Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 303 of 362
Found at i:101644553 original size:3 final size:3
Alignment explanation
Indices: 101644547--101644597 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
101644537 CTAATAACAA
101644547 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
101644594 AAG A
1 AAG A
101644598 GACTGTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:101646047 original size:20 final size:20
Alignment explanation
Indices: 101646022--101646059 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101646012 TTGTCATTTT
101646022 TTGAAAGTT-GAGTGACTGAA
1 TTGAAA-TTAGAGTGACTGAA
101646042 TTGAAATTAGAGTGACTG
1 TTGAAATTAGAGTGACTG
101646060 TTTTGTCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (20 bp):
TTGAAATTAGAGTGACTGAA
Found at i:101648889 original size:33 final size:33
Alignment explanation
Indices: 101648840--101648955 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
101648830 ATAGGCTTTT
* * *
101648840 CCTTTTCTAGTTGTACACTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
101648873 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
101648906 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
101648939 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
101648956 ATATAGTGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
32 7 0.10
33 63 0.90
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:101648975 original size:32 final size:32
Alignment explanation
Indices: 101648867--101649084 Score: 168
Period size: 33 Copynumber: 6.7 Consensus size: 32
101648857 CTCGAGGTGC
* * *
101648867 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTAT
** * * **
101648900 ACATACCCTTTTCAATTTGTACACTCAAAGTGC
1 ACATTTCCTTTTCAA-GTGTACACACAAAGTAT
** * * *
101648933 ACATAACCTTTTCAAGTGTACACATATAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTAT
* * *
101648965 ACCTTTCCTTTTCAAGCAGTATACACAAAGTAT
1 ACATTTCCTTTTCAAG-TGTACACACAAAGTAT
* *
101648998 ACCTTTCCTTTTCATA-TGGTATACACAAAGTAT
1 ACATTTCCTTTTCA-AGT-GTACACACAAAGTAT
* *
101649031 ACATTTCCTTTCCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTAT
**
101649063 ACATAACCTTTTCAAGTTGTAC
1 ACATTTCCTTTTCAAG-TGTAC
101649085 CATTTGGGTA
Statistics
Matches: 152, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
32 52 0.34
33 98 0.64
34 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTAT
Found at i:101648994 original size:65 final size:62
Alignment explanation
Indices: 101648837--101649084 Score: 190
Period size: 65 Copynumber: 3.8 Consensus size: 62
101648827 CTGATAGGCT
* * * * **
101648837 TTTCCTTTTCTAGTTGTACACTCGAGGTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTAC
1 TTTCCTTTTCAAG-TGTACACACAAAGTGCACATAACCTTTTCAAGT-GTACACA--AAGTGTAC
101648902 A
62 A
** * * *
101648903 TACCCTTTTCAATTTGTACACTCAAAGTGCACATAACCTTTTCAAGTGTACACATATAGTGTACC
1 TTTCCTTTTCAA-GTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACA-A-AGTGTACA
* * ** * ** * *
101648968 TTTCCTTTTCAAGCAGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATAC
1 TTTCCTTTTCAAG-TGTACACACAAAGTGCACATAACCTTTTCA-A--GTGTACACAAAGTGTAC
101649033 A
62 A
* *
101649034 TTTCCTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTTGTAC
1 TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAG-TGTAC
101649085 CATTTGGGTA
Statistics
Matches: 143, Mismatches: 32, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 2 0.01
65 70 0.49
66 57 0.40
67 1 0.01
68 8 0.06
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (62 bp):
TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACAAAGTGTACA
Found at i:101649811 original size:20 final size:22
Alignment explanation
Indices: 101649769--101649816 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
101649759 TGTAAAAGTG
*
101649769 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
101649791 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
101649811 AATTTA
1 -ATTTA
101649817 AAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:101655484 original size:27 final size:27
Alignment explanation
Indices: 101655445--101655496 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
101655435 TATCTGACAT
101655445 TAATGCCCTTGTAGGGTAAAATGACCG
1 TAATGCCCTTGTAGGGTAAAATGACCG
101655472 TAATGTCCC-TGTAGGGTAAAATGAC
1 TAATG-CCCTTGTAGGGTAAAATGAC
101655497 GATTATGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (27 bp):
TAATGCCCTTGTAGGGTAAAATGACCG
Found at i:101655676 original size:27 final size:26
Alignment explanation
Indices: 101655632--101655749 Score: 94
Period size: 27 Copynumber: 4.5 Consensus size: 26
101655622 ATGGAGGAAG
* * *
101655632 TACTG-TACTAGTGACTATGTCACAT
1 TACTGTTACTGGTGGCTATGCCACAT
*
101655657 TCACTGTTACTGGTGGCTATACCACAAT
1 T-ACTGTTACTGGTGGCTATGCCAC-AT
* *
101655685 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACA-T
* ** *
101655712 TACTGTTTCTGGCAGCTATGCTACAT
1 TACTGTTACTGGTGGCTATGCCACAT
* *
101655738 TATTATTACTGG
1 TACTGTTACTGG
101655750 CAGCTTTACT
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.01
26 15 0.21
27 54 0.74
28 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGTGGCTATGCCACAT
Found at i:101657466 original size:17 final size:17
Alignment explanation
Indices: 101657441--101657478 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
101657431 GGAAATTTCG
* *
101657441 AGGATAAAATTTCTTTA
1 AGGACAAAACTTCTTTA
101657458 AGGACAAAACTTCTTTA
1 AGGACAAAACTTCTTTA
101657475 AGGA
1 AGGA
101657479 GGGGTGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (17 bp):
AGGACAAAACTTCTTTA
Found at i:101659288 original size:27 final size:27
Alignment explanation
Indices: 101659246--101659325 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 27
101659236 TCGTTATCTG
101659246 ACCATAATGCCCCTGTAGGGTAAAATA
1 ACCATAATGCCCCTGTAGGGTAAAATA
*
101659273 ACCGTAATGCCCCTGTAGGGTAAAATA
1 ACCATAATGCCCCTGTAGGGTAAAATA
*
101659300 ACCATAATGCCCCTGTAGGATAAAAT
1 ACCATAATGCCCCTGTAGGGTAAAAT
101659326 GACGATTATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (27 bp):
ACCATAATGCCCCTGTAGGGTAAAATA
Found at i:101659336 original size:27 final size:27
Alignment explanation
Indices: 101659249--101659338 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 27
101659239 TTATCTGACC
101659249 ATAATGCCCCTGTAGGGTAAAATAACCG
1 ATAATGCCCCTGTAGGGTAAAATAA-CG
*
101659277 -TAATGCCCCTGTAGGGTAAAATAACC
1 ATAATGCCCCTGTAGGGTAAAATAACG
* *
101659303 ATAATGCCCCTGTAGGATAAAATGACG
1 ATAATGCCCCTGTAGGGTAAAATAACG
*
101659330 ATTATGCCC
1 ATAATGCCC
101659339 TTATGTTCCG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (27 bp):
ATAATGCCCCTGTAGGGTAAAATAACG
Found at i:101659521 original size:27 final size:27
Alignment explanation
Indices: 101659464--101659550 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
101659454 ATGGAGGAGG
* *
101659464 TACTG-TACTGGTGACTATGTCAC-AT
1 TACTGTTACTGGTGGCTATGCCACAAT
*
101659489 TCACTGTTACTGGTGGCTATGCCACAAC
1 T-ACTGTTACTGGTGGCTATGCCACAAT
* * *
101659517 TACTGATA-TCGGTGGCTTTGCCACATT
1 TACTGTTACT-GGTGGCTATGCCACAAT
101659544 TACTGTT
1 TACTGTT
101659551 TATGGCAGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
25 1 0.02
26 5 0.10
27 42 0.84
28 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACAAT
Found at i:101661468 original size:48 final size:48
Alignment explanation
Indices: 101661396--101661632 Score: 314
Period size: 48 Copynumber: 4.9 Consensus size: 48
101661386 AAAAGGTAAG
* * *
101661396 ATGCCGATGCCATGTTCCAGACATGGTCTTACACTAACTCTCATATAA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* * **
101661444 ATGCCGATGCCATGTTCCAAACATGGTCTTACGCTGGCTCACATATTG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* * **
101661492 A-GCCCGATGCCATGTTCCAAACACGGTCTTACACTGGCTCACATATTG
1 ATG-CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* * *
101661540 AGGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* *
101661588 ATACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
101661633 ACCCTAGTAT
Statistics
Matches: 167, Mismatches: 20, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 165 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
Found at i:101663064 original size:24 final size:23
Alignment explanation
Indices: 101663019--101663104 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 23
101663009 TTTGGGCTGT
101663019 ATAACAGGAAGCTCATAAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
* **
101663042 ATAATCAGGATGCTCATGTGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
*
101663066 AATAAC-GAGTAGCTCCA-AAGAGCC
1 -ATAACAG-GAAGCT-CATAAGAGCC
*
101663090 ATTAACGGGAAGCTC
1 A-TAACAGGAAGCTC
101663105 TGGATAGCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
23 7 0.14
24 35 0.71
25 7 0.14
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:101665673 original size:21 final size:21
Alignment explanation
Indices: 101665647--101665709 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
101665637 ACAATGAGAA
101665647 GAAAACAAAGTTGGGTGCTTT
1 GAAAACAAAGTTGGGTGCTTT
101665668 GAAAACAAAGTTGGGTGCTTT
1 GAAAACAAAGTTGGGTGCTTT
101665689 GAAAACAAAGTTGGGTGCTTT
1 GAAAACAAAGTTGGGTGCTTT
101665710 CGGGTGCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
GAAAACAAAGTTGGGTGCTTT
Found at i:101665718 original size:31 final size:31
Alignment explanation
Indices: 101665680--101665740 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
101665670 AAACAAAGTT
101665680 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
101665711 GGGTGCTTTGAAAACAAAGTTGGGTGCTTT
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTT
101665741 GAAAACAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.33
Consensus pattern (31 bp):
GGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
Found at i:101665721 original size:52 final size:52
Alignment explanation
Indices: 101665659--101665762 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
101665649 AAACAAAGTT
101665659 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
101665711 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
101665763 TTTTTCCTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.31
Consensus pattern (52 bp):
GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
Found at i:101665737 original size:21 final size:21
Alignment explanation
Indices: 101665711--101665761 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
101665701 GGGTGCTTTC
101665711 GGGTGCTTTGAAAACAAAGTT
1 GGGTGCTTTGAAAACAAAGTT
101665732 GGGTGCTTTGAAAACAAAGTT
1 GGGTGCTTTGAAAACAAAGTT
101665753 GGGTGCTTT
1 GGGTGCTTT
101665762 CTTTTTCCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.31
Consensus pattern (21 bp):
GGGTGCTTTGAAAACAAAGTT
Found at i:101678473 original size:50 final size:50
Alignment explanation
Indices: 101678398--101678497 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
101678388 TTCCTCCACC
101678398 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
1 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
*
101678448 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACCCACAACCCT
1 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
101678498 CGCCCCAAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.29, C:0.41, G:0.04, T:0.26
Consensus pattern (50 bp):
TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
Found at i:101686117 original size:62 final size:60
Alignment explanation
Indices: 101686001--101686117 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 60
101685991 TTGTACAAAC
* * ****
101686001 TATTTTTATATTATTTTATTTAATAAAATAAAAGTTGTATTGAATATTTTAATAGTCAAT
1 TATTTTTATATTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAGTCAAT
*
101686061 TATTTTTATATTTTATCTTATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
1 TATTTTTATA--TTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAG
101686118 AAATAATACA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 10 0.21
62 38 0.79
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (60 bp):
TATTTTTATATTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAGTCAAT
Found at i:101696315 original size:20 final size:18
Alignment explanation
Indices: 101696281--101696320 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
101696271 TTTTCCTTTT
101696281 CTTTTTCTTTTTCTTTCC
1 CTTTTTCTTTTTCTTTCC
101696299 CTTTTTCCTTCTTTCTTTCC
1 CTTTTT-CTT-TTTCTTTCC
101696319 CT
1 CT
101696321 GCTATTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCTTTTTCTTTCC
Found at i:101696344 original size:6 final size:6
Alignment explanation
Indices: 101696333--101696357 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
101696323 TATTCGTGCC
101696333 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
101696358 ATGTTTTATT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:101696423 original size:18 final size:17
Alignment explanation
Indices: 101696396--101696432 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
101696386 ATTCTTTATT
*
101696396 TTATTAATATATTATAA
1 TTATTAATATAATATAA
101696413 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
101696431 TT
1 TT
101696433 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:101699005 original size:126 final size:126
Alignment explanation
Indices: 101698847--101699387 Score: 659
Period size: 126 Copynumber: 4.3 Consensus size: 126
101698837 TTTGACACTA
* * * * **
101698847 AAAATTACTTTTTCAGGAACTACTATAGAAAAAGAGTATCTACGTAAGAGCTTTTTTCAGTAATT
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
* * * *
101698912 TTGCTAACAGTGCATCCTGCTTAAAACGTTTTTGACCCTATTTTTTCAGAACCATCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* * * * *
101698973 AAAATTATTTTTTCAGGAACTACTTTAAAAAAAGAGCATCCACATGGGAGCTTTTTTGAGTAATT
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
* * * * * *
101699038 TTGTTGACAGTGCATTCTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAATCGTCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* * * *
101699099 AAAATTATTTTTTCAAAAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATT
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
* ** * * * *
101699164 TTGCTGACAGTGCATCCTATTTGAAGCATTTTTGACATTATTTTTTTAGAACTGTCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* * * *
101699225 AAAATTATTTTTTTTTCCAAAAACTACTATAGAAAAATAGCGTCCACGTGGGAGTTTTTTTCAGT
1 AAAATTA---TTTTTT-CAGAAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGT
* * * * *
101699290 ACTTTTGCTAATAGTGCATCTTGCTTGAAGCGTTTTTGTCACTATTTTTTTAGAACCGTCTTCTC
62 AATTTTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* *
101699355 AAAATTAATTTTTCAGAAACTACTATAAAAAAA
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAA
101699388 ACAAAATCCA
Statistics
Matches: 357, Mismatches: 54, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
126 240 0.67
127 5 0.01
129 6 0.02
130 106 0.30
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (126 bp):
AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
Found at i:101699562 original size:31 final size:33
Alignment explanation
Indices: 101699485--101699566 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
101699475 TTAAAAAGTT
*
101699485 CTAAACCCTAATTTAATTAATTTTCTAAAAAACC
1 CTAAACCCTAATTT-ATTTATTTTCTAAAAAACC
* **
101699519 CTAAA-CCTAATTTATTTATTTT-T-TAAATTC
1 CTAAACCCTAATTTATTTATTTTCTAAAAAACC
101699549 CTAAACCCTAATTTATTT
1 CTAAACCCTAATTTATTT
101699567 TTTAAAATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 9 0.21
31 13 0.30
32 8 0.19
33 8 0.19
34 5 0.12
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (33 bp):
CTAAACCCTAATTTATTTATTTTCTAAAAAACC
Found at i:101701993 original size:18 final size:19
Alignment explanation
Indices: 101701973--101702032 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 19
101701963 AATTTCTAAT
*
101701973 TTTTTATATTTATATATT-
1 TTTTTAAATTTATATATTA
* *
101701991 TTTATAAATTTATA-ATTG
1 TTTTTAAATTTATATATTA
* *
101702009 GTTTTAGATTTATATATTA
1 TTTTTAAATTTATATATTA
101702028 TTTTT
1 TTTTT
101702033 TGAATAAAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 3 0.09
18 23 0.70
19 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTAAATTTATATATTA
Found at i:101702715 original size:15 final size:16
Alignment explanation
Indices: 101702695--101702725 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
101702685 CAAAATTAGA
101702695 ATTTAAT-AATAAATT
1 ATTTAATAAATAAATT
101702710 ATTTAATAAATAAATT
1 ATTTAATAAATAAATT
101702726 TGAACAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAATAAATAAATT
Found at i:101703139 original size:69 final size:69
Alignment explanation
Indices: 101703060--101703192 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 69
101703050 TATAGAATCT
* *
101703060 TAGTATTAGTATTGCATTATAATCACCGCCATTCAGATTTATAAATAGTAAAGAAGTGAACTATG
1 TAGTATTAGTATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTATG
101703125 TGAG
66 TGAG
* * * ** * *
101703129 TAGTATTAGTATTGTATTATAATTACCACTACTCTTATTTATAAATAGTGAAGAAGTGAGCTAT
1 TAGTATTAGTATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTAT
101703193 CTAGTTAATG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (69 bp):
TAGTATTAGTATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTATG
TGAG
Found at i:101704328 original size:30 final size:30
Alignment explanation
Indices: 101704266--101704328 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
101704256 ACTTATTTTA
**
101704266 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
101704296 TTGTTAGTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
101704326 TTG
1 TTG
101704329 CTTGCTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:101709895 original size:4 final size:4
Alignment explanation
Indices: 101709886--101709930 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
101709876 ATAAGGTGCA
* * *
101709886 AAAG AAAG AAAG AAAG AAAG AGAG AGAG AGAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
101709931 GAGCTAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:101710426 original size:7 final size:7
Alignment explanation
Indices: 101710414--101710475 Score: 74
Period size: 7 Copynumber: 8.7 Consensus size: 7
101710404 ATTTCAACAA
101710414 AAAAATT
1 AAAAATT
101710421 AAAAATT
1 AAAAATT
101710428 AAAAATT
1 AAAAATT
101710435 AAAAATT
1 AAAAATT
101710442 AAAAATCT
1 AAAAAT-T
101710450 -AAAATCT
1 AAAAAT-T
101710457 -AAAATCT
1 AAAAAT-T
*
101710464 AAAAAAT
1 AAAAATT
101710471 AAAAA
1 AAAAA
101710476 ATTATAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
7 47 0.90
8 5 0.10
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:101710440 original size:21 final size:21
Alignment explanation
Indices: 101710414--101710484 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 21
101710404 ATTTCAACAA
101710414 AAAAATTAAAAATTAAAAATT
1 AAAAATTAAAAATTAAAAATT
101710435 AAAAATTAAAAATCT-AAAATCT
1 AAAAATTAAAAAT-TAAAAAT-T
*
101710457 -AAAATCTAAAAAATAAAAAATT
1 AAAAAT-T-AAAAATTAAAAATT
101710479 ATAAAA
1 A-AAAA
101710485 ATATTTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 23 0.55
22 4 0.10
23 11 0.26
24 4 0.10
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATTAAAAATTAAAAATT
Found at i:101723030 original size:62 final size:62
Alignment explanation
Indices: 101722963--101723154 Score: 258
Period size: 62 Copynumber: 3.1 Consensus size: 62
101722953 GGATACAGGT
** * * *
101722963 GTGTGCCCAGGCTGTGTAACTCACTGTTTGTATTTAAGAACCACATGGCCAGGGACACGAGC
1 GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
*
101723025 GTGTGCCCAGGCCCTGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
1 GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
* * * * * *
101723087 GTGTGCCCAGGCCATGTAACTCACTATTTGTGCTTAAAAAACCACACGACCAAGGCACACAGGC
1 GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTT-AAGAACCACACGGCC-AGGGACACAAGC
101723151 GTGT
1 GTGT
101723155 TCCTAGGCTG
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
62 89 0.77
63 13 0.11
64 14 0.12
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (62 bp):
GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
Found at i:101736000 original size:5 final size:5
Alignment explanation
Indices: 101735990--101736025 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
101735980 TTCAAAAATT
101735990 AATAA AATAA AATAA AATAAAA AATAA AATAA AATA
1 AATAA AATAA AATAA AAT--AA AATAA AATAA AATA
101736026 GGATACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 24 0.83
7 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:101736015 original size:17 final size:17
Alignment explanation
Indices: 101735993--101736025 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
101735983 AAAAATTAAT
101735993 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
101736010 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
101736026 GGATACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:101743619 original size:22 final size:22
Alignment explanation
Indices: 101743585--101743658 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
101743575 CACTAAGTCA
* * * *
101743585 ACAGGGCGGCTCAACATCGTAG
1 ACAGGACGACTCAACGTCATAG
* *
101743607 ACAGGACGACTCAACGTTATAA
1 ACAGGACGACTCAACGTCATAG
101743629 ACAGGACGACTCAACGTCATAG
1 ACAGGACGACTCAACGTCATAG
101743651 ACAGGACG
1 ACAGGACG
101743659 GCTAAAGGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.14
Consensus pattern (22 bp):
ACAGGACGACTCAACGTCATAG
Found at i:101743935 original size:27 final size:27
Alignment explanation
Indices: 101743905--101743965 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
101743895 GGGCATAATC
101743905 GTCATTCTACCA-TACAAGGGTATTACG
1 GTCATT-TACCACTACAAGGGTATTACG
** *
101743932 GTCATTTTGCACTACAAGGGTATTTCG
1 GTCATTTACCACTACAAGGGTATTACG
*
101743959 GTGATTT
1 GTCATTT
101743966 TACAAATCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTACCACTACAAGGGTATTACG
Found at i:101746931 original size:27 final size:27
Alignment explanation
Indices: 101746885--101746937 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
101746875 CAGTAATAGT
*
101746885 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAGAATCAGG
101746912 TGGGCCTAAGCCCAGT-ACAGAATCAG
1 TGGGCCT-AGCCCAGTAACAGAATCAG
101746938 TATCAGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAGAATCAGG
Found at i:101749002 original size:35 final size:35
Alignment explanation
Indices: 101748961--101749052 Score: 150
Period size: 35 Copynumber: 2.6 Consensus size: 35
101748951 ATTTCTAGTA
*
101748961 AGCATGCTTAACATGCGAATCAGAATTAGAATAAT
1 AGCATGCTTAACATGCGAATCAGAATCAGAATAAT
*
101748996 -GACATGCTTAACATGCGAATCATAATCAGAATAAT
1 AG-CATGCTTAACATGCGAATCAGAATCAGAATAAT
101749031 AGCATGCTTAACATGCGAATCA
1 AGCATGCTTAACATGCGAATCA
101749053 AAAAATCAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
34 1 0.02
35 51 0.96
36 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (35 bp):
AGCATGCTTAACATGCGAATCAGAATCAGAATAAT
Found at i:101749064 original size:35 final size:34
Alignment explanation
Indices: 101748961--101749064 Score: 113
Period size: 35 Copynumber: 3.0 Consensus size: 34
101748951 ATTTCTAGTA
* * *
101748961 AGCATGCTTAACATGCGAATCAGAATTAGAATAAT
1 AGCATGCTTAACATGCGAATCAAAAAT-CAATAAT
*
101748996 -GACATGCTTAACATGCGAATC-ATAATCAGAATAAT
1 AG-CATGCTTAACATGCGAATCAAAAATC--AATAAT
101749031 AGCATGCTTAACATGCGAATCAAAAAATCAATAA
1 AGCATGCTTAACATGCGAATC-AAAAATCAATAA
101749065 ATCGTCGTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
34 3 0.05
35 49 0.84
36 1 0.02
37 5 0.09
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.24
Consensus pattern (34 bp):
AGCATGCTTAACATGCGAATCAAAAATCAATAAT
Found at i:101749588 original size:4 final size:4
Alignment explanation
Indices: 101749579--101749616 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
101749569 CAAATTAAAC
101749579 AAAG AAAG AAAG AAAG AAA- AGAA- AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAA
101749617 AAGAAGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:101749605 original size:23 final size:23
Alignment explanation
Indices: 101749579--101749624 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
101749569 CAAATTAAAC
101749579 AAAGAAAGAAAGAAAGAA-AAGAA
1 AAAGAAAGAAAGAAA-AAGAAGAA
101749602 AAAGAAAGAAAGAAAAAGAAGAA
1 AAAGAAAGAAAGAAAAAGAAGAA
101749625 GAGAACGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAAGAAAAAGAAGAA
Found at i:101749629 original size:14 final size:14
Alignment explanation
Indices: 101749579--101749621 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
101749569 CAAATTAAAC
101749579 AAAGAAAG--AAAG
1 AAAGAAAGAAAAAG
101749591 AAAGAAAAGAAAAAG
1 AAAG-AAAGAAAAAG
101749606 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
101749620 AA
1 AA
101749622 GAAGAGAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 12 0.43
15 8 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:101753324 original size:17 final size:17
Alignment explanation
Indices: 101753302--101753335 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101753292 CATTGACATG
* *
101753302 AAAATGTAATGACAATA
1 AAAATGCAATGAAAATA
101753319 AAAATGCAATGAAAATA
1 AAAATGCAATGAAAATA
101753336 TATACTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGAAAATA
Found at i:101754101 original size:42 final size:43
Alignment explanation
Indices: 101754036--101754199 Score: 137
Period size: 42 Copynumber: 3.9 Consensus size: 43
101754026 AGCTCGTACA
* *
101754036 ATGCCAAC-GTCCCAGA-AGTGGTCTTACATG-TATCAAATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
101754078 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
* * * * *
101754120 ATGCCGA-TGTCCCAGACATGGTCTTTCACGTAGATCTCAAAT-CG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACG-A-A-ATCAAATATG
* *
101754164 ATGCCAAC-GTCCCAAAC-GTGGTTTTACACGAAATCA
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCA
101754200 CATTTCGAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
41 5 0.05
42 51 0.50
43 14 0.14
44 25 0.25
45 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
Found at i:101758257 original size:25 final size:25
Alignment explanation
Indices: 101758223--101758290 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
101758213 TACACGAAAT
* *
101758223 AATGATCACACAAGCTGTAATTATA
1 AATGCTCACACAAGCTGTAACTATA
* ** *
101758248 ATTGCTCACATGAGCTATAACTATA
1 AATGCTCACACAAGCTGTAACTATA
*
101758273 AATGCTCACACAGGCTGT
1 AATGCTCACACAAGCTGT
101758291 GAAATGGACC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTAACTATA
Found at i:101762677 original size:19 final size:19
Alignment explanation
Indices: 101762653--101762691 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
101762643 CTAGCCTATA
*
101762653 CATGCCATACTTTAATGTT
1 CATGCCATACTTGAATGTT
101762672 CATGCCATACTTGAATGTT
1 CATGCCATACTTGAATGTT
101762691 C
1 C
101762692 GCATTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (19 bp):
CATGCCATACTTGAATGTT
Found at i:101766404 original size:27 final size:27
Alignment explanation
Indices: 101766374--101766569 Score: 245
Period size: 27 Copynumber: 7.3 Consensus size: 27
101766364 TACTGAAATG
*
101766374 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
** *
101766401 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
101766428 -CCTCGATTTACAAAATTACC-GTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
101766453 CCCTCGATTTATAGAATTACCATTTTG
1 CCCTCGATTTATAGAATTACCATTTTA
101766480 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
101766507 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
101766534 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
*
101766561 TCCTCGATT
1 CCCTCGATT
101766570 GTGAAATTAT
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
25 3 0.02
26 36 0.24
27 107 0.73
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:101766468 original size:79 final size:81
Alignment explanation
Indices: 101766374--101766569 Score: 263
Period size: 79 Copynumber: 2.4 Consensus size: 81
101766364 TACTGAAATG
* **
101766374 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCA-CCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCGATTTA
101766438 CAAAATTACC-GTTTA
66 CAAAATTACCAGTTTA
* *
101766453 CCCTCGATTTATAGAATTACCATTTTGCCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCGATTTA
* *
101766518 TAAAATTACCATTTTA
66 CAAAATTACCAGTTTA
* * * *
101766534 CCCTC-AGTTTACAAAATTACCGTTTTATCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
101766570 GTGAAATTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
79 49 0.48
80 20 0.20
81 33 0.32
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCGATTTA
CAAAATTACCAGTTTA
Found at i:101766631 original size:27 final size:27
Alignment explanation
Indices: 101766601--101766752 Score: 155
Period size: 27 Copynumber: 5.6 Consensus size: 27
101766591 TATAGGATAG
101766601 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
101766628 AATTACAAAAAATACCCCTAGTTTGTAA
1 AATTAC-CAAAATACCCCTAGTTTGTAA
* * * * *
101766656 AATTACCGAAATACCACTGGCTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
101766683 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
101766710 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
101766737 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
101766753 TTGACTTTCT
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.05
27 69 0.66
28 30 0.29
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:101766646 original size:28 final size:27
Alignment explanation
Indices: 101766601--101766780 Score: 139
Period size: 27 Copynumber: 6.6 Consensus size: 27
101766591 TATAGGATAG
*
101766601 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACAAAAATACCCCTAGTTTGTAA
101766628 AATTACAAAAAATACCCCTAGTTTGTAA
1 AATTAC-AAAAATACCCCTAGTTTGTAA
** * * * *
101766656 AATTACCGAAATACCACTGGCTTGTGA
1 AATTACAAAAATACCCCTAGTTTGTAA
* *
101766683 AATTATC-GAAATA-CCCTCAATTTGTAA
1 AATTA-CAAAAATACCCCT-AGTTTGTAA
* * **
101766710 AATTACCAAAATACCCCTAATTTACAA
1 AATTACAAAAATACCCCTAGTTTGTAA
* * * *
101766737 AATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACAAAAATACCCCT-AGTTTGT-AA
*
101766766 AATTATAAAAATACC
1 AATTACAAAAATACC
101766781 ATTGTTTTCC
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
26 4 0.03
27 69 0.56
28 35 0.28
29 15 0.12
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACAAAAATACCCCTAGTTTGTAA
Found at i:101766740 original size:54 final size:55
Alignment explanation
Indices: 101766601--101766753 Score: 177
Period size: 54 Copynumber: 2.8 Consensus size: 55
101766591 TATAGGATAG
* *
101766601 AATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTAC-AGAAATACCCTCTAATTTGTAA
* * * * *
101766656 AATTACCGAAATACCACTGGCTTGTGAAATTATC-GAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTA-CAGAAATACCCTCTAATTTGTAA
* **
101766710 AATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCT
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAATACCCT
101766754 TGACTTTCTA
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 50 0.62
55 28 0.35
56 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (55 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAATACCCTCTAATTTGTAA
Found at i:101766804 original size:27 final size:29
Alignment explanation
Indices: 101766734--101766807 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
101766724 CCCTAATTTA
* *
101766734 CAAAATTACAGAAATACCCTTGACTTTCT
1 CAAAATTACTGAAATACCATTGACTTTCT
* * *
101766763 AAAAATTA-TAAAAATACCATTG-TTTTC-
1 CAAAATTACT-GAAATACCATTGACTTTCT
101766790 CAAAATTACTGAAATACC
1 CAAAATTACTGAAATACC
101766808 CTTGGTTTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
27 14 0.39
28 5 0.14
29 17 0.47
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (29 bp):
CAAAATTACTGAAATACCATTGACTTTCT
Found at i:101767666 original size:20 final size:20
Alignment explanation
Indices: 101767641--101767707 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
101767631 GATATGATAT
*
101767641 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
101767661 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
101767681 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
101767701 ACATGAT
1 ACATGAT
101767708 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:101767802 original size:25 final size:24
Alignment explanation
Indices: 101767757--101767840 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
101767747 GAGGAAGTGC
101767757 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTT-TGCCC-AGTTTATTG
* **
101767783 AAAAGGGATTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCC-CAGTTTATTG
101767808 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTTTG-CCCAGTTTATTG
101767831 AAAAGAGGCT
1 AAAAG-GGCT
101767841 AGGCCTCCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 25 0.51
26 12 0.24
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCAGTTTATTG
Found at i:101768037 original size:42 final size:42
Alignment explanation
Indices: 101767973--101768063 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
101767963 TAGTCTCCCC
* ** *
101767973 AATGGGCTTGCATACATTCATTGGTATTTCATATGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
*
101768015 AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
101768057 AATGGGC
1 AATGGGC
101768064 CAATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
Found at i:101768130 original size:31 final size:31
Alignment explanation
Indices: 101768087--101768196 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
101768077 CGTTTACAGT
* *
101768087 AAAGCCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
101768118 AAATGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
101768149 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
101768180 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
101768197 AACCGTTAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:101770484 original size:27 final size:27
Alignment explanation
Indices: 101770446--101770639 Score: 203
Period size: 27 Copynumber: 7.2 Consensus size: 27
101770436 TAAAATGCCT
* * *
101770446 TCGATTTGTAGAATTACCATTTTACAC
1 TCGATTTATAGAATTACCGTTTTACCC
* *
101770473 TCGGTTTATAGAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCGTTTTACCC
* * * *
101770500 TCGATTTACAAAATTCCCGTTTCACCC
1 TCGATTTATAGAATTACCGTTTTACCC
**
101770527 TCGATTTATAGAATTACTATTTTACCC
1 TCGATTTATAGAATTACCGTTTTACCC
*
101770554 TCGATTTATAGAATTACCG-TTTAACC
1 TCGATTTATAGAATTACCGTTTTACCC
* * *
101770580 TCGATTTACAAAATTACCATTTTACCC
1 TCGATTTATAGAATTACCGTTTTACCC
* * *
101770607 TC-AGTTTACAAAATTACCGTTTTATCC
1 TCGA-TTTATAGAATTACCGTTTTACCC
101770634 TCGATT
1 TCGATT
101770640 GTGAAATTAC
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 23 0.16
27 116 0.83
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
TCGATTTATAGAATTACCGTTTTACCC
Found at i:101770562 original size:81 final size:80
Alignment explanation
Indices: 101770446--101770639 Score: 255
Period size: 80 Copynumber: 2.4 Consensus size: 80
101770436 TAAAATGCCT
* * * *
101770446 TCGATTTGTAGAATTACCATTTTACACTCGGTTTATAGAATTACCGTTTCACCCTCGATTTACAA
1 TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT-AACCTCGATTTACAA
* *
101770511 AATTCCCGTTTCACCC
65 AATTACCATTTCACCC
*
101770527 TCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTAACCTCGATTTACAAA
1 TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTAACCTCGATTTACAAA
*
101770592 ATTACCATTTTACCC
66 ATTACCATTTCACCC
* * * *
101770607 TC-AGTTTACAAAATTACCGTTTTATCCTCGATT
1 TCGA-TTTATAGAATTACCATTTTACCCTCGATT
101770640 GTGAAATTAC
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 53 0.54
81 45 0.45
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (80 bp):
TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTAACCTCGATTTACAAA
ATTACCATTTCACCC
Found at i:101770701 original size:27 final size:27
Alignment explanation
Indices: 101770671--101770904 Score: 157
Period size: 27 Copynumber: 8.6 Consensus size: 27
101770661 TGTAGGATAG
101770671 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
101770698 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
101770725 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
101770752 AATCATCGACATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
101770779 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
101770806 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCCT-AGTTTGT-AA
** ** **
101770835 AATTATAAAAATACCATTAGTTTCCAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * * *
101770862 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
101770889 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
101770905 TTGTAGGATG
Statistics
Matches: 164, Mismatches: 37, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 5 0.03
27 129 0.79
28 13 0.08
29 16 0.10
30 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:101770980 original size:27 final size:27
Alignment explanation
Indices: 101770915--101771002 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
101770905 TTGTAGGATG
**
101770915 AAATGACTAAAATACCCCTAATA-GGTA
1 AAATGACTGTAATACCCCT-ATAGGGTA
* *
101770942 AAAAGACCGTAA-AGCCCCTATAGGGTA
1 AAATGACTGTAATA-CCCCTATAGGGTA
* * *
101770969 AAGTGACTGTAATACCCTTATATGGTA
1 AAATGACTGTAATACCCCTATAGGGTA
101770996 AAATGAC
1 AAATGAC
101771003 GAATATGCCC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.08
27 43 0.90
28 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (27 bp):
AAATGACTGTAATACCCCTATAGGGTA
Found at i:101771749 original size:20 final size:20
Alignment explanation
Indices: 101771726--101771776 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
101771716 TTGATATGAT
*
101771726 ATGCGCATGATATGTATAAA
1 ATGCACATGATATGTATAAA
* *
101771746 ATGCACATCATATGTATGAA
1 ATGCACATGATATGTATAAA
101771766 ATGCACATGAT
1 ATGCACATGAT
101771777 GTATTCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:101771904 original size:52 final size:51
Alignment explanation
Indices: 101771826--101771961 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
101771816 GAGGAAGTGC
*
101771826 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCCGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
* *
101771878 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
101771929 AAAAAGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
101771962 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
48 5 0.06
49 8 0.10
50 8 0.10
51 22 0.28
52 35 0.45
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:101771917 original size:25 final size:26
Alignment explanation
Indices: 101771826--101771961 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
101771816 GAGGAAGTGC
101771826 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
101771852 AAAAGGGCTTATGCCCCCGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
101771878 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
101771904 AAAAGGGATT-TGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
101771929 AAAAAGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
101771952 AAAAGAGGCT
1 AAAAG-GGCT
101771962 AGGCCTCCAG
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.04
24 7 0.08
25 27 0.29
26 55 0.59
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:101772159 original size:42 final size:42
Alignment explanation
Indices: 101772094--101772181 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
101772084 TAGTCTCCCC
* * ** *
101772094 AAATGGGCTTGCATATATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
101772136 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
101772178 AAAT
1 AAAT
101772182 AGGCCTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:101772250 original size:31 final size:31
Alignment explanation
Indices: 101772209--101772318 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
101772199 CGTTTACAGT
* * *
101772209 AAAGCCTTCGGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
101772240 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
101772271 AAATGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
101772302 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
101772319 AACCGTTAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:101773343 original size:49 final size:47
Alignment explanation
Indices: 101773271--101773442 Score: 194
Period size: 49 Copynumber: 3.7 Consensus size: 47
101773261 GGTATAATCT
* *
101773271 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCG-AGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGAC-ATC-ATATCGTA-GC
101773320 CGATGCCATGTCCCAAACATGGTCTTACACTGACACTC-TATACGTA-C
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACA-TCATAT-CGTAGC
* * * * *
101773367 CAATGCCAGGTACCAGACATGGTCTTACACTGACA-CATCTCGTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACATCATATCGTAGC
101773413 CGATG-CATGTCCCAAACAT-GTCTTACACTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTG
101773443 GCTTAAATCT
Statistics
Matches: 107, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
44 11 0.10
45 16 0.15
46 7 0.07
47 34 0.32
48 3 0.03
49 36 0.34
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACATCATATCGTAGC
Found at i:101773572 original size:94 final size:91
Alignment explanation
Indices: 101773411--101773584 Score: 201
Period size: 94 Copynumber: 1.9 Consensus size: 91
101773401 ACATCTCGTA
* *
101773411 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTAAATCTCGAGGCTGATGTATGTCCCAGAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTAAA-CTCGAGGCTAATGCATGTCCCAGAC
*
101773476 ATGTTTTACACTAGCTCTTGTCTTAAT
65 ATGTCTTACACTAGCTCTTGTCTTAAT
* *
101773503 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAA-T-GTGGCTAATGCATG-CCT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-A-AACTCGAGGCTAATGCATGTCC-
* *
101773565 CATACATGTCTTACATTAGC
60 CAGACATGTCTTACACTAGC
101773585 ACACAAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
92 7 0.10
93 15 0.22
94 42 0.61
95 2 0.03
96 1 0.01
97 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (91 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTAAACTCGAGGCTAATGCATGTCCCAGACA
TGTCTTACACTAGCTCTTGTCTTAAT
Found at i:101782929 original size:26 final size:25
Alignment explanation
Indices: 101782900--101782957 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
101782890 ACTTTTTCTC
*
101782900 TATTTTTATTTATTTAG-TTATTTCAT
1 TATTATTATTTA-TTAGATTATTT-AT
*
101782926 TATTATTCTTTATTAGTATTATTTAT
1 TATTATTATTTATTAG-ATTATTTAT
101782952 TATTAT
1 TATTAT
101782958 AATTATTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
26 18 0.64
27 6 0.21
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (25 bp):
TATTATTATTTATTAGATTATTTAT
Found at i:101784604 original size:6 final size:6
Alignment explanation
Indices: 101784587--101784658 Score: 74
Period size: 6 Copynumber: 12.2 Consensus size: 6
101784577 CCATTGAGTC
* * * * *
101784587 TGTTTA TCTTTA TGTTTA TTTTTA TTTTTC TCTTTA TGTTTA TGTTTA
1 TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA
* *
101784635 TTTTTA TGTTTA T-TTTA TTTTTA T
1 TGTTTA TGTTTA TGTTTA TGTTTA T
101784659 ATTTTGAACT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
5 5 0.09
6 51 0.91
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (6 bp):
TGTTTA
Found at i:101784625 original size:24 final size:24
Alignment explanation
Indices: 101784589--101784676 Score: 108
Period size: 24 Copynumber: 3.7 Consensus size: 24
101784579 ATTGAGTCTG
101784589 TTTATCTTTATGTTTATTTTTATT
1 TTTATCTTTATGTTTATTTTTATT
* *
101784613 TTTCTCTTTATGTTTATGTTTATT
1 TTTATCTTTATGTTTATTTTTATT
*
101784637 TTTATGTTTAT-TTTATTTTTATAT
1 TTTATCTTTATGTTTATTTTTAT-T
*
101784661 TTTGAACTTTAT-TTTA
1 TTT-ATCTTTATGTTTA
101784677 ATTATTATGG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
23 10 0.18
24 35 0.64
25 10 0.18
ACGTcount: A:0.18, C:0.05, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTATCTTTATGTTTATTTTTATT
Found at i:101784656 original size:18 final size:18
Alignment explanation
Indices: 101784587--101784658 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 18
101784577 CCATTGAGTC
*
101784587 TGTTTATCTTTATGTTTA
1 TGTTTATCTTTATTTTTA
* * * *
101784605 TTTTTATTTTTCTCTTTA
1 TGTTTATCTTTATTTTTA
*
101784623 TGTTTATGTTTATTTTTA
1 TGTTTATCTTTATTTTTA
101784641 TGTTTAT-TTTATTTTTA
1 TGTTTATCTTTATTTTTA
101784658 T
1 T
101784659 ATTTTGAACT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
17 11 0.24
18 35 0.76
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (18 bp):
TGTTTATCTTTATTTTTA
Found at i:101786506 original size:30 final size:30
Alignment explanation
Indices: 101786450--101786506 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
101786440 GACCATTTCC
* *
101786450 ACACGGGCTGAGCACATACCCGTGTGAGAT
1 ACACGGGCTGAGCACACACCCATGTGAGAT
*
101786480 ACACGGGCT-AGACACACGCCCATGTGA
1 ACACGGGCTGAG-CACACACCCATGTGA
101786507 TAGCCCGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (30 bp):
ACACGGGCTGAGCACACACCCATGTGAGAT
Found at i:101793661 original size:33 final size:33
Alignment explanation
Indices: 101793609--101793701 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
101793599 CATGGCATTC
* * * *
101793609 ACAGAATAAGTCTACTGGGATAGTAAACACCAA
1 ACAGAGTAAGTCCACTGGGACAGTAAACACAAA
* *
101793642 ATAGAGTAAGTCCATTGGGACAGTAAACACAAA
1 ACAGAGTAAGTCCACTGGGACAGTAAACACAAA
* * **
101793675 ACAGATTAAGTCCTCCAGGACAGTAAA
1 ACAGAGTAAGTCCACTGGGACAGTAAA
101793702 TATGGGTAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.18
Consensus pattern (33 bp):
ACAGAGTAAGTCCACTGGGACAGTAAACACAAA
Found at i:101796006 original size:21 final size:21
Alignment explanation
Indices: 101795980--101796027 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
101795970 ATGAAGCAGT
* **
101795980 GGTATCGCGAGGTCCCTTTAG
1 GGTATCGCGAGATCCCCCTAG
*
101796001 GGTATCGCTAGATCCCCCTAG
1 GGTATCGCGAGATCCCCCTAG
101796022 GGTATC
1 GGTATC
101796028 AGAATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (21 bp):
GGTATCGCGAGATCCCCCTAG
Found at i:101801087 original size:44 final size:44
Alignment explanation
Indices: 101801038--101801129 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
101801028 TGTTCAGGGA
*
101801038 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
* **
101801082 TACTTCGACTTCGATTCGATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
101801126 TACT
1 TACT
101801130 GTTACTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
Found at i:101806692 original size:23 final size:24
Alignment explanation
Indices: 101806648--101806692 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
101806638 ATAGGAAAAC
*
101806648 AAAATAGACATAATAGGAAAAATA
1 AAAATAGACATAATAAGAAAAATA
101806672 AAAATAGA-ATAA-AAGATAAAA
1 AAAATAGACATAATAAGA-AAAA
101806693 ATACAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 8 0.42
24 8 0.42
ACGTcount: A:0.71, C:0.02, G:0.11, T:0.16
Consensus pattern (24 bp):
AAAATAGACATAATAAGAAAAATA
Found at i:101806692 original size:24 final size:24
Alignment explanation
Indices: 101806648--101806695 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
101806638 ATAGGAAAAC
*
101806648 AAAATAGACATAATAGGAAAAATA
1 AAAATAGACATAAAAGGAAAAATA
*
101806672 AAAATAGA-ATAAAAGATAAAAATA
1 AAAATAGACATAAAAG-GAAAAATA
101806696 CAGATAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (24 bp):
AAAATAGACATAAAAGGAAAAATA
Found at i:101817103 original size:17 final size:17
Alignment explanation
Indices: 101817083--101817115 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
101817073 ATTTTATTAA
101817083 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
*
101817100 GTTTTTAATATTCATT
1 GTTTTTAAGATTCATT
101817116 TGTTCTCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:101818867 original size:13 final size:13
Alignment explanation
Indices: 101818849--101818885 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
101818839 AGTAATCGAA
101818849 CACGGGCGTGTGC
1 CACGGGCGTGTGC
101818862 CACGGGCGTGTGC
1 CACGGGCGTGTGC
*
101818875 CATGGGCGTGT
1 CACGGGCGTGT
101818886 CCCTACGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.08, C:0.27, G:0.46, T:0.19
Consensus pattern (13 bp):
CACGGGCGTGTGC
Found at i:101829602 original size:31 final size:30
Alignment explanation
Indices: 101829556--101829613 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
101829546 TTTGTATAAT
101829556 TTTCTCTCTAGTTTTAGACTTTAGTTTTTTA
1 TTTCTCTCTAGTTTTAGACTTTA-TTTTTTA
101829587 TTTCTCT-TAGATTTTAGACTTTATTTT
1 TTTCTCTCTAG-TTTTAGACTTTATTTT
101829614 CCATTCTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.17, C:0.12, G:0.09, T:0.62
Consensus pattern (30 bp):
TTTCTCTCTAGTTTTAGACTTTATTTTTTA
Found at i:101830196 original size:18 final size:18
Alignment explanation
Indices: 101830148--101830196 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
101830138 GATTTGATAT
101830148 TTACTTTCATTCAATTTG
1 TTACTTTCATTCAATTTG
*
101830166 TTGCTTTCCATTC-ATTTAG
1 TTACTTT-CATTCAATTT-G
*
101830185 TTACTTTTATTC
1 TTACTTTCATTC
101830197 CCATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.57
Consensus pattern (18 bp):
TTACTTTCATTCAATTTG
Found at i:101835171 original size:3 final size:3
Alignment explanation
Indices: 101835163--101835193 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
101835153 TTCAAAAATA
101835163 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
101835194 ATGGCCTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:101836818 original size:23 final size:23
Alignment explanation
Indices: 101836786--101836831 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
101836776 AGCGACAAAG
*
101836786 AGAAATAAAATAAAATAA-AATAA
1 AGAAACAAAATAAAA-AATAATAA
101836809 AGAAACAAAATAAAAAATAATAA
1 AGAAACAAAATAAAAAATAATAA
101836832 TTAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AGAAACAAAATAAAAAATAATAA
Found at i:101878219 original size:5 final size:5
Alignment explanation
Indices: 101878209--101878234 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
101878199 GCCTTTGAAT
101878209 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
101878235 GCAACATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:101884368 original size:18 final size:19
Alignment explanation
Indices: 101884340--101884377 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
101884330 AGAATCTTCA
101884340 AAAATTAATAAAATAAAAT
1 AAAATTAATAAAATAAAAT
*
101884359 AAAA-TAATAAAGTAAAAT
1 AAAATTAATAAAATAAAAT
101884377 A
1 A
101884378 GGATAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAATTAATAAAATAAAAT
Found at i:101891447 original size:13 final size:13
Alignment explanation
Indices: 101891429--101891454 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101891419 GCTCGGCAGG
101891429 GACACGCCCGTGT
1 GACACGCCCGTGT
101891442 GACACGCCCGTGT
1 GACACGCCCGTGT
101891455 TCGATTACTT
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:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:101895957 original size:20 final size:20
Alignment explanation
Indices: 101895932--101895978 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
101895922 GTTTTGATAT
101895932 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
101895952 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
101895972 ACGTGAT
1 ACATGAT
101895979 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:101896054 original size:26 final size:25
Alignment explanation
Indices: 101896026--101896146 Score: 147
Period size: 25 Copynumber: 4.8 Consensus size: 25
101896016 AGGAAGTGCA
*
101896026 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
101896051 AAAAGGATTTTTGCCCCAGTTTACCG
1 AAAAGG-GCTTTGCCCCAGTTTACCG
**
101896077 AAAAGGGCTTTTGCCCCAGTTTA-TT
1 AAAAGGGC-TTTGCCCCAGTTTACCG
*
101896102 AAAAGGGCTTTTGCCCCAGTTTATC-
1 AAAAGGGC-TTTGCCCCAGTTTACCG
101896127 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
101896147 ATTAAAAGAG
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
24 12 0.14
25 37 0.44
26 36 0.42
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:101896106 original size:51 final size:49
Alignment explanation
Indices: 101896026--101896154 Score: 170
Period size: 51 Copynumber: 2.6 Consensus size: 49
101896016 AGGAAGTGCA
* ** *
101896026 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGATTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTA-TTAAAAGGACTTTTGCCCCAGTTTACC
* *
101896076 GAAAAGGGCTTTTGCCCCAGTTTATTAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGTTTATTAAAAGGACTTTTGCCCCAGTTTACC
101896127 AAAAGGGCTTTGCCCCAG-TTATTAAAAG
1 AAAAGGGCTTTGCCCCAGTTTATTAAAAG
101896155 AGGCTAGGCC
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
48 10 0.14
49 10 0.14
50 8 0.11
51 30 0.42
52 13 0.18
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (49 bp):
AAAAGGGCTTTGCCCCAGTTTATTAAAAGGACTTTTGCCCCAGTTTACC
Found at i:101896170 original size:49 final size:51
Alignment explanation
Indices: 101896063--101896171 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 51
101896053 AAGGATTTTT
**
101896063 GCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAGGGCTTTT
1 GCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAGGGCTTAG
*
101896114 GCCCCAGTTTATC-AAAAGGGC-TTTGCCCCAG-TTATTAAAAGAGGC-TAG
1 GCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAG-GGCTTAG
101896162 GCCTCCAGTT
1 GCC-CCAGTT
101896172 ATATGATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 14 0.26
49 19 0.36
50 8 0.15
51 12 0.23
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (51 bp):
GCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAGGGCTTAG
Found at i:101896403 original size:31 final size:31
Alignment explanation
Indices: 101896368--101896431 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
101896358 TGTTTACAGT
101896368 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
101896399 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
101896430 AA
1 AA
101896432 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:101899546 original size:22 final size:22
Alignment explanation
Indices: 101899513--101899563 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
101899503 TTTGTACGGT
101899513 ATTTGCAGTATGATGCCTACTG
1 ATTTGCAGTATGATGCCTACTG
*
101899535 ATTTGC-GCTATGGTGCCTACTG
1 ATTTGCAG-TATGATGCCTACTG
101899557 ATTTGCA
1 ATTTGCA
101899564 TTACGGTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (22 bp):
ATTTGCAGTATGATGCCTACTG
Found at i:101899576 original size:21 final size:22
Alignment explanation
Indices: 101899526--101899576 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
101899516 TGCAGTATGA
* *
101899526 TGCCTACTGATTTGCGCTATGG
1 TGCCTACTGATTTGCACTACGG
*
101899548 TGCCTACTGATTTGCATTACGG
1 TGCCTACTGATTTGCACTACGG
101899570 T-CCTACT
1 TGCCTACT
101899577 AATTCGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (22 bp):
TGCCTACTGATTTGCACTACGG
Found at i:101899614 original size:22 final size:22
Alignment explanation
Indices: 101899589--101899643 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
101899579 TTCGATTTTT
*
101899589 GGTGCCTACTGCTCTACACTTC
1 GGTGCCTACTGCTCAACACTTC
* * * *
101899611 GGTGACTACCGTTCAACACTTT
1 GGTGCCTACTGCTCAACACTTC
*
101899633 GCTGCCTACTG
1 GGTGCCTACTG
101899644 TTAAAGCACT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.16, C:0.33, G:0.20, T:0.31
Consensus pattern (22 bp):
GGTGCCTACTGCTCAACACTTC
Found at i:101905428 original size:42 final size:42
Alignment explanation
Indices: 101905381--101905503 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
101905371 TGATATGTGT
* *
101905381 TTTCGTGTAAGACCATGTCTGGTACATTGGCATCGTATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
* *
101905423 TTTCGTGTAAGACCTTGTCTGGGACAATGGCATTGATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTG-TATTTGA
* * * *
101905466 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
101905504 GTACTTTCCG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 34 0.49
43 36 0.51
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
Found at i:101914278 original size:42 final size:43
Alignment explanation
Indices: 101914217--101914325 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 43
101914207 AACTTATGAG
* *
101914217 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGA
* *
101914259 TTTCGTGTAAGACCTTGTCTAGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGA
* * *
101914302 TTACATGTAAGATCACGTCTAGGA
1 TTACGTGTAAGACCATGTCTAGGA
101914326 TGTTGGCATT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 31 0.54
43 26 0.46
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGA
Found at i:101914333 original size:43 final size:43
Alignment explanation
Indices: 101914176--101914334 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
101914166 TATGTGTTTT
*
101914176 CGTGTAAGACCACGTTTAGGATGTTGGCATC-A-ACTTATGAGTTA
1 CGTGTAAGACCACGTCTAGGATGTTGGCATCGATA-TT-TGA-TTA
* * ** *
101914220 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTAGGATGTTGGCATCGATATTTGATTA
** *
101914262 CGTGTAAGACCTTGTCTAGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCACGTCTAGGA-TGTTGGCATCGATATTTGATTA
* *
101914305 CATGTAAGATCACGTCTAGGATGTTGGCAT
1 CGTGTAAGACCACGTCTAGGATGTTGGCAT
101914335 TGTATGTGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 30 0.32
43 35 0.37
44 28 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGATGTTGGCATCGATATTTGATTA
Found at i:101920823 original size:50 final size:51
Alignment explanation
Indices: 101920643--101920833 Score: 262
Period size: 51 Copynumber: 3.8 Consensus size: 51
101920633 TCATACTTGG
*
101920643 CTGCCATAACATCTTTCATCTATAGTCTTA--CCATATACCTTATACCAGA
1 CTGCCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATATCAGA
* * *
101920692 CTACCATAACATCTTTCATCTATGGTCTTATGCCATATACCTTATATCAGA
1 CTGCCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATATCAGA
* *
101920743 CTGCCATAACATCTTTCATCCATGGTCTTACGCCATATACCTTA-ATCAGA
1 CTGCCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATATCAGA
* * * * *
101920793 CTGCCATAGCCTCCTTCATTTATAGCCTTACGCCATATACC
1 CTGCCATAACATCTTTCATCTATAGTCTTACGCCATATACC
101920834 ATCATCACGA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
49 28 0.22
50 40 0.31
51 59 0.46
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (51 bp):
CTGCCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATATCAGA
Found at i:101925883 original size:61 final size:61
Alignment explanation
Indices: 101925783--101925905 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 61
101925773 AGCACACTAC
* * *
101925783 AACTGGAAAGGTTACATAGAATACTATTACAATAGAATCAGATCAATTTT-CTAATGGAAAT
1 AACTAGAAAGGCTACACAGAATACTATTACAATAGAATCAGATC-ATTTTGCTAATGGAAAT
* * *
101925844 AACTAGAAAGGCTACACAGAATATTATTGCAGTAGAATCAGATCATTTTGCTAATGGAAAT
1 AACTAGAAAGGCTACACAGAATACTATTACAATAGAATCAGATCATTTTGCTAATGGAAAT
101925905 A
1 A
101925906 CTACAGCAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 5 0.09
61 50 0.91
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (61 bp):
AACTAGAAAGGCTACACAGAATACTATTACAATAGAATCAGATCATTTTGCTAATGGAAAT
Found at i:101930558 original size:41 final size:43
Alignment explanation
Indices: 101930494--101930602 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 43
101930484 AATTTGAGAT
* * *
101930494 TTACGTGTAATACCATGTCTGGGACATTGGCATCG-T-ATTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGATGATTGA
* * * *
101930535 TTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGATGTTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGATGATTGA
101930578 TTACATGTAAGA-CATTGTCTGGGAC
1 TTACATGTAAGACCA-TGTCTGGGAC
101930603 GTTGGTATTG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 29 0.53
42 2 0.04
43 24 0.44
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCGATGATTGA
Found at i:101949144 original size:11 final size:11
Alignment explanation
Indices: 101949128--101949156 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
101949118 TGGTTATTAT
101949128 TGCTAGTCTAC
1 TGCTAGTCTAC
101949139 TGCTAGTCTAC
1 TGCTAGTCTAC
101949150 TGCTAGT
1 TGCTAGT
101949157 TATTGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (11 bp):
TGCTAGTCTAC
Found at i:101954944 original size:44 final size:44
Alignment explanation
Indices: 101954894--101954983 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
101954884 TAATTGTAAT
* * * * **
101954894 TTAAATTCTAATTATTTTTAAATGTGTATTTATCACAACTTCTA
1 TTAAATTATAACTATTTTTAAATATATAAGTATCACAACTTCTA
*
101954938 TTAAATTATAACTATTTTTAAATATATAAGTATCGCAACTTCTA
1 TTAAATTATAACTATTTTTAAATATATAAGTATCACAACTTCTA
101954982 TT
1 TT
101954984 TTATTTAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (44 bp):
TTAAATTATAACTATTTTTAAATATATAAGTATCACAACTTCTA
Found at i:101955860 original size:29 final size:29
Alignment explanation
Indices: 101955823--101955880 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
101955813 ATACATTAAG
101955823 AATATCAACACCATTCAAAGCCCAAAGAT
1 AATATCAACACCATTCAAAGCCCAAAGAT
101955852 AATATCAACACCATTCAAAGCCCAAAGAT
1 AATATCAACACCATTCAAAGCCCAAAGAT
101955881 TTTGTTTTAA
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:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (29 bp):
AATATCAACACCATTCAAAGCCCAAAGAT
Found at i:101963322 original size:40 final size:40
Alignment explanation
Indices: 101963257--101963351 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
101963247 CCATCTCCAT
* * *
101963257 CCAACCCAACACACC-A-TGTGGGGATAAAATTGACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
* * *
101963295 CCAGCCCTACACACCAAGTATGGGGATAAAATTAACTCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
*
101963335 CCAATCCTACACACCAA
1 CCAACCCTACACACCAA
101963352 AAAGTATCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 13 0.28
39 1 0.02
40 33 0.70
ACGTcount: A:0.38, C:0.34, G:0.13, T:0.16
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
Found at i:101965452 original size:29 final size:29
Alignment explanation
Indices: 101965420--101965496 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
101965410 AATCATATTC
*
101965420 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
101965449 ATATGGCCTATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
101965478 ATATGGCCCGTTAAGCCCA
1 ATATGGCCCATTAGGCCCA
101965497 GTCACATTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:101965733 original size:8 final size:8
Alignment explanation
Indices: 101965720--101965761 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
101965710 GTAGCCAAAC
101965720 TTTCGGCT
1 TTTCGGCT
*
101965728 TTTCGGCA
1 TTTCGGCT
101965736 TTT-GGCT
1 TTTCGGCT
*
101965743 TTTCGGCA
1 TTTCGGCT
*
101965751 TTTCGACT
1 TTTCGGCT
101965759 TTT
1 TTT
101965762 GTCGATACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.50
Consensus pattern (8 bp):
TTTCGGCT
Found at i:101965744 original size:15 final size:15
Alignment explanation
Indices: 101965724--101965753 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101965714 CCAAACTTTC
101965724 GGCTTTTCGGCATTT
1 GGCTTTTCGGCATTT
101965739 GGCTTTTCGGCATTT
1 GGCTTTTCGGCATTT
101965754 CGACTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.27, T:0.47
Consensus pattern (15 bp):
GGCTTTTCGGCATTT
Found at i:101967915 original size:13 final size:13
Alignment explanation
Indices: 101967893--101967925 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
101967883 AAGGGTTTGT
101967893 TTAT-TAAACTAA
1 TTATCTAAACTAA
101967905 TTATCTAAACTAA
1 TTATCTAAACTAA
*
101967918 TTAACTAA
1 TTATCTAA
101967926 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:101970919 original size:14 final size:14
Alignment explanation
Indices: 101970900--101970926 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101970890 AATATAATTA
101970900 TTACTATTATTATT
1 TTACTATTATTATT
101970914 TTACTATTATTAT
1 TTACTATTATTAT
101970927 CTAATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTACTATTATTATT
Found at i:101971095 original size:3 final size:3
Alignment explanation
Indices: 101971089--101971215 Score: 57
Period size: 3 Copynumber: 41.7 Consensus size: 3
101971079 TATTTCTAAA
* *
101971089 TAT TAT T-T TTT TAT GTAT ATAT TAT TAAT TA- TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * ** * *
101971135 TAC TAT TAT TAAA TAT CCT TAT TAT TAC TAT TAT T-T TCAT TCCT T-T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT T-AT TAT
* * *
101971181 TAT TAT TGCT TAT TAT CAT T-G TAT TAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA
101971216 CTTTCTTTGT
Statistics
Matches: 93, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
2 9 0.10
3 66 0.71
4 18 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:101983785 original size:43 final size:42
Alignment explanation
Indices: 101983732--101984059 Score: 173
Period size: 43 Copynumber: 7.6 Consensus size: 42
101983722 GTAAGCCTTA
*
101983732 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT
1 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
* * ** ** *
101983774 AACCCCTTAAGCGGTAGGGAAACA-AATCGAAGGCGA-AGAGCCTT
1 AACCCC-TAAGCAGTAGGGTAACAGGCT-GAA-TTGACAGA-TCTT
* *
101983818 AAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
** * * * ** *
101983861 GTCTCCCTAAGCAGTAGTGAAACA-GATCGAAGGCGA-AGAGCCTT
1 AAC-CCCTAAGCAGTAGGGTAACAGGCT-GAA-TTGACAGA-TCTT
* *
101983905 AAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
** * * ** ** * * *
101983948 GTCTCTCTAAGCAGTAGTGG--AGAGAATCGAAGACGAAAAACCTT
1 AAC-CCCTAAGCAGTAG-GGTAACAGGCT-GAA-TTGACAGATCTT
*
101983992 AAACCCCTAAGCAGTAGGGTAACAGGCTGAATTAACAGATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
*
101984035 AACCCCTTAAGCAGTAGGGAAACAG
1 AACCCC-TAAGCAGTAGGGTAACAG
101984060 AAGGAAGGCG
Statistics
Matches: 201, Mismatches: 63, Indels: 43
0.65 0.21 0.14
Matches are distributed among these distances:
42 21 0.10
43 91 0.45
44 74 0.37
45 15 0.07
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (42 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTGAATTGACAGATCTT
Found at i:101983828 original size:87 final size:87
Alignment explanation
Indices: 101983725--101984116 Score: 522
Period size: 87 Copynumber: 4.5 Consensus size: 87
101983715 AAAGACGGTA
*
101983725 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCGGTA
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
101983790 GGGAAACAAATCGAAGGCGAAG
66 GGGAAACAAATCGAAGGCGAAG
* **
101983812 AGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTGTCTCCC-TAAGCAGT
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC-CCCTTAAGCAGT
* *
101983876 AGTGAAACAGATCGAAGGCGAAG
65 AGGGAAACAAATCGAAGGCGAAG
* ** *
101983899 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTT-GTCTCTCTAAGCAGT
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCT-TAAGCAGT
* * * *
101983963 AGTGGAGA-GAATCGAAGACGAAA
65 AG-GGAAACAAATCGAAGGCGAAG
* *
101983986 AACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTAACAGATCTTAACCCCTTAAGCAGTA
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
* *
101984051 GGGAAACAGAA-GGAAGGCGATG
66 GGGAAACA-AATCGAAGGCGAAG
* * *
101984073 GGCCTTAAACCCCTATGCAGTAGGGTAACAGGCTGGAAATTACA
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA
101984117 ATTCTCTTAT
Statistics
Matches: 263, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.01
86 4 0.02
87 239 0.91
88 18 0.07
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (87 bp):
AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
GGGAAACAAATCGAAGGCGAAG
Found at i:101983835 original size:44 final size:44
Alignment explanation
Indices: 101983774--101983928 Score: 120
Period size: 44 Copynumber: 3.5 Consensus size: 44
101983764 TACAGATCTT
*
101983774 AACCCCTTAAGCGGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
1 AACCCC-TAAGCAGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
* * ** *** *
101983819 AACCCCTAAGTAGTAGGGTAAC-AGGCTGAA-TTTACAGA-TCTT-
1 AACCCCTAAGCAGTAGGGAAACAAATC-GAAGGCGA-AGAGCCTTA
** * *
101983861 GTCTCCCTAAGCAGTAGTGAAACAGATCGAAGGCGAAGAGCCTTA
1 AAC-CCCTAAGCAGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
*
101983906 AACCCCTAAGCAGTAGGGTAACA
1 AACCCCTAAGCAGTAGGGAAACA
101983929 GGCTAAATTT
Statistics
Matches: 78, Mismatches: 25, Indels: 15
0.66 0.21 0.13
Matches are distributed among these distances:
42 1 0.01
43 28 0.36
44 42 0.54
45 7 0.09
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (44 bp):
AACCCCTAAGCAGTAGGGAAACAAATCGAAGGCGAAGAGCCTTA
Found at i:101983929 original size:44 final size:44
Alignment explanation
Indices: 101983725--101984107 Score: 168
Period size: 43 Copynumber: 8.8 Consensus size: 44
101983715 AAAGACGGTA
***
101983725 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* * * **
101983769 A-TCTT-AACCCCTTAAGCGGTAGGGAAACA-AATCGAAGGCGA-AG
1 AGCCTTAAACCCC-TAAGCAGTAGGGTAACAGGCT-GAA-GCGACAG
* ***
101983812 AGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* ** * * *
101983856 A-TCTT-GTCTCCCTAAGCAGTAGTGAAACA-GATCGAAGGCGA-AG
1 AGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAA-GCGACAG
* ***
101983899 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* ** * * ** *
101983943 A-TCTT-GTCTCTCTAAGCAGTAGTGG--AGAGAATCGAAGACGA-AA
1 AGCCTTAAAC-CCCTAAGCAGTAG-GGTAACAGGCT-GAAG-CGACAG
* ***
101983986 AACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTAACAG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
* * *** *
101984030 A-TCTT-AACCCCTTAAGCAGTAGGGAAACAGAAGGAAGGCGA-TG
1 AGCCTTAAACCCC-TAAGCAGTAGGGTAACAGGCTGAA-GCGACAG
* *
101984073 GGCCTTAAACCCCTATGCAGTAGGGTAACAGGCTG
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG
101984108 GAAATTACAA
Statistics
Matches: 236, Mismatches: 76, Indels: 54
0.64 0.21 0.15
Matches are distributed among these distances:
42 21 0.09
43 98 0.42
44 96 0.41
45 21 0.09
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (44 bp):
AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGCGACAG
Found at i:101985613 original size:14 final size:14
Alignment explanation
Indices: 101985594--101985620 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101985584 AATATAATTA
101985594 TTACTATTATTATT
1 TTACTATTATTATT
101985608 TTACTATTATTAT
1 TTACTATTATTAT
101985621 CTAATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTACTATTATTATT
Found at i:101985787 original size:3 final size:3
Alignment explanation
Indices: 101985781--101985927 Score: 81
Period size: 3 Copynumber: 48.7 Consensus size: 3
101985771 TATTTCTAAC
*
101985781 TAT TAT TAT T-T TAT GTAT ATAT TAT TAAT TA- TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * ** * **
101985827 TAC TAT TAT TAAA TAT CCT TAT TAT TAC TAT TAT T-T TCAT TCC T-T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * * *
101985872 TAT TAT TGTT TAT TAT CAT T-G TAT TAT TAT TAT TACT T-C TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
101985917 TAT TAT TAT TA
1 TAT TAT TAT TA
101985928 CTTTCTTTGT
Statistics
Matches: 108, Mismatches: 24, Indels: 24
0.69 0.15 0.15
Matches are distributed among these distances:
2 9 0.08
3 82 0.76
4 17 0.16
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:101985870 original size:25 final size:26
Alignment explanation
Indices: 101985820--101985878 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
101985810 TATATTATTG
101985820 TTATTATTACTATTATTAAATATCC-
1 TTATTATTACTATTATTAAATATCCT
**
101985845 TTATTATTACTATTATTTTCAT-TCCT
1 TTATTATTACTATTA-TTAAATATCCT
101985871 TTATTATT
1 TTATTATT
101985879 GTTTATTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATTATTACTATTATTAAATATCCT
Found at i:101986446 original size:24 final size:24
Alignment explanation
Indices: 101986414--101986468 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
101986404 ATTATAAGTC
101986414 TGTTTACTTACTCATATGTTTATT
1 TGTTTACTTACTCATATGTTTATT
101986438 TGTTTACTTACTCATATGTTTATT
1 TGTTTACTTACTCATATGTTTATT
*
101986462 TGCTTAC
1 TGTTTAC
101986469 CCCCGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.56
Consensus pattern (24 bp):
TGTTTACTTACTCATATGTTTATT
Found at i:101988643 original size:6 final size:5
Alignment explanation
Indices: 101988614--101988652 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
101988604 AAATTAAAAT
101988614 AATAA AATAA AATAA AATAA AATAAA AATAA GAATAA AA
1 AATAA AATAA AATAA AATAA AAT-AA AATAA -AATAA AA
101988653 AGATAGAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 22 0.69
6 10 0.31
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AATAA
Done.