Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 167 of 170
Found at i:49609747 original size:46 final size:45
Alignment explanation
Indices: 49609693--49609972 Score: 272
Period size: 46 Copynumber: 6.6 Consensus size: 45
49609683 TTTGAGTACT
*
49609693 TCTGATCAAGTGACAAAGTGATAAGTGGAAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
**
49609739 TCTGATCAAGAAACAAAGTGATAAGT-G--G--T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
**
49609776 TCTGATCAAGAAACAAAGTGATAA---GT-G----GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
* *
49609813 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
** *
49609859 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
** **
49609905 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
*
49609950 TCTGATCAAG-AAC-AAGTGATAAG
1 TCTGATCAAGTGACAAAGTGATAAG
49609973 AGGTCATATG
Statistics
Matches: 210, Mismatches: 12, Indels: 27
0.84 0.05 0.11
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 61 0.29
40 3 0.01
41 1 0.00
43 11 0.05
45 22 0.10
46 110 0.52
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:49609772 original size:37 final size:37
Alignment explanation
Indices: 49609731--49609841 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
49609721 AAGTTTTAGC
49609731 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
49609768 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
49609805 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
49609842 AGCTTCAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:49620480 original size:2 final size:2
Alignment explanation
Indices: 49620473--49620500 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
49620463 CATCCTTTGA
49620473 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
49620501 TGTATTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49625570 original size:119 final size:119
Alignment explanation
Indices: 49625359--49625595 Score: 282
Period size: 119 Copynumber: 2.0 Consensus size: 119
49625349 TGTCTAGGAC
* * * ** *
49625359 AAATGACTACTCATTTACTATTGCAAGTAATGATCATTTTCATCATAGAAGATACAATGATGACG
1 AAATGACTAATCATTTACTATTGCAAGTAATGATCATTTTCATCACAAAAGATACAATGACAACC
*
49625424 ACAAGATAAAAATAGATCAAATTAGGAAAACA-AGTTTAATATAAAGGAATCATA
66 ACAAGATAAAAATAGATCAAATTAGGAAAACAGAG-TTAACATAAAGGAATCATA
* * *
49625478 AAATGACTAATCATTTACTATTTCAAGTAAT-AGTCATTTTTATCACAAAAGATATAATGACAAC
1 AAATGACTAATCATTTACTATTGCAAGTAATGA-TCATTTTCATCACAAAAGATACAATGACAAC
** * * * *
49625542 CATGAGA-AAAAGATGGATCGAATTAGGAAAATAGAGTTAACATAAATGAATCAT
65 CACAAGATAAAA-ATAGATCAAATTAGGAAAACAGAGTTAACATAAAGGAATCAT
49625596 GGATATCCTA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 5 0.05
119 92 0.93
120 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (119 bp):
AAATGACTAATCATTTACTATTGCAAGTAATGATCATTTTCATCACAAAAGATACAATGACAACC
ACAAGATAAAAATAGATCAAATTAGGAAAACAGAGTTAACATAAAGGAATCATA
Found at i:49633363 original size:18 final size:20
Alignment explanation
Indices: 49633334--49633370 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
49633324 TATTATTTGG
49633334 TATTTAAGTTTGAT-TTAAA
1 TATTTAAGTTTGATATTAAA
49633353 TATTTAA-TTTGATATTAA
1 TATTTAAGTTTGATATTAA
49633371 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
TATTTAAGTTTGATATTAAA
Found at i:49644444 original size:15 final size:16
Alignment explanation
Indices: 49644419--49644453 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
49644409 AAGTGATTTT
49644419 AAAATATATAAGCCCG
1 AAAATATATAAGCCCG
*
49644435 AAAA-ATATAAGTCCG
1 AAAATATATAAGCCCG
49644450 AAAA
1 AAAA
49644454 GTGAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.17
Consensus pattern (16 bp):
AAAATATATAAGCCCG
Found at i:49661611 original size:21 final size:21
Alignment explanation
Indices: 49661586--49661625 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49661576 CCTTTCAAGG
49661586 TTTGGGTTTCGAGTTTTAGAT
1 TTTGGGTTTCGAGTTTTAGAT
* *
49661607 TTTGGGTTTTGATTTTTAG
1 TTTGGGTTTCGAGTTTTAG
49661626 GTTTCAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.28, T:0.57
Consensus pattern (21 bp):
TTTGGGTTTCGAGTTTTAGAT
Found at i:49665644 original size:31 final size:31
Alignment explanation
Indices: 49665608--49665667 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
49665598 CAAAATGATC
49665608 ACTAAA-CTATTCGAAAGTTTTCATTTAAGCG
1 ACTAAATC-ATTCGAAAGTTTTCATTTAAGCG
*
49665639 ACTAAATCATTCGAAAGTTTTTATTTAAG
1 ACTAAATCATTCGAAAGTTTTCATTTAAG
49665668 TCACTGGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (31 bp):
ACTAAATCATTCGAAAGTTTTCATTTAAGCG
Found at i:49668412 original size:12 final size:11
Alignment explanation
Indices: 49668385--49668410 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49668375 CATGTAATAA
49668385 TTTTGTTTTTT
1 TTTTGTTTTTT
49668396 TTTTGTTTTTT
1 TTTTGTTTTTT
49668407 TTTT
1 TTTT
49668411 TGATGTAGTA
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:49673747 original size:17 final size:17
Alignment explanation
Indices: 49673706--49673753 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
49673696 TCAAACTCAA
49673706 ACCCAAACCCAAAA-TG
1 ACCCAAACCCAAAATTG
* *
49673722 A-CTAGAACCTAAAATTG
1 ACCCA-AACCCAAAATTG
49673739 ACCCAAACCCAAAAT
1 ACCCAAACCCAAAAT
49673754 GATCGAACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 2 0.08
16 9 0.36
17 12 0.48
18 2 0.08
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (17 bp):
ACCCAAACCCAAAATTG
Found at i:49673748 original size:33 final size:32
Alignment explanation
Indices: 49673706--49673772 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
49673696 TCAAACTCAA
49673706 ACCCAAACCCAAAATGACTAGAACCTA-AAATTG
1 ACCCAAACCCAAAATGA-TAGAA-CTAGAAATTG
*
49673739 ACCCAAACCCAAAATGATCGAACTAGAAATTG
1 ACCCAAACCCAAAATGATAGAACTAGAAATTG
49673771 AC
1 AC
49673773 ACGGAATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 3 0.09
32 12 0.38
33 17 0.53
ACGTcount: A:0.48, C:0.27, G:0.10, T:0.15
Consensus pattern (32 bp):
ACCCAAACCCAAAATGATAGAACTAGAAATTG
Found at i:49675247 original size:22 final size:22
Alignment explanation
Indices: 49675205--49675247 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
49675195 GAATGAATCT
*
49675205 TTTTTGAGCTTTTTCTGCATTG
1 TTTTTGAGCTTTTGCTGCATTG
*
49675227 TTTTTGTA-CTTTTGCTTCATT
1 TTTTTG-AGCTTTTGCTGCATT
49675248 TTCCCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (22 bp):
TTTTTGAGCTTTTGCTGCATTG
Found at i:49677186 original size:3 final size:3
Alignment explanation
Indices: 49677180--49677206 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
49677170 AAAAGAAGAA
49677180 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
49677207 TTGGTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:49690557 original size:22 final size:20
Alignment explanation
Indices: 49690532--49690578 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
49690522 AAATTGTGAA
*
49690532 TTTTTTTTTATTTTGTTGGAG
1 TTTTTTTTTATTTTATT-GAG
49690553 TTTTTTTTTACTTTTATTGA-
1 TTTTTTTTTA-TTTTATTGAG
49690573 TTTTTT
1 TTTTTT
49690579 ATTTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 12 0.50
22 6 0.25
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.77
Consensus pattern (20 bp):
TTTTTTTTTATTTTATTGAG
Found at i:49690583 original size:22 final size:21
Alignment explanation
Indices: 49690532--49690588 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
49690522 AAATTGTGAA
*
49690532 TTTTTTTTTATTTTGTTGGAG
1 TTTTTTTTTATTTTATTGGAG
*
49690553 TTTTTTTTTACTTTTATT-GATT
1 TTTTTTTTTA-TTTTATTGGA-G
49690575 TTTTATTTTTATTT
1 TTTT-TTTTTATTT
49690589 AATATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 12 0.39
22 13 0.42
23 6 0.19
ACGTcount: A:0.12, C:0.02, G:0.09, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTATTTTATTGGAG
Found at i:49690688 original size:19 final size:19
Alignment explanation
Indices: 49690664--49690719 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
49690654 AAAAGAGAGA
49690664 ATTTTCTTATTTTTAAAAT
1 ATTTTCTTATTTTTAAAAT
*
49690683 ATTTTCTGATTTTTAAAAT
1 ATTTTCTTATTTTTAAAAT
49690702 ATTTT-TATATATTTTAAA
1 ATTTTCT-TAT-TTTTAAA
49690720 TTGTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 1 0.03
19 25 0.76
20 7 0.21
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTCTTATTTTTAAAAT
Found at i:49694245 original size:2 final size:2
Alignment explanation
Indices: 49694240--49694271 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
49694230 ATTGTGTACT
49694240 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49694272 AAATAACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49696689 original size:20 final size:20
Alignment explanation
Indices: 49696664--49696705 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
49696654 AATAATTAAT
49696664 AATAATATGCAAAATATGTA
1 AATAATATGCAAAATATGTA
*
49696684 AATAATATGCGAAATATGTA
1 AATAATATGCAAAATATGTA
49696704 AA
1 AA
49696706 CTTGATGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.29
Consensus pattern (20 bp):
AATAATATGCAAAATATGTA
Found at i:49700732 original size:15 final size:15
Alignment explanation
Indices: 49700712--49700743 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49700702 TGGGTCGTCA
49700712 AACTTCTAAGCCTAC
1 AACTTCTAAGCCTAC
49700727 AACTTCTAAGCCTAC
1 AACTTCTAAGCCTAC
49700742 AA
1 AA
49700744 ACCCAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (15 bp):
AACTTCTAAGCCTAC
Found at i:49700959 original size:27 final size:29
Alignment explanation
Indices: 49700903--49700966 Score: 105
Period size: 27 Copynumber: 2.3 Consensus size: 29
49700893 AAAAAATAAT
*
49700903 CAAAATATTATAACTTTATTTTTATTTAC
1 CAAAATATTATAACATTATTTTTATTTAC
49700932 CAAAATATTATAA-ATT-TTTTTATTTAC
1 CAAAATATTATAACATTATTTTTATTTAC
49700959 CAAAATAT
1 CAAAATAT
49700967 ACCAGAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 19 0.56
28 2 0.06
29 13 0.38
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (29 bp):
CAAAATATTATAACATTATTTTTATTTAC
Found at i:49701380 original size:19 final size:19
Alignment explanation
Indices: 49701356--49701419 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
49701346 ATTAAAATAA
49701356 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
49701375 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
49701393 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
49701412 TTTAATTT
1 TTTAATTT
49701420 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:49701688 original size:18 final size:19
Alignment explanation
Indices: 49701649--49701707 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
49701639 ATTTTATATT
49701649 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
49701668 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
49701686 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
49701705 TTA
1 TTA
49701708 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:49702389 original size:27 final size:26
Alignment explanation
Indices: 49702350--49702402 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
49702340 TGTGTCAGGT
*
49702350 TTTTTTTGTATATTTTGGTAAATAAA
1 TTTTTTTATATATTTTGGTAAATAAA
49702376 TTTTTTTATAATATTTTGGTAAATAAA
1 TTTTTTTAT-ATATTTTGGTAAATAAA
49702403 AAAATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TTTTTTTATATATTTTGGTAAATAAA
Found at i:49705321 original size:15 final size:15
Alignment explanation
Indices: 49705301--49705408 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
49705291 TTTATAGAAA
49705301 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
49705316 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
49705330 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
49705346 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
49705360 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
49705376 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
49705390 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
49705406 ATC
1 ATC
49705409 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:49705330 original size:30 final size:30
Alignment explanation
Indices: 49705294--49705408 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
49705284 ATCCATATTT
*
49705294 ATAGAAAATCAAAGATATGGGTATCAAATA
1 ATAGAAAGTCAAAGATATGGGTATCAAATA
49705324 ATAGAAAGTCAAAGATATGGGTATCAAATA
1 ATAGAAAGTCAAAGATATGGGTATCAAATA
* *
49705354 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATAGAAAGTCAAAGATATGGGTATCAAATA
* *
49705384 TTGGAAAGTCAAAGATATGGGTATC
1 ATAGAAAGTCAAAGATATGGGTATC
49705409 GAGATATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (30 bp):
ATAGAAAGTCAAAGATATGGGTATCAAATA
Found at i:49709271 original size:20 final size:21
Alignment explanation
Indices: 49709233--49709274 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49709223 AATTCTAAAA
49709233 AAATTATCAAAAAATTTATTT
1 AAATTATCAAAAAATTTATTT
*
49709254 AAATTTTCAAAAAA-TTATTT
1 AAATTATCAAAAAATTTATTT
49709274 A
1 A
49709275 TTTTCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTATCAAAAAATTTATTT
Found at i:49712939 original size:16 final size:17
Alignment explanation
Indices: 49712918--49712958 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
49712908 GCAATTATAA
49712918 TTAAAAT-GAATCCAAT
1 TTAAAATAGAATCCAAT
* *
49712934 TTAAAATATAATCGAAT
1 TTAAAATAGAATCCAAT
49712951 TTAAAATA
1 TTAAAATA
49712959 AAAATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (17 bp):
TTAAAATAGAATCCAAT
Found at i:49724855 original size:58 final size:58
Alignment explanation
Indices: 49724765--49724881 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
49724755 GGGAAAAAGG
49724765 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
1 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
49724823 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
1 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
49724881 A
1 A
49724882 AAAAGAGAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (58 bp):
AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
Found at i:49726009 original size:3 final size:3
Alignment explanation
Indices: 49726001--49726028 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
49725991 ATTTAAGTAA
49726001 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49726029 TTGAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49728746 original size:28 final size:28
Alignment explanation
Indices: 49728704--49728757 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
49728694 TGAAAATGAA
*
49728704 TTTTTTTTTTCTTTTTGCTTCAATCATG
1 TTTTTTTTTTCTTTTTACTTCAATCATG
*
49728732 TTTTTTTTTTTTTTTTACTTCAATCA
1 TTTTTTTTTTCTTTTTACTTCAATCA
49728758 AGTATTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (28 bp):
TTTTTTTTTTCTTTTTACTTCAATCATG
Found at i:49735571 original size:34 final size:35
Alignment explanation
Indices: 49735496--49735582 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
49735486 ACACTGCATG
* * * *
49735496 ACTGTATACTGATACTATGATGGGCTAAGATCCTA
1 ACTGCATACTGATACTGTGATGGGCTAAGAGCCCA
* *
49735531 AC-GCATACTGATACTGTGATTGGCTAAG-GCCCC
1 ACTGCATACTGATACTGTGATGGGCTAAGAGCCCA
49735564 ACTGCATACTTGATACTGT
1 ACTGCATAC-TGATACTGT
49735583 ACTGAGGTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
33 4 0.09
34 29 0.66
35 11 0.25
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (35 bp):
ACTGCATACTGATACTGTGATGGGCTAAGAGCCCA
Found at i:49740404 original size:42 final size:42
Alignment explanation
Indices: 49740357--49740490 Score: 189
Period size: 42 Copynumber: 3.2 Consensus size: 42
49740347 AGGGAAGGCG
* *
49740357 AACTGAAGGTGGAGAAGGGAGAAGCTGATTTAAAAGAAAACA
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
*
49740399 AACTGAAGGTGGAGAAGGGTGAAGCTGAGTTAAAAGAAAACC
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
* * *
49740441 AACTGAAGCTGGAGAA-GGACAAAGCTGAGTTAGAAGAAAACC
1 AACTGAAGGTGGAGAAGGGA-GAAGCTGAGTTAAAAGAAAACC
*
49740483 TACTGAAG
1 AACTGAAG
49740491 CTAGCCAGGT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 2 0.02
42 81 0.98
ACGTcount: A:0.45, C:0.10, G:0.31, T:0.14
Consensus pattern (42 bp):
AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
Found at i:49740656 original size:76 final size:76
Alignment explanation
Indices: 49740547--49740875 Score: 604
Period size: 76 Copynumber: 4.3 Consensus size: 76
49740537 TGAAATACAT
* *
49740547 TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTGTTTGTGTGATGGT
1 TCTCAATGGTTTATTG-GGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGT
49740612 TTTGTGTTTGAA
65 TTTGTGTTTGAA
49740624 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
*
49740689 TTGTGTTTGGA
66 TTGTGTTTGAA
*
49740700 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGCGTTTGTGTGATGGTT
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
49740765 TTGTGTTTGAA
66 TTGTGTTTGAA
*
49740776 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTATGTGATGGTT
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
49740841 TTGTGTTTGAA
66 TTGTGTTTGAA
49740852 TCTCAATGGTTTATTGGGATGTTT
1 TCTCAATGGTTTATTGGGATGTTT
49740876 TTTAAATGTT
Statistics
Matches: 245, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
76 229 0.93
77 16 0.07
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (76 bp):
TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
TTGTGTTTGAA
Found at i:49745542 original size:22 final size:22
Alignment explanation
Indices: 49745512--49745554 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49745502 CCAGCAATCC
*
49745512 TGCATATGGAGGAGAAAAAAAT
1 TGCACATGGAGGAGAAAAAAAT
*
49745534 TGCACATGGTGGAGAAAAAAA
1 TGCACATGGAGGAGAAAAAAA
49745555 AGGTACAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.28, T:0.16
Consensus pattern (22 bp):
TGCACATGGAGGAGAAAAAAAT
Found at i:49749213 original size:30 final size:30
Alignment explanation
Indices: 49749179--49749241 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
49749169 ACTTATTTTA
*
49749179 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
49749209 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
49749239 TTG
1 TTG
49749242 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:49750802 original size:11 final size:10
Alignment explanation
Indices: 49750786--49750820 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
49750776 ATTTTTTGAA
49750786 TTTTTATAAAT
1 TTTTTAT-AAT
49750797 TTTTTATAAT
1 TTTTTATAAT
*
49750807 TTTTTTTAAT
1 TTTTTATAAT
49750817 TTTT
1 TTTT
49750821 AAATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:49754682 original size:62 final size:62
Alignment explanation
Indices: 49754581--49754704 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
49754571 GAAACTTAAG
* *
49754581 TCATAATAAATTTAGATTGAGAATCTATACGAGATTTACATAAAGTGAGACTTGAACATAAA
1 TCATAATAAATTTAGATTGAGAATCTATACAAGAATTACATAAAGTGAGACTTGAACATAAA
49754643 TCATAATAAATTTAGATTGAGAATCTATACAAGAATTACATAAAGTGAGACTTGAACATAAA
1 TCATAATAAATTTAGATTGAGAATCTATACAAGAATTACATAAAGTGAGACTTGAACATAAA
49754705 ATTTCAAAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.30
Consensus pattern (62 bp):
TCATAATAAATTTAGATTGAGAATCTATACAAGAATTACATAAAGTGAGACTTGAACATAAA
Found at i:49754686 original size:34 final size:34
Alignment explanation
Indices: 49754586--49754686 Score: 90
Period size: 34 Copynumber: 3.1 Consensus size: 34
49754576 TTAAGTCATA
* *
49754586 ATAAATTTAGATTGAGAATCTATACGAGATTTAC
1 ATAAATTTAGATTGAGAATCTATACAAGAATTAC
* * **
49754620 ATAAAGTGAGACTT--GAA-C-ATA-AATCA-TA-
1 ATAAATTTAGA-TTGAGAATCTATACAAGAATTAC
49754648 ATAAATTTAGATTGAGAATCTATACAAGAATTAC
1 ATAAATTTAGATTGAGAATCTATACAAGAATTAC
49754682 ATAAA
1 ATAAA
49754687 GTGAGACTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
27 2 0.04
28 9 0.18
29 5 0.10
30 2 0.04
31 6 0.12
32 4 0.08
33 5 0.10
34 14 0.29
35 2 0.04
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.31
Consensus pattern (34 bp):
ATAAATTTAGATTGAGAATCTATACAAGAATTAC
Found at i:49755823 original size:2 final size:2
Alignment explanation
Indices: 49755818--49755842 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49755808 ATTTATAATG
49755818 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 T
49755843 CTCACGTGTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49759997 original size:24 final size:23
Alignment explanation
Indices: 49759959--49760003 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
49759949 TATGCCATCT
49759959 AATTTTAAAAAAAATTAAAATCC
1 AATTTTAAAAAAAATTAAAATCC
* *
49759982 AATTTGTAAAACAAATTGAAAT
1 AATTT-TAAAAAAAATTAAAAT
49760004 TTAACAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTTTAAAAAAAATTAAAATCC
Found at i:49762270 original size:3 final size:3
Alignment explanation
Indices: 49762262--49762297 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
49762252 AACTAAAGGG
* *
49762262 GAT GAT GAT GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
49762298 TGGGTTTCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:49769831 original size:14 final size:14
Alignment explanation
Indices: 49769800--49769833 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49769790 ACTTCTATGT
* *
49769800 TATTATTATTTTAT
1 TATTATTATTTAAA
49769814 TATTATTATTTAAA
1 TATTATTATTTAAA
49769828 TATTAT
1 TATTAT
49769834 ATAACTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATTATTTAAA
Found at i:49773034 original size:17 final size:17
Alignment explanation
Indices: 49773012--49773069 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
49773002 TAAATAATTT
49773012 AATATAATGATACATAA
1 AATATAATGATACATAA
* **
49773029 AATAT-ATAAATA-ATTC
1 AATATAAT-GATACATAA
49773045 AATATAATGATACATAA
1 AATATAATGATACATAA
49773062 AATATAAT
1 AATATAAT
49773070 TTAATCTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAATGATACATAA
Found at i:49773043 original size:33 final size:33
Alignment explanation
Indices: 49772997--49773067 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
49772987 AAATTATATG
* *
49772997 ATATTTAAATAATTTAATATAATGATACATAAA
1 ATATATAAATAATTCAATATAATGATACATAAA
49773030 ATATATAAATAATTCAATATAATGATACATAAA
1 ATATATAAATAATTCAATATAATGATACATAAA
49773063 ATATA
1 ATATA
49773068 ATTTAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (33 bp):
ATATATAAATAATTCAATATAATGATACATAAA
Found at i:49774208 original size:31 final size:30
Alignment explanation
Indices: 49774143--49774206 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
49774133 ATCTCAAAAC
*
49774143 TATACATAAACTATAATTTAATGTGTAATTA
1 TATACATAAACTATAATTT-ATATGTAATTA
* *
49774174 TATACATAAACTTTAATTT-TATGTAATTT
1 TATACATAAACTATAATTTATATGTAATTA
49774203 TATA
1 TATA
49774207 TATGAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 12 0.40
31 18 0.60
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (30 bp):
TATACATAAACTATAATTTATATGTAATTA
Found at i:49798912 original size:15 final size:15
Alignment explanation
Indices: 49798892--49798925 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
49798882 ACTGGTAGGC
49798892 ATGTGTTCTGTTTTG
1 ATGTGTTCTGTTTTG
49798907 ATGTGTTCTGTTTTG
1 ATGTGTTCTGTTTTG
49798922 ATGT
1 ATGT
49798926 TGTCAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.09, C:0.06, G:0.26, T:0.59
Consensus pattern (15 bp):
ATGTGTTCTGTTTTG
Found at i:49800509 original size:26 final size:25
Alignment explanation
Indices: 49800475--49800635 Score: 81
Period size: 26 Copynumber: 6.5 Consensus size: 25
49800465 TATATTTTTA
49800475 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTT-ATAATAATTATT
*
49800501 TTAAATTATATTT-T-AT-AGTATT
1 TTAAATTATATTTATAATAATTATT
* * *
49800523 ATATATTATGATTT-TAGTAAATTCA-T
1 TTAAATTAT-ATTTATAAT-AATT-ATT
* * * **
49800549 ATAAGAATATATTTAATATTAAGAATT
1 TTAA-ATTATATTT-ATAATAATTATT
*
49800576 TT--ATTA-ATTTAT-AT-ATTTTT
1 TTAAATTATATTTATAATAATTATT
*
49800596 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTT-ATAATAATTATT
49800623 TTAAATTATATTT
1 TTAAATTATATTT
49800636 TATAGTATTA
Statistics
Matches: 101, Mismatches: 18, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 14 0.14
23 15 0.15
24 9 0.09
25 2 0.02
26 39 0.39
27 13 0.13
28 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAAATTATATTTATAATAATTATT
Found at i:49800582 original size:18 final size:19
Alignment explanation
Indices: 49800561--49800606 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
49800551 AAGAATATAT
49800561 TTAATATTA-AGAATTTTA
1 TTAATATTATAGAATTTTA
* *
49800579 TTAAT-TTATATATTTTTA
1 TTAATATTATAGAATTTTA
49800597 TTAA-ATTATA
1 TTAATATTATA
49800607 TTTAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTAATATTATAGAATTTTA
Found at i:49800672 original size:22 final size:21
Alignment explanation
Indices: 49800623--49800674 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
49800613 AATAATTATG
*
49800623 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
49800643 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
49800666 TTAATATTA
1 TTAATATTA
49800675 AGAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:49800685 original size:16 final size:16
Alignment explanation
Indices: 49800664--49800699 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
49800654 GATTTTAGTA
49800664 ATTTAATATTAAGAAT
1 ATTTAATATTAAGAAT
49800680 ATTTAATATTAAGAAT
1 ATTTAATATTAAGAAT
49800696 -TTTA
1 ATTTA
49800700 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTAATATTAAGAAT
Found at i:49800743 original size:121 final size:122
Alignment explanation
Indices: 49800456--49800748 Score: 527
Period size: 122 Copynumber: 2.4 Consensus size: 122
49800446 CAAACTTTAG
*
49800456 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
*
49800521 TTATATATTATGATTTTAGTAAATTCATATAAGAATATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATAAGAATATATTTAATATTAAGAATTTT
*
49800578 ATTAATTTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
*
49800643 TTATATATTATGATTTTAGTAATTTAATATTAAG-A-ATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATA-TAAGAATATATTTAATATTAAGAATTTT
49800699 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
49800749 ATATGATTAA
Statistics
Matches: 165, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
121 70 0.42
122 91 0.55
123 4 0.02
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (122 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTAATATAAGAATATATTTAATATTAAGAATTTT
Found at i:49800981 original size:16 final size:16
Alignment explanation
Indices: 49800960--49800999 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
49800950 AGTTGATTTG
*
49800960 CCATTACACCTCTATT
1 CCATTACACCTCTAAT
49800976 CCATTACACCTCTAAT
1 CCATTACACCTCTAAT
*
49800992 CCAATACA
1 CCATTACA
49801000 GCGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.30
Consensus pattern (16 bp):
CCATTACACCTCTAAT
Found at i:49804745 original size:6 final size:6
Alignment explanation
Indices: 49804736--49804807 Score: 144
Period size: 6 Copynumber: 12.0 Consensus size: 6
49804726 TCTTTTTCTG
49804736 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
49804784 GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT
49804808 ATGTGTGTGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:49809643 original size:16 final size:18
Alignment explanation
Indices: 49809619--49809658 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
49809609 CGATGGGGAA
*
49809619 AAAGGTGAAGA-AAA-AT
1 AAAGATGAAGATAAAGAT
49809635 AAAGATGAAGATAAAGAT
1 AAAGATGAAGATAAAGAT
49809653 AAAGAT
1 AAAGAT
49809659 AAAAGCTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 3 0.14
18 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (18 bp):
AAAGATGAAGATAAAGAT
Found at i:49814010 original size:44 final size:45
Alignment explanation
Indices: 49813960--49814060 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 45
49813950 AGAGTTAGAC
49813960 TTTAGTTTTATTTTTATTGGGTT-GGTAATTGGATAGACTTTAGT
1 TTTAGTTTTATTTTTATTGGGTTAGGTAATTGGATAGACTTTAGT
* * * * * *
49814004 TTTAGTTTTAGTTTTGTTGGGTTAGTTAATTGGGTAGGCTTTTGT
1 TTTAGTTTTATTTTTATTGGGTTAGGTAATTGGATAGACTTTAGT
*
49814049 TTTTGTTTTATT
1 TTTAGTTTTATT
49814061 GGGTTGGGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 21 0.44
45 27 0.56
ACGTcount: A:0.16, C:0.02, G:0.24, T:0.58
Consensus pattern (45 bp):
TTTAGTTTTATTTTTATTGGGTTAGGTAATTGGATAGACTTTAGT
Found at i:49814051 original size:45 final size:44
Alignment explanation
Indices: 49813960--49814078 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
49813950 AGAGTTAGAC
* *
49813960 TTTAGTTTTATTTTTATTGGGTT-GGTAATTGGATAGACTTTAGT
1 TTTAGTTTTA-TTTTGTTGGGTTAGATAATTGGATAGACTTTAGT
* * * *
49814004 TTTAGTTTTAGTTTTGTTGGGTTAGTTAATTGGGTAGGCTTTTGT
1 TTTAGTTTTA-TTTTGTTGGGTTAGATAATTGGATAGACTTTAGT
* **
49814049 TTTTGTTTTATTGGGTTGGGTTAGATAATT
1 TTTAGTTTTATTTTGTTGGGTTAGATAATT
49814079 TTATTTATTA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 38 0.59
45 26 0.41
ACGTcount: A:0.17, C:0.02, G:0.26, T:0.55
Consensus pattern (44 bp):
TTTAGTTTTATTTTGTTGGGTTAGATAATTGGATAGACTTTAGT
Found at i:49814067 original size:44 final size:45
Alignment explanation
Indices: 49813976--49814078 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
49813966 TTTATTTTTA
* **
49813976 TTGGGTT-GGTAATTGGATAGACTTTAGTTTTAGTTTTAGTTTTG
1 TTGGGTTAGATAATTGGATAGACTTTAGTTTTAGTTTTAGTTGGG
* * * * *
49814020 TTGGGTTAGTTAATTGGGTAGGCTTTTGTTTTTGTTTTA-TTGGG
1 TTGGGTTAGATAATTGGATAGACTTTAGTTTTAGTTTTAGTTGGG
49814064 TTGGGTTAGATAATT
1 TTGGGTTAGATAATT
49814079 TTATTTATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 24 0.48
45 26 0.52
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.52
Consensus pattern (45 bp):
TTGGGTTAGATAATTGGATAGACTTTAGTTTTAGTTTTAGTTGGG
Found at i:49816782 original size:25 final size:25
Alignment explanation
Indices: 49816748--49816795 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49816738 TTTTCAATAA
49816748 TTTAGAATTTAGTCCTTATATTTCT
1 TTTAGAATTTAGTCCTTATATTTCT
* * *
49816773 TTTATAATTTAGTTCTTTTATTT
1 TTTAGAATTTAGTCCTTATATTT
49816796 TTCTAATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.62
Consensus pattern (25 bp):
TTTAGAATTTAGTCCTTATATTTCT
Found at i:49840744 original size:11 final size:11
Alignment explanation
Indices: 49840728--49840758 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49840718 TTATAACTAG
49840728 TATATTAATTA
1 TATATTAATTA
49840739 TATATTAATTA
1 TATATTAATTA
*
49840750 TAAATTAAT
1 TATATTAAT
49840759 ACGACTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TATATTAATTA
Found at i:49844042 original size:39 final size:39
Alignment explanation
Indices: 49843988--49844066 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
49843978 GCCCAATGGC
49843988 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
1 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
49844027 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
1 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
49844066 T
1 T
49844067 AAAGTTTCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (39 bp):
TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
Found at i:49853897 original size:18 final size:19
Alignment explanation
Indices: 49853847--49853897 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
49853837 AAATTTACTG
*
49853847 ATTCAAATTCATATTCAGATA
1 ATTCAAA-TCA-ATACAGATA
*
49853868 ATTCAAA-AAATACAGAT-
1 ATTCAAATCAATACAGATA
49853885 ATTCAAATCAATA
1 ATTCAAATCAATA
49853898 TCATTCCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 1 0.04
21 7 0.27
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (19 bp):
ATTCAAATCAATACAGATA
Found at i:49871382 original size:81 final size:80
Alignment explanation
Indices: 49871233--49871395 Score: 193
Period size: 81 Copynumber: 2.0 Consensus size: 80
49871223 TCAAATGTGA
* * * * *
49871233 AGAAAATCTTAGAAAAGTCTATATAAACCAGTCTCTGTTACAGATCATATCCGACACTCACACTT
1 AGAAAATCTTAGAAAAGTCTATATAAACCAGTCCCGGTTACAGACCATATCCAACACTCACACCT
*
49871298 GAGTCTAAGTAACAT
66 GAGTCCAAGTAACAT
* ** * *
49871313 AGAAAATCTTAGAAAAGTCT-TAACTATACTGGTCCCGGTTGCAGACCATATTCAACACTCACAC
1 AGAAAATCTTAGAAAAGTCTAT-A-TAAACCAGTCCCGGTTACAGACCATATCCAACACTCACAC
*
49871377 CTGAGTCCGAGTAACAT
64 CTGAGTCCAAGTAACAT
49871394 AG
1 AG
49871396 TAGTTGAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 21 0.30
81 47 0.68
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (80 bp):
AGAAAATCTTAGAAAAGTCTATATAAACCAGTCCCGGTTACAGACCATATCCAACACTCACACCT
GAGTCCAAGTAACAT
Found at i:49874693 original size:22 final size:22
Alignment explanation
Indices: 49874667--49874716 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
49874657 CTAAAAATTA
49874667 CAAAATAATACAAAATAATCTT
1 CAAAATAATACAAAATAATCTT
* * *
49874689 CAAAAAAATATAAAATAATTTT
1 CAAAATAATACAAAATAATCTT
*
49874711 TAAAAT
1 CAAAAT
49874717 TCAAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (22 bp):
CAAAATAATACAAAATAATCTT
Found at i:49874722 original size:19 final size:19
Alignment explanation
Indices: 49874699--49874742 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
49874689 CAAAAAAATA
*
49874699 TAAAATAATTTTTAAAATTC
1 TAAAAT-ATTTATAAAATTC
49874719 -AAAATATTTATAAAATTC
1 TAAAATATTTATAAAATTC
49874737 TAAAAT
1 TAAAAT
49874743 TTATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAATATTTATAAAATTC
Found at i:49874732 original size:18 final size:18
Alignment explanation
Indices: 49874700--49874747 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
49874690 AAAAAAATAT
*
49874700 AAAATAATTTTTAAAATTC
1 AAAAT-ATTTATAAAATTC
49874719 AAAATATTTATAAAATTC
1 AAAATATTTATAAAATTC
*
49874737 TAAA-ATTTATA
1 AAAATATTTATA
49874748 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 7 0.26
18 15 0.56
19 5 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATATTTATAAAATTC
Found at i:49874778 original size:11 final size:10
Alignment explanation
Indices: 49874753--49874808 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
49874743 TTATATTTTT
49874753 TAAAAAATTA
1 TAAAAAATTA
*
49874763 TAAAAAATTC
1 TAAAAAATTA
49874773 TAAAAAAATATA
1 T-AAAAAAT-TA
*
49874785 TAAAGAATGT-
1 TAAAAAAT-TA
49874795 TAAAAAATTA
1 TAAAAAATTA
49874805 -AAAA
1 TAAAA
49874809 TTTTCTAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 5 0.13
10 17 0.45
11 14 0.37
12 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:49874778 original size:20 final size:20
Alignment explanation
Indices: 49874752--49874808 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
49874742 TTTATATTTT
49874752 TTAAAAAATTATAAAAAAT-
1 TTAAAAAATTATAAAAAATG
*
49874771 TCTAAAAAAATATATAAAGAATG
1 T-T-AAAAAAT-TATAAAAAATG
49874794 TTAAAAAATTA-AAAA
1 TTAAAAAATTATAAAA
49874809 TTTTCTAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 14 0.44
22 10 0.31
23 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAATTATAAAAAATG
Found at i:49886391 original size:17 final size:17
Alignment explanation
Indices: 49886369--49886420 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
49886359 ATGGAAACAT
49886369 AATCTT-CAAGGATATGC
1 AATCTTACAA-GATATGC
*
49886386 AATCTTAGATATGATATGC
1 AATCTTACA-A-GATATGC
49886405 AATCTTACAAGATATG
1 AATCTTACAAGATATG
49886421 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.40
18 2 0.07
19 16 0.53
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (17 bp):
AATCTTACAAGATATGC
Found at i:49888731 original size:6 final size:6
Alignment explanation
Indices: 49888705--49888733 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49888695 ATTTAATAAC
49888705 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
49888734 ATAACTACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:49892394 original size:9 final size:9
Alignment explanation
Indices: 49892382--49892414 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
49892372 TTCGGTTAAA
49892382 AATTAACCG
1 AATTAACCG
*
49892391 AATTACCCG
1 AATTAACCG
49892400 AATTAACCG
1 AATTAACCG
49892409 AATTAA
1 AATTAA
49892415 ATCACTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:49895882 original size:3 final size:3
Alignment explanation
Indices: 49895852--49895945 Score: 77
Period size: 3 Copynumber: 31.7 Consensus size: 3
49895842 GTATAAGGAA
* * * * *
49895852 AAT AAC AAT AAT ATT AAT ACT AAC AAT AAT AGT AAT AAT AAT AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
49895898 -AT AAT AAT AAT AAT AGT AA- ACT AAT AAT AAT ATTT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
49895941 AAT AA
1 AAT AA
49895946 CATTTCTAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
2 4 0.06
3 63 0.90
4 3 0.04
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49897756 original size:88 final size:88
Alignment explanation
Indices: 49897635--49898066 Score: 681
Period size: 88 Copynumber: 4.9 Consensus size: 88
49897625 TCTTTGATCT
* * * *
49897635 GCTCCA-CTACAACCGAGGGAGGCAAGGCTTGTGTCTTTGATCTGCTTCGCTGTCAATGAAGGAA
1 GCTCCATC-ACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAA
*
49897699 GGCAAGATCTGTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* * *
49897723 GCTCCATCACAACTGAGAGAGGCAAGGTCTGTGTCTTCGACCTGCTTCACTGTCAATGCAA-GAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATG-AAGGAA
49897787 GGCAAGATCTTTTGTCTTCAACCA
65 GGCAAGATCTTTTGTCTTCAACCA
* *
49897811 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGTAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
49897876 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
49897899 GCTCCATCACAAACGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
*
49897964 ACAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* *
49897987 GCTCCATCACAACCGAGAGAGCCAAGGTTTGTGTCTTCAACCTGCTTCGCTGTCAAT-ACAGGAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGA-AGGAA
49898051 GGCAAGATCTTTTGTC
65 GGCAAGATCTTTTGTC
49898067 AAATTAGTGA
Statistics
Matches: 320, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
87 1 0.00
88 316 0.99
89 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (88 bp):
GCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
GCAAGATCTTTTGTCTTCAACCA
Found at i:49906463 original size:19 final size:19
Alignment explanation
Indices: 49906401--49906458 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
49906391 ATTTGTGTTG
*
49906401 TATAA-AATTTTATTAGTTT
1 TATAATAATTTTA-TAATTT
*
49906420 TTTAATAATTTTATAATTT
1 TATAATAATTTTATAATTT
49906439 TATAAT-ATTTTAT-ATTT
1 TATAATAATTTTATAATTT
49906456 TAT
1 TAT
49906459 GTAATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.20
18 7 0.20
19 14 0.40
20 7 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATAATAATTTTATAATTT
Found at i:49913602 original size:24 final size:24
Alignment explanation
Indices: 49913573--49913639 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
49913563 CGGTGCTGAA
49913573 CTCATTGATGGGGTTGGTGTAGGAG
1 CTCATTGATGGGGTTGGTG-AGGAG
* * * *
49913598 C-CATTGGTGAAGG-AGGTGATGAG
1 CTCATTGATG-GGGTTGGTGAGGAG
49913621 CTCATTGATGGGGTTGGTG
1 CTCATTGATGGGGTTGGTG
49913640 CCATTGATGG
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
23 7 0.22
24 22 0.69
25 3 0.09
ACGTcount: A:0.18, C:0.09, G:0.43, T:0.30
Consensus pattern (24 bp):
CTCATTGATGGGGTTGGTGAGGAG
Found at i:49917692 original size:21 final size:21
Alignment explanation
Indices: 49917666--49917716 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
49917656 CTCAAAATCT
*
49917666 TTTATTTTAAAATATTTTTTA
1 TTTATTTTAAAATATTATTTA
* *
49917687 TTTATTATGAAATATTATTTA
1 TTTATTTTAAAATATTATTTA
49917708 TTTAATTTT
1 TTT-ATTTT
49917717 TATAATATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTTTAAAATATTATTTA
Found at i:49919907 original size:6 final size:6
Alignment explanation
Indices: 49919900--49919940 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
49919890 AAACGAAAGC
* * *
49919900 TGAAGC TGAAGT TGAAGG TGAAGG TGAAGG TGAAGG AGAAG
1 TGAAGG TGAAGG TGAAGG TGAAGG TGAAGG TGAAGG TGAAG
49919941 ATGAGGCTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.44, T:0.17
Consensus pattern (6 bp):
TGAAGG
Found at i:49920436 original size:69 final size:69
Alignment explanation
Indices: 49920338--49920501 Score: 247
Period size: 69 Copynumber: 2.4 Consensus size: 69
49920328 AGTTGAATAA
* * * *
49920338 TTTACTAAATAGAGTACCTTTTCACCCAATTTTTATTAGATGGTTGAGTCATTTGATGACAGAGC
1 TTTACTAAAGAGAGGACC-TTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGC
*
49920403 TTGAC
65 TTAAC
*
49920408 TTTATTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
1 TTTACTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
49920473 TAAC
66 TAAC
* *
49920477 TTTACTAAAGATAGGATCTTTCACC
1 TTTACTAAAGAGAGGACCTTTCACC
49920502 TGATGTACCC
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
69 70 0.82
70 15 0.18
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (69 bp):
TTTACTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
TAAC
Found at i:49921045 original size:342 final size:333
Alignment explanation
Indices: 49920408--49921048 Score: 847
Period size: 342 Copynumber: 1.9 Consensus size: 333
49920398 AGAGCTTGAC
* * *
49920408 TTTATTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
1 TTTACTAAAGAGAGGACCTTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAAAGAGCT
* * * *
49920473 TAACTTTACTAAAGATAGGATCTTTCACCTGATGTACCCCTCGGCTTGTGAACTCGGGCTTTTGG
66 TAACTTTACTAAAGAGAGGACCTTTCACCTGATGTACCCCTCGGCCTATGAACTCGGGCTTTTGG
* * *
49920538 TAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCCCGTGAATTCTTCAATTTGCACATGTTTCTG
131 TAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCCAGTGAACTCCTCAATTTGCACATGTTTCTG
**
49920603 TCTGCTCAGGCACTCCGAGTTGCTCTCACTCTATGAACCTGCTAAGGCTTTCGGTAGAGTAGAGA
196 TCTGCTCAGGCACTCCGAGTTGCTCTCACTCTATGAACCTGCTAAGGCTTTCGCCAGAGTAGAGA
***
49920668 GACAAAACCCCGGCAAGGGATAATACCAAACTTGTTGAGGGTCTAACCCATGGGAGTCGAGGAAG
261 GACAAAACCCAAACAAGGGATAATACCAAACTTGTTGAGGGTCTAACCCATGGGAGTCGAGGAAG
49920733 TTGAATAA
326 TTGAATAA
*
49920741 TTTACTAAAGAGAGGACCTTTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAGAGAGC
1 TTTACTAAAGAGAGGACC-TTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAAAGAGC
*
49920806 TTAACTTTACTAAAGAGAGGACCTTTCATCCAATTGGTTGATGTACCCCTTGGCCTATGAACTCG
65 TTAACTTTACTAAAGAGAGGACCTTTCA-CC-------TGATGTACCCCTCGGCCTATGAACTCG
* * * * **
49920871 GTCTTTTGGTGGAGTCGAGGTTAGCTCAATTTGTATCATGCTCCTAG-GAACTCCTCAATTTGTG
122 GGCTTTTGGTAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCC-AGTGAACTCCTCAATTTGCA
* * * * * * * *
49920935 TATGTTTTTGTCTGTTCAGGCACTCCGAG-TGTCTGTCACTTTGTGAACCTGTTAAGG-TTCTTG
186 CATGTTTCTGTCTGCTCAGGCACTCCGAGTTG-CTCTCACTCTATGAACCTGCTAAGGCTT-TCG
* **
49920998 CCAGAGTAGAGAGACAAAACCCAAACAAGGGATAATATCGGACTTGTTGAG
249 CCAGAGTAGAGAGACAAAACCCAAACAAGGGATAATACCAAACTTGTTGAG
49921049 ACTTGACAAA
Statistics
Matches: 262, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
333 17 0.06
334 69 0.26
335 2 0.01
341 4 0.02
342 169 0.65
343 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (333 bp):
TTTACTAAAGAGAGGACCTTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAAAGAGCT
TAACTTTACTAAAGAGAGGACCTTTCACCTGATGTACCCCTCGGCCTATGAACTCGGGCTTTTGG
TAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCCAGTGAACTCCTCAATTTGCACATGTTTCTG
TCTGCTCAGGCACTCCGAGTTGCTCTCACTCTATGAACCTGCTAAGGCTTTCGCCAGAGTAGAGA
GACAAAACCCAAACAAGGGATAATACCAAACTTGTTGAGGGTCTAACCCATGGGAGTCGAGGAAG
TTGAATAA
Found at i:49925171 original size:135 final size:135
Alignment explanation
Indices: 49924914--49925181 Score: 373
Period size: 135 Copynumber: 2.0 Consensus size: 135
49924904 GGGAAAGTTC
* * ** * *
49924914 AAAGTTCCATGATTCAGTTCTATTGTTATATGATGAACTAGGGGAAGGGAAAAAATATGGGTGTA
1 AAAGTTCCATGATTCAATGCTACGGTTATATGATGAACTAGGGGAAGGAAAAAAATATGGGTGCA
* *
49924979 AAGGATCGGTTGTGGTGTTGAATTTCAGGTTTTGATTGGAGGAAGCAATGGAAATGTATGTATGT
66 AAAGATCGGTTGTGGTGTTGAATTTCAGGTTTTGATTGGAGGAAACAATGGAAATGTATGTATGT
49925044 ATGTG
131 ATGTG
*
49925049 AAAGTT-CATGATTCAATGCTACGGTTATGTGATGAA-TCAGGGGAAGGAAAAAAAATATGGGTG
1 AAAGTTCCATGATTCAATGCTACGGTTATATGATGAACT-AGGGGAAGG-AAAAAAATATGGGTG
* *
49925112 CAAAAGATTGGTT-T-GTGTTGAATTTCAGGTTTTGATTGGGAAGGAAACAATGGAGATGTATGT
64 CAAAAGATCGGTTGTGGTGTTGAATTTCAGGTTTTGATT-GG-AGGAAACAATGGAAATGTATGT
49925175 ATGTATG
127 ATGTATG
49925182 CATGTATGTA
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
133 24 0.20
134 37 0.31
135 57 0.48
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (135 bp):
AAAGTTCCATGATTCAATGCTACGGTTATATGATGAACTAGGGGAAGGAAAAAAATATGGGTGCA
AAAGATCGGTTGTGGTGTTGAATTTCAGGTTTTGATTGGAGGAAACAATGGAAATGTATGTATGT
ATGTG
Found at i:49925174 original size:4 final size:4
Alignment explanation
Indices: 49925167--49925209 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
49925157 AACAATGGAG
* * *
49925167 ATGT ATGT ATGT ATGC ATGT ATGT ATAT ATGC ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
49925210 GTTCATTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:49925188 original size:16 final size:16
Alignment explanation
Indices: 49925167--49925209 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
49925157 AACAATGGAG
49925167 ATGTATGTATGTATGC
1 ATGTATGTATGTATGC
*
49925183 ATGTATGTATATATGC
1 ATGTATGTATGTATGC
49925199 ATGTATGTATG
1 ATGTATGTATG
49925210 GTTCATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (16 bp):
ATGTATGTATGTATGC
Found at i:49928630 original size:3 final size:3
Alignment explanation
Indices: 49928603--49928672 Score: 83
Period size: 3 Copynumber: 23.0 Consensus size: 3
49928593 GTGCAATTTG
49928603 TAA TAA -AA TACA TAAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
49928650 TAA TAGA TAA TAA -AA TAA -AA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA
49928673 ATAAATAGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.10
3 43 0.72
4 10 0.17
5 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:49928720 original size:26 final size:26
Alignment explanation
Indices: 49928691--49928758 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
49928681 ATGCCCGATA
*
49928691 AAAAAATAAAAAAATATTAATATA-AC
1 AAAAAATAAAAAAATAATAA-ATAGAC
* * *
49928717 AAAAAGTAAAGAAATAATAAATAGGC
1 AAAAAATAAAAAAATAATAAATAGAC
49928743 AAATAAATAAATAAAA
1 AAA-AAATAAA-AAAA
49928759 GAATTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.09
26 21 0.64
27 6 0.18
28 3 0.09
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (26 bp):
AAAAAATAAAAAAATAATAAATAGAC
Found at i:49933127 original size:23 final size:23
Alignment explanation
Indices: 49933101--49933222 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
49933091 ATAAGTGCCA
49933101 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
49933124 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49933147 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49933170 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49933193 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
49933216 CACTGAT
1 CACTGAT
49933223 CAATAACACT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:49933168 original size:46 final size:46
Alignment explanation
Indices: 49933101--49933222 Score: 226
Period size: 46 Copynumber: 2.7 Consensus size: 46
49933091 ATAAGTGCCA
*
49933101 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
*
49933147 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
49933193 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
49933223 CAATAACACT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:49933474 original size:18 final size:17
Alignment explanation
Indices: 49933448--49933486 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
49933438 ATTTTCCTTC
49933448 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
49933465 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
49933483 CACA
1 CACA
49933487 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:49934943 original size:29 final size:28
Alignment explanation
Indices: 49934901--49934959 Score: 109
Period size: 29 Copynumber: 2.1 Consensus size: 28
49934891 GTTATGGTAG
49934901 TGTGAAGACTTAAATAATTGATTGTACTA
1 TGTGAAGACTTAAATAATTGATTG-ACTA
49934930 TGTGAAGACTTAAATAATTGATTGACTA
1 TGTGAAGACTTAAATAATTGATTGACTA
49934958 TG
1 TG
49934960 ACAGAGATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (28 bp):
TGTGAAGACTTAAATAATTGATTGACTA
Found at i:49938366 original size:42 final size:43
Alignment explanation
Indices: 49938319--49938402 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
49938309 GTTGTTAAAG
* * *
49938319 AATGCTTTCATTTTAGTTAC-CAAGTATTAAATCCTTAACGAC
1 AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGAC
49938361 AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGA
1 AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGA
49938403 TTATTTTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 19 0.50
43 19 0.50
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.36
Consensus pattern (43 bp):
AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGAC
Found at i:49943274 original size:36 final size:36
Alignment explanation
Indices: 49943234--49943305 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
49943224 CTGGTCATTG
49943234 ATTGCTATTGGATGTTAAATTGTTTCAAGTAAAAGT
1 ATTGCTATTGGATGTTAAATTGTTTCAAGTAAAAGT
49943270 ATTGCTATTGGATGTTAAATTGTTTCAAGTAAAAGT
1 ATTGCTATTGGATGTTAAATTGTTTCAAGTAAAAGT
49943306 GTTAAGGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (36 bp):
ATTGCTATTGGATGTTAAATTGTTTCAAGTAAAAGT
Found at i:49953291 original size:16 final size:16
Alignment explanation
Indices: 49953270--49953302 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49953260 TACATCAACC
49953270 TATACAAGTCTTTCAA
1 TATACAAGTCTTTCAA
49953286 TATACAAGTCTTTCAA
1 TATACAAGTCTTTCAA
49953302 T
1 T
49953303 TATATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (16 bp):
TATACAAGTCTTTCAA
Found at i:49957496 original size:28 final size:28
Alignment explanation
Indices: 49957441--49957510 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
49957431 ATGAGGCAAG
*
49957441 TTAAGTAAAATTTCAAAAAATTTAGGGGT
1 TTAA-TAAAATTTCAAAAAATTTAGGGGC
*
49957470 TTAATTAAAATTTTAAAAAA-TTAGGGGC
1 TTAA-TAAAATTTCAAAAAATTTAGGGGC
49957498 TTAATAAGAATTT
1 TTAATAA-AATTT
49957511 AAATTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 16 0.43
29 18 0.49
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (28 bp):
TTAATAAAATTTCAAAAAATTTAGGGGC
Found at i:49972019 original size:18 final size:18
Alignment explanation
Indices: 49971998--49972071 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
49971988 AGCAATACTA
*
49971998 TATACGTGAATAGTGCCG
1 TATACGTGAATAGTACCG
*
49972016 TATACGTGAATAGTACTG
1 TATACGTGAATAGTACCG
* **
49972034 TATATGTGAATAGTGTCG
1 TATACGTGAATAGTACCG
49972052 TATACGTGAATAGTACCG
1 TATACGTGAATAGTACCG
49972070 TA
1 TA
49972072 AACGGTAGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (18 bp):
TATACGTGAATAGTACCG
Found at i:49972043 original size:36 final size:36
Alignment explanation
Indices: 49971979--49972067 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
49971969 CCCAACTACT
** *
49971979 GTATACGTGAGCAATACTATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
* * *
49972015 GTATACGTGAATAGTACTGTATATGTGAATAGTGTC
1 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
49972051 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
49972068 CGTAAACGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (36 bp):
GTATACGTGAATAGTACTATATACGTGAATAGTGCC
Found at i:49982039 original size:16 final size:15
Alignment explanation
Indices: 49982004--49982033 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49981994 GATTAAATTG
*
49982004 AAAATCATTTTTTTA
1 AAAATCAATTTTTTA
49982019 AAAATCAATTTTTTA
1 AAAATCAATTTTTTA
49982034 TTAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATCAATTTTTTA
Found at i:49983578 original size:18 final size:18
Alignment explanation
Indices: 49983547--49983586 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49983537 ATAAAGTTCT
49983547 TAAATATATAAAGGTATA
1 TAAATATATAAAGGTATA
49983565 TAAATCATAT-AAGGTATA
1 TAAAT-ATATAAAGGTATA
49983583 -AAAT
1 TAAAT
49983587 GTAGTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (18 bp):
TAAATATATAAAGGTATA
Found at i:49992172 original size:22 final size:22
Alignment explanation
Indices: 49992144--49992185 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49992134 GTGTTCGTGC
49992144 TATTTT-ATATTAAAAATTATAA
1 TATTTTAATA-TAAAAATTATAA
*
49992166 TATTTTAATATAATAATTAT
1 TATTTTAATATAAAAATTAT
49992186 TTTTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTTAATATAAAAATTATAA
Found at i:49995261 original size:22 final size:23
Alignment explanation
Indices: 49995234--49995278 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
49995224 AGGTATATAC
49995234 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
49995256 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
49995279 TATATCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:49995288 original size:16 final size:16
Alignment explanation
Indices: 49995267--49995297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49995257 AATCATATCT
49995267 TCTAAGATTACATATA
1 TCTAAGATTACATATA
*
49995283 TCTAAGATTGCATAT
1 TCTAAGATTACATAT
49995298 CCTCAAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (16 bp):
TCTAAGATTACATATA
Found at i:49997844 original size:11 final size:11
Alignment explanation
Indices: 49997828--49997854 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49997818 TTGACCTTGT
49997828 TTAATATAATA
1 TTAATATAATA
49997839 TTAATATAATA
1 TTAATATAATA
49997850 TTAAT
1 TTAAT
49997855 TGTTCAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAATATAATA
Found at i:50004085 original size:13 final size:13
Alignment explanation
Indices: 50004067--50004091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50004057 AATCTAAACC
50004067 AAATCCAAAAGTA
1 AAATCCAAAAGTA
50004080 AAATCCAAAAGT
1 AAATCCAAAAGT
50004092 CCAGAGAGTC
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (13 bp):
AAATCCAAAAGTA
Found at i:50010979 original size:13 final size:13
Alignment explanation
Indices: 50010957--50010999 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
50010947 ACTTATTTAA
50010957 TAAT-ATAATATC
1 TAATAATAATATC
*
50010969 AAATAATAATAT-
1 TAATAATAATATC
50010981 TAATAATAAATATC
1 TAATAAT-AATATC
50010995 TAATA
1 TAATA
50011000 TTTTAATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 12 0.46
14 5 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATAATAATATC
Found at i:50011487 original size:30 final size:30
Alignment explanation
Indices: 50011424--50011525 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
50011414 TAAAAAATAA
* * *
50011424 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCTTAAACTTTCT-TT
50011454 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
* * *
50011484 AAATTTCACTTAGACCCTTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
50011514 AAATTTCATTTT
1 AAATTTCATTTT
50011526 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCTTT
Found at i:50012892 original size:16 final size:16
Alignment explanation
Indices: 50012844--50012892 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
50012834 TTTCTTTCTA
*
50012844 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
50012860 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
50012877 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
50012893 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:50012921 original size:19 final size:20
Alignment explanation
Indices: 50012891--50012928 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
50012881 ATTCGTGTTT
50012891 TCGTGTTTTCAAAAAAAATC
1 TCGTGTTTTCAAAAAAAATC
50012911 TCGTG-TTTCAAAAAAAAT
1 TCGTGTTTTCAAAAAAAAT
50012929 AAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAAAATC
Found at i:50012924 original size:1 final size:1
Alignment explanation
Indices: 50012920--50012970 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
50012910 CTCGTGTTTC
* * * * *
50012920 AAAAAAAATAAAAAAATAAAAAATAAAAAAAATAAAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
50012971 TTTCGTGAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (1 bp):
A
Found at i:50012934 original size:9 final size:9
Alignment explanation
Indices: 50012920--50012969 Score: 79
Period size: 9 Copynumber: 5.9 Consensus size: 9
50012910 CTCGTGTTTC
50012920 AAAAAAAAT
1 AAAAAAAAT
50012929 -AAAAAAAT
1 AAAAAAAAT
50012937 --AAAAAAT
1 AAAAAAAAT
50012944 AAAAAAAAT
1 AAAAAAAAT
50012953 AAAAAAAAT
1 AAAAAAAAT
50012962 AAAAAAAA
1 AAAAAAAA
50012970 ATTTCGTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.18
8 8 0.21
9 24 0.62
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:50012948 original size:25 final size:25
Alignment explanation
Indices: 50012920--50012967 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
50012910 CTCGTGTTTC
50012920 AAAAAAAAT-AAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAAATAAAAAAT
50012944 AAAAAAAATAAAAAAAATAAAAAA
1 AAAAAAAATAAAAAAAATAAAAAA
50012968 AAATTTCGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (25 bp):
AAAAAAAATAAAAAAAATAAAAAAT
Found at i:50013058 original size:18 final size:18
Alignment explanation
Indices: 50013035--50013468 Score: 202
Period size: 18 Copynumber: 25.0 Consensus size: 18
50013025 AAATTTTGTG
50013035 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
50013053 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
50013071 TCTTT-GTGTTTTCAGAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
50013089 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
50013106 TTTTCGTGTTTAAAAAAAA
1 TTTTCGTGTTT-TCAAAAA
*
50013125 TTTTACGTGTTTTCACAAA
1 TTTT-CGTGTTTTCAAAAA
* *
50013144 TTTTCATG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
50013161 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
50013179 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
50013195 TTTCCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * **
50013213 TTCTCGCGTTTAAAAAAA
1 TTTTCGTGTTTTCAAAAA
**
50013231 AATTCGTG-TTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
50013249 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
50013263 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
50013278 ---TCGTG-TTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
50013293 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
50013310 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
* *
50013327 TTTCCCTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
50013344 TTCCCGTG-TTTCAAAAAAAA
1 TTTTCGTGTTTTC---AAAAA
***
50013364 AAGTCGTGTTTT-AAGAAA
1 TTTTCGTGTTTTCAA-AAA
* *
50013382 ATTTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
50013401 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
50013418 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
50013434 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
50013452 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
50013469 AAAACTTTCG
Statistics
Matches: 314, Mismatches: 66, Indels: 73
0.69 0.15 0.16
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 6 0.02
15 6 0.02
16 21 0.07
17 104 0.33
18 117 0.37
19 32 0.10
20 18 0.06
21 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:50013116 original size:17 final size:17
Alignment explanation
Indices: 50013035--50013468 Score: 190
Period size: 17 Copynumber: 25.0 Consensus size: 17
50013025 AAATTTTGTG
50013035 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
50013053 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
*
50013071 TCTTT-GTGTTTTCAGAAA
1 T-TTTCGTG-TTTCAAAAA
* * *
50013089 TTCTGGCGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
*
50013106 TTTTCGTGTTTAAAAAAAA
1 TTTTCGTGTTT--CAAAAA
*
50013125 TTTTACGTGTTTTCACAAA
1 TTTT-CGTG-TTTCAAAAA
* *
50013144 TTTTCATGTTTCACAAA
1 TTTTCGTGTTTCAAAAA
*
50013161 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
50013179 -CTCCAGTGTTTC-AAAG
1 TTTTC-GTGTTTCAAAAA
* *
50013195 TTTCCATGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
50013213 TTCTCGCGTTTAAAAAAA
1 TTTTCGTGTTT-CAAAAA
**
50013231 AATTCGTGTTTCAAAATA
1 TTTTCGTGTTTCAAAA-A
* **
50013249 TTCTCGCATTTC---AA
1 TTTTCGTGTTTCAAAAA
***
50013263 TTTT--TGTTTTTTAAA
1 TTTTCGTGTTTCAAAAA
50013278 ---TCGTGTTTCAAAAAA
1 TTTTCGTGTTTC-AAAAA
* * *
50013293 ATGTCGTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
*
50013310 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
* * *
50013327 TTTCCCTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
**
50013344 TTCCCGTGTTTCAAAAAAAA
1 TTTTCGTGTTTC---AAAAA
*** *
50013364 AAGTCGTGTTTTAAGAAA
1 TTTTCGTGTTTCAA-AAA
* *
50013382 ATTTCGTTTTTTCTAAAAA
1 TTTTCG-TGTTTC-AAAAA
*
50013401 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
*
50013418 TTTTCGTGTTT-ACAAA
1 TTTTCGTGTTTCAAAAA
*
50013434 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* *
50013452 TTCTCGTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
50013469 AAAACTTTCG
Statistics
Matches: 314, Mismatches: 72, Indels: 61
0.70 0.16 0.14
Matches are distributed among these distances:
12 4 0.01
14 9 0.03
15 6 0.02
16 15 0.05
17 120 0.38
18 107 0.34
19 32 0.10
20 18 0.06
21 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTTCGTGTTTCAAAAA
Found at i:50013178 original size:55 final size:54
Alignment explanation
Indices: 50013035--50013178 Score: 166
Period size: 55 Copynumber: 2.6 Consensus size: 54
50013025 AAATTTTGTG
*
50013035 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTC-AAAAATCTTTGTGTTTTCAGAAA
1 TTTTCGTG-TTTCAAAAATTTTCGTGTTTTCAAAAAATCTTTGTGTTTTCACAAA
* * * **
50013089 TTCTGGCGTTTCAAAAATTTTCGTGTTTAAAAAAAAT-TTTACGTGTTTTCACAAA
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAATCTTT--GTGTTTTCACAAA
* * *
50013144 TTTTCATGTTTCACAAATTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAA
50013179 CTCCAGTGTT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
53 23 0.32
54 11 0.15
55 39 0.53
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (54 bp):
TTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAATCTTTGTGTTTTCACAAA
Found at i:50013188 original size:73 final size:72
Alignment explanation
Indices: 50013048--50013189 Score: 164
Period size: 73 Copynumber: 2.0 Consensus size: 72
50013038 TCGTGTTTTC
* * * * *
50013048 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAGAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTTCGTGTTTTCAAAAATCTTTATGTTTTCACAAATTCTCGCGTTTCAAAAATCTCCGT
50013113 GTTTAAA
66 GTTTAAA
* *
50013120 AAAAATTTTACGTGTTTTCACAAAT-TTTCATG-TTTCACAAATTCTCGTGTTTTCAAAAA-CTC
1 AAAAATTTT-CGTGTTTTCAAAAATCTTT-ATGTTTTCACAAATTCTCGCG-TTTCAAAAATCTC
50013182 CAGTGTTT
63 C-GTGTTT
50013190 CAAAGTTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
72 28 0.47
73 31 0.53
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (72 bp):
AAAAATTTTCGTGTTTTCAAAAATCTTTATGTTTTCACAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAA
Found at i:50013482 original size:91 final size:89
Alignment explanation
Indices: 50013278--50013470 Score: 232
Period size: 91 Copynumber: 2.2 Consensus size: 89
50013268 GTTTTTTAAA
* * *
50013278 TCGTGTTTCAAAAAAATGTCG-TGTTT-TAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAA
1 TCGTGTTTTAAAAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAA
*
50013341 AAATTCCCGTGTTTCAAAAAAAAAAG
66 AAATTCCCGTGTTTC--AAAAAAAAC
* * * *
50013367 TCGTGTTTTAAGAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTTCGTG-TTTAC
1 TCGTGTTTTAAAAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAA
* **
50013431 AAATTCTCGTGTTTTC-AAAAATTC
66 AAATTCCCGTG-TTTCAAAAAAAAC
50013455 TCGTGTTTTAAAAAAA
1 TCGTGTTTTAAAAAAA
50013471 AACTTTCGTT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
88 20 0.22
89 18 0.20
90 18 0.20
91 33 0.37
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (89 bp):
TCGTGTTTTAAAAAAATTTCGTTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAA
AAATTCCCGTGTTTCAAAAAAAAC
Found at i:50025065 original size:35 final size:37
Alignment explanation
Indices: 50025019--50025095 Score: 140
Period size: 35 Copynumber: 2.1 Consensus size: 37
50025009 ACAAACATGC
50025019 TTAAGGAGCACTGCATAATCATGT-GCAT-AAAGCAT
1 TTAAGGAGCACTGCATAATCATGTAGCATAAAAGCAT
50025054 TTAAGGAGCACTGCATAATCATGTAGCATAAAAGCAT
1 TTAAGGAGCACTGCATAATCATGTAGCATAAAAGCAT
50025091 TTAAG
1 TTAAG
50025096 ACAAACTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 24 0.60
36 4 0.10
37 12 0.30
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (37 bp):
TTAAGGAGCACTGCATAATCATGTAGCATAAAAGCAT
Found at i:50025501 original size:72 final size:72
Alignment explanation
Indices: 50025266--50025947 Score: 1014
Period size: 72 Copynumber: 9.4 Consensus size: 72
50025256 AAGGGAAATA
* * *
50025266 AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTTTGTTTTC
50025331 AAAA-TC
66 AAAATTC
* ** * * *
50025337 AACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGT-ATTTTCAATTTTTGTGTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AA-TTTT-TGTT
50025401 TTCAAAATTC
63 TTCAAAATTC
50025411 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTTTGTTTTC
50025476 AAAATTC
66 AAAATTC
* *
50025483 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTTTGTTTTC
50025548 AAAATTC
66 AAAATTC
* *
50025555 AACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT-ATTTTCAATTTTTGCTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTTTTG-TTT
50025619 TCAAAATTC
64 TCAAAATTC
* * * * *
50025628 AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTTTGTTTTC
50025693 AAAATTC
66 AAAATTC
*
50025700 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT-ATTTTCAATTTTTGCTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTTTTG-TTT
50025764 TCAAAATTC
64 TCAAAATTC
* *
50025773 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTTTGTTTTC
*
50025838 AAAATTT
66 AAAATTC
*
50025845 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTGTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTTTTG-TTT
*
50025909 TCAAAAATC
64 TCAAAATTC
**
50025918 AACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AACTCATATTGCGAGAAATGAGTTGAGCCT
50025948 TTTAATTTCT
Statistics
Matches: 555, Mismatches: 43, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
70 4 0.01
71 53 0.10
72 264 0.48
73 177 0.32
74 52 0.09
75 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (72 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTAATTTTTGTTTTC
AAAATTC
Found at i:50025641 original size:217 final size:215
Alignment explanation
Indices: 50025266--50025947 Score: 1062
Period size: 217 Copynumber: 3.1 Consensus size: 215
50025256 AAGGGAAATA
* *
50025266 AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT-TTGTTTTC
* ** * * *
50025331 AAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATTTT
65 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TTT
50025395 TGTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
129 T-TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
*
50025460 TTTAATTTTTGTTTTCAAAATTC
193 TTTAATTTCTGTTTTCAAAATTC
*
50025483 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-TGTTTTC
* *
50025548 AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTT
65 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
* * *
50025613 TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATT
130 TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
*
50025678 TCAATTTCTGTTTTCAAAATTC
194 TTAATTTCTGTTTTCAAAATTC
*
50025700 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTTTGCTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TTTTG-TTTT
*
50025765 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
64 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
* *
50025830 CTGTTTTCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATT
129 TTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
*
50025894 TTCAATTTCTGTTTTTCAAAAATC
194 TT-AATTTCTG-TTTTCAAAATTC
**
50025918 AACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AACTCATATTGCGAGAAATGAGTTGAGCCT
50025948 TTTAATTTCT
Statistics
Matches: 428, Mismatches: 30, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
216 7 0.02
217 263 0.61
218 158 0.37
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (215 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTGTTTTCA
AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTT
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT
AATTTCTGTTTTCAAAATTC
Found at i:50025690 original size:145 final size:144
Alignment explanation
Indices: 50025266--50025947 Score: 1098
Period size: 145 Copynumber: 4.7 Consensus size: 144
50025256 AAGGGAAATA
* * *
50025266 AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTC
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGTTTTC
* ** * * *
50025331 AAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATTTT
66 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA--TT
*
50025395 TGTGTTTTCAAAATTC
129 TCTGTTTTCAAAATTC
50025411 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTTTTGTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTTTGTTTT
*
50025475 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
65 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
50025540 CTGTTTTCAAAATTC
130 CTGTTTTCAAAATTC
* *
50025555 AACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTTTGCTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTG-TTTT
* *
50025620 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTT
65 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
50025685 CTGTTTTCAAAATTC
130 CTGTTTTCAAAATTC
*
50025700 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTTTGCTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTG-TTTT
*
50025765 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
65 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
*
50025830 CTGTTTTCAAAATTT
130 CTGTTTTCAAAATTC
*
50025845 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTG-TTTT
* **
50025910 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
50025948 TTTAATTTCT
Statistics
Matches: 507, Mismatches: 26, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
143 5 0.01
144 69 0.14
145 379 0.75
146 54 0.11
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (144 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGTTTTC
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAAAATTC
Found at i:50025957 original size:54 final size:55
Alignment explanation
Indices: 50025892--50026157 Score: 378
Period size: 54 Copynumber: 5.0 Consensus size: 55
50025882 CGTTGAGGTA
50025892 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
50025947 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT--G-C
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
**
50025998 TTTT-AGCTTC--TTTTTC-AAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
50026048 TTTTTCAA-TTCTG-TATTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
50026101 TTTTGCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT-CAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
50026156 TT
1 TT
50026158 GGTTCACGTG
Statistics
Matches: 194, Mismatches: 6, Indels: 22
0.87 0.03 0.10
Matches are distributed among these distances:
47 25 0.13
48 4 0.02
49 7 0.04
50 1 0.01
51 16 0.08
52 14 0.07
53 33 0.17
54 54 0.28
55 40 0.21
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (55 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:50026490 original size:30 final size:30
Alignment explanation
Indices: 50026427--50026528 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
50026417 TTAAAAATAA
* * *
50026427 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCTTAAACTTTCT-TT
50026457 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
* * *
50026487 AAATTTCACTTAGACCCTTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
50026517 AAATTTCATTTT
1 AAATTTCATTTT
50026529 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCTTT
Found at i:50027881 original size:16 final size:16
Alignment explanation
Indices: 50027834--50027881 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
50027824 TTTCTTTCTA
*
50027834 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
50027850 AAAAATTCCGTG-TTTC
1 AAAAATT-CGTGTTTTC
50027866 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
50027882 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:50027910 original size:19 final size:20
Alignment explanation
Indices: 50027880--50027917 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
50027870 ATTCGTGTTT
50027880 TCGTGTTTTCAAAAAAAATC
1 TCGTGTTTTCAAAAAAAATC
50027900 TCGTG-TTTCAAAAAAAAT
1 TCGTGTTTTCAAAAAAAAT
50027918 AAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (20 bp):
TCGTGTTTTCAAAAAAAATC
Done.