCTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.41, T:0.07
Consensus pattern (24 bp):
AGCCAGAACCGGAGCTGGAGCCGG
Found at i:6457122 original size:11 final size:10
Alignment explanation
Indices: 6457075--6457122 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
6457065 AAAAAATTAG
*
6457075 GGAAAAAAGA
1 GGAAAGAAGA
6457085 GGGAAAGAAGA
1 -GGAAAGAAGA
*
6457096 GGAAAGATGA
1 GGAAAGAAGA
6457106 -GAAAGAAGAA
1 GGAAAGAAG-A
6457116 GGAAAGA
1 GGAAAGA
6457123 TATGCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.22
10 10 0.31
11 15 0.47
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (10 bp):
GGAAAGAAGA
Found at i:6463575 original size:21 final size:21
Alignment explanation
Indices: 6463537--6463576 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6463527 CCCTGAACCC
*
6463537 GTTTAAGGTTCGAGGTTCAGT
1 GTTTAAGGTTCGAAGTTCAGT
* *
6463558 GTTTAATGTTTGAAGTTCA
1 GTTTAAGGTTCGAAGTTCA
6463577 TGATTCAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (21 bp):
GTTTAAGGTTCGAAGTTCAGT
Found at i:6464155 original size:24 final size:26
Alignment explanation
Indices: 6464108--6464155 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
6464098 ATGATTATAA
* *
6464108 TAAAATATTTAGTATTTTATAAATCC
1 TAAAATATTTAGTATTATAAAAATCC
6464134 TAAAA-ATTTA-TATTATAAAAAT
1 TAAAATATTTAGTATTATAAAAAT
6464156 AATTTGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 5 0.25
26 5 0.25
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
TAAAATATTTAGTATTATAAAAATCC
Found at i:6464450 original size:18 final size:19
Alignment explanation
Indices: 6464427--6464467 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
6464417 TAAAACCTTG
6464427 TTTTTTAAAGGTTATA-TA
1 TTTTTTAAAGGTTATATTA
**
6464445 TTTTTTAAATTTTATATTA
1 TTTTTTAAAGGTTATATTA
6464464 TTTT
1 TTTT
6464468 GACTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTAAAGGTTATATTA
Found at i:6466781 original size:34 final size:33
Alignment explanation
Indices: 6466743--6466849 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 33
6466733 ACATTTCATA
6466743 ATAAGATTACCGAATTATAAGATTATAGTGGAAT
1 ATAAGATTACCGAA-TATAAGATTATAGTGGAAT
*
6466777 ATAAGATTATCTC-AATGTAAGATTCAT-GT-G---
1 ATAAGATTA-C-CGAATATAAGATT-ATAGTGGAAT
6466807 ATAAGATTACCGAAATATAAGATTATAGTGGAAT
1 ATAAGATTACCG-AATATAAGATTATAGTGGAAT
6466841 ATAAGATTA
1 ATAAGATTA
6466850 TCTCAATGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
28 1 0.02
29 3 0.05
30 21 0.34
31 1 0.02
33 1 0.02
34 28 0.46
35 5 0.08
36 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.33
Consensus pattern (33 bp):
ATAAGATTACCGAATATAAGATTATAGTGGAAT
Found at i:6466831 original size:64 final size:64
Alignment explanation
Indices: 6466743--6466870 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
6466733 ACATTTCATA
*
6466743 ATAAGATTACCGAATTATAAGATTATAGTGGAATATAAGATTATCTCAATGTAAGATTCATGTG
1 ATAAGATTACCGAAATATAAGATTATAGTGGAATATAAGATTATCTCAATGTAAGATTCATGTG
6466807 ATAAGATTACCGAAATATAAGATTATAGTGGAATATAAGATTATCTCAATGTAAGATTCATGTG
1 ATAAGATTACCGAAATATAAGATTATAGTGGAATATAAGATTATCTCAATGTAAGATTCATGTG
6466871 TTTTGTTGAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (64 bp):
ATAAGATTACCGAAATATAAGATTATAGTGGAATATAAGATTATCTCAATGTAAGATTCATGTG
Found at i:6466862 original size:34 final size:34
Alignment explanation
Indices: 6466760--6466864 Score: 130
Period size: 34 Copynumber: 3.2 Consensus size: 34
6466750 TACCGAATTA
6466760 TAAGATTATAGTGGAATATAAGATTATCTCAATG
1 TAAGATTATAGTGGAATATAAGATTATCTCAATG
* ** *
6466794 TAAGATTCAT-GT-G---ATAAGATTACCGAAATA
1 TAAGATT-ATAGTGGAATATAAGATTATCTCAATG
6466824 TAAGATTATAGTGGAATATAAGATTATCTCAATG
1 TAAGATTATAGTGGAATATAAGATTATCTCAATG
6466858 TAAGATT
1 TAAGATT
6466865 CATGTGTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
29 2 0.04
30 22 0.39
31 1 0.02
33 1 0.02
34 29 0.51
35 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (34 bp):
TAAGATTATAGTGGAATATAAGATTATCTCAATG
Found at i:6471600 original size:32 final size:32
Alignment explanation
Indices: 6471564--6471629 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
6471554 TTTAGTGTAG
6471564 ATATGGCCTTAAGGTGAATCAATGGGTCACTC
1 ATATGGCCTTAAGGTGAATCAATGGGTCACTC
6471596 ATATGGCCTTAAGGTGAATCAATGGGTCACTC
1 ATATGGCCTTAAGGTGAATCAATGGGTCACTC
6471628 AT
1 AT
6471630 TTTGTTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (32 bp):
ATATGGCCTTAAGGTGAATCAATGGGTCACTC
Found at i:6479513 original size:63 final size:63
Alignment explanation
Indices: 6479420--6479540 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
6479410 CCTTCACGAG
* * * * *
6479420 AAGCGGTCCGGTACTCAAATCCTTAGCTTTGGCTTCAGTATGCTCAGGTTCTTCCTCCGCAAC
1 AAGCGGTCCGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCCGCAAC
*
6479483 AAGCGGTCTGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCC
1 AAGCGGTCCGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCC
6479541 ATGGGAAGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.30
Consensus pattern (63 bp):
AAGCGGTCCGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCCGCAAC
Found at i:6484851 original size:24 final size:24
Alignment explanation
Indices: 6484824--6484874 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
6484814 TCTTGAGCAA
6484824 TTTAA-TTT-TTTTCTTTTATGTTTT
1 TTTAACTTTCTTTT-TTTTAT-TTTT
*
6484848 TTTAACTTTCTTTTTTTTCTTTTT
1 TTTAACTTTCTTTTTTTTATTTTT
6484872 TTT
1 TTT
6484875 CCATTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 12 0.50
25 8 0.33
26 4 0.17
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTAACTTTCTTTTTTTTATTTTT
Done.