Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 155 of 207
Found at i:47561050 original size:16 final size:16
Alignment explanation
Indices: 47561029--47561062 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
47561019 TTTGCATGTT
47561029 AGAGGAAAACCTTGGA
1 AGAGGAAAACCTTGGA
47561045 AGAGGAAAACCTTGGA
1 AGAGGAAAACCTTGGA
47561061 AG
1 AG
47561063 GTTATTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.32, T:0.12
Consensus pattern (16 bp):
AGAGGAAAACCTTGGA
Found at i:47565640 original size:61 final size:61
Alignment explanation
Indices: 47565524--47565699 Score: 148
Period size: 60 Copynumber: 2.9 Consensus size: 61
47565514 TTTTTAAAAC
* * * * * *
47565524 TTTTAGAATTAGAATTAAGTTGACAAAATTTGTAAATATTTAGATCTAAATTTATTGATTT
1 TTTTAGAATTAAAAATAAGATGACAAAATTTGTAAACATTGAGAGCTAAATTTATTGATTT
* *
47565585 TTTTAGAATTAAAAATAA-ATGACAAATTTTGTAAACATTGAGGGCT-AA-TTATT-ATTT
1 TTTTAGAATTAAAAATAAGATGACAAAATTTGTAAACATTGAGAGCTAAATTTATTGATTT
* * * * * *
47565642 TTTTCAAAATTTAAGACTAA-ATTGATAAAATGTGTAAATATT-AGGAGCTAAATTTATT
1 TTTT-AGAA-TTAAAAATAAGA-TGACAAAATTTGTAAACATTGA-GAGCTAAATTTATT
47565700 ATTAGACCAA
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
57 8 0.09
58 8 0.09
59 12 0.13
60 42 0.45
61 18 0.19
62 5 0.05
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (61 bp):
TTTTAGAATTAAAAATAAGATGACAAAATTTGTAAACATTGAGAGCTAAATTTATTGATTT
Found at i:47566924 original size:19 final size:18
Alignment explanation
Indices: 47566896--47566935 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
47566886 AATCAAAACT
**
47566896 AAAATCAAATTCGAATTA
1 AAAATCAAATTAAAATTA
47566914 AAAACTCAAATTAAAATTA
1 AAAA-TCAAATTAAAATTA
47566933 AAA
1 AAA
47566936 CTAATGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAATCAAATTAAAATTA
Found at i:47576892 original size:38 final size:38
Alignment explanation
Indices: 47576850--47576925 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
47576840 GTAACGGAAA
* * *
47576850 ATGTTAAT-GAGTGATTGATTTGTAACTTTTTGATAATG
1 ATGTTAATGGA-TGACTAATTTGTAACTTTTCGATAATG
*
47576888 ATGTTAATGGATGACTAATTTGTCACTTTTCGATAATG
1 ATGTTAATGGATGACTAATTTGTAACTTTTCGATAATG
47576926 TTAGTGACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 31 0.94
39 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.45
Consensus pattern (38 bp):
ATGTTAATGGATGACTAATTTGTAACTTTTCGATAATG
Found at i:47576940 original size:31 final size:30
Alignment explanation
Indices: 47576899--47576966 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
47576889 TGTTAATGGA
*
47576899 TGACTAATTTGTCACTTTTCGATAATGTT-AG
1 TGACTGATTTGTCACTTTTCGA-AA-GTTGAG
* * *
47576930 TGACTGATTTGTTATTTTTTGAAAGTTGAG
1 TGACTGATTTGTCACTTTTCGAAAGTTGAG
47576960 TGACTGA
1 TGACTGA
47576967 ATTGAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.34
31 18 0.56
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.46
Consensus pattern (30 bp):
TGACTGATTTGTCACTTTTCGAAAGTTGAG
Found at i:47584458 original size:18 final size:20
Alignment explanation
Indices: 47584419--47584458 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
47584409 CACCCCTCCT
*
47584419 TTTTTATTTTACTTTTATTA
1 TTTTTATTTTACTTTCATTA
47584439 TTTTTA-TTTA-TTTCATTA
1 TTTTTATTTTACTTTCATTA
47584457 TT
1 TT
47584459 ATTTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTATTTTACTTTCATTA
Found at i:47584459 original size:3 final size:3
Alignment explanation
Indices: 47584433--47584515 Score: 64
Period size: 3 Copynumber: 27.7 Consensus size: 3
47584423 TATTTTACTT
* *
47584433 TTA TTA TTT TTA TTTA TT- TCA TTA TTA TT- TTAA TTA TTA TTA -TA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * * *
47584477 TTA GTA GTTA TTA TTA TTC CTA TTA TTA TTA ATA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47584516 GCTACTACTA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
2 5 0.08
3 50 0.81
4 7 0.11
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:47584460 original size:15 final size:14
Alignment explanation
Indices: 47584422--47584507 Score: 50
Period size: 15 Copynumber: 5.6 Consensus size: 14
47584412 CCCTCCTTTT
*
47584422 TTATT-TTACTTTTA
1 TTATTATTA-TTTAA
* *
47584436 TTATTTTTATTTAT
1 TTATTATTATTTAA
47584450 TTCATTATTATTTTAA
1 TT-ATTATTA-TTTAA
47584466 TTATTATTATATTAGTA
1 TTATTATTAT-TTA--A
47584483 GTTATTATTATTCCT-A
1 -TTATTATTATT--TAA
47584499 TTATTATTA
1 TTATTATTA
47584508 ATATTATTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.19
15 28 0.47
16 7 0.12
17 2 0.03
18 10 0.17
19 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (14 bp):
TTATTATTATTTAA
Found at i:47584474 original size:18 final size:18
Alignment explanation
Indices: 47584422--47584494 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 18
47584412 CCCTCCTTTT
*
47584422 TTATTTTACTT-TTATTA
1 TTATTTTAATTATTATTA
*
47584439 -T-TTTTATTTATTTCATTA
1 TTATTTTAATTA-TT-ATTA
47584457 TTATTTTAATTATTATTA
1 TTATTTTAATTATTATTA
* *
47584475 -TATTAGTAGTTATTATTA
1 TTATT-TTAATTATTATTA
47584493 TT
1 TT
47584495 CCTATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
15 7 0.16
16 1 0.02
17 6 0.13
18 19 0.42
19 4 0.09
20 8 0.18
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTTTAATTATTATTA
Found at i:47595821 original size:26 final size:25
Alignment explanation
Indices: 47595768--47595823 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
47595758 GTGAATCCAA
*
47595768 CATATCAAAACATATGCATATTTGT
1 CATATCAAAACATATGCATATTGGT
47595793 CATATCCAAAACATACT-CAT-TTGGTT
1 CATAT-CAAAACATA-TGCATATTGG-T
47595819 CATAT
1 CATAT
47595824 GCTTCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
26 18 0.67
27 1 0.04
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (25 bp):
CATATCAAAACATATGCATATTGGT
Found at i:47601764 original size:23 final size:23
Alignment explanation
Indices: 47601721--47601783 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
47601711 TTATTATTGG
*
47601721 TTATTTT-TTCTAGTTTGTTATCTCT
1 TTATTTTATT-TA-TTT-TTATCTAT
47601746 TTATTTTATTTATTTTTATCTAT
1 TTATTTTATTTATTTTTATCTAT
* *
47601769 TT-TCTTATTTGTTTT
1 TTATTTTATTTATTTT
47601784 CTCGGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 11 0.32
23 9 0.26
24 3 0.09
25 9 0.26
26 2 0.06
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.73
Consensus pattern (23 bp):
TTATTTTATTTATTTTTATCTAT
Found at i:47605857 original size:18 final size:18
Alignment explanation
Indices: 47605834--47605870 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47605824 TTATGAATTC
47605834 ACTATTAATCTCAATACA
1 ACTATTAATCTCAATACA
47605852 ACTATTAATCTCAATACA
1 ACTATTAATCTCAATACA
47605870 A
1 A
47605871 TCAGACTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (18 bp):
ACTATTAATCTCAATACA
Found at i:47614182 original size:15 final size:15
Alignment explanation
Indices: 47614156--47614215 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
47614146 CTACAGAAGA
47614156 CACATGG-C-TGTGT
1 CACATGGCCATGTGT
*
47614169 CACACT-GCCGTGTGT
1 CACA-TGGCCATGTGT
47614184 CACATGGCCATGTGT
1 CACATGGCCATGTGT
47614199 --CA-GGCCATGTGT
1 CACATGGCCATGTGT
47614211 -ACATG
1 CACATG
47614216 AAATTTGTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 10 0.25
13 9 0.22
14 4 0.10
15 17 0.43
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (15 bp):
CACATGGCCATGTGT
Found at i:47623866 original size:27 final size:27
Alignment explanation
Indices: 47623741--47623991 Score: 193
Period size: 27 Copynumber: 9.3 Consensus size: 27
47623731 TCGATATCTA
* *
47623741 GACCGAAATACCCTCGAT-GGGTAAAAT
1 GACCGTAATACCC-CTATAGGGTAAAAT
* * * * * *
47623768 GACTGAAATGCCCCCATACGATAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* ** *
47623795 GACCGAAATACCCCCGTAGGGTAGAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * *
47623822 -ACTG-AACAACCCTCATAGGGTAAAAT
1 GACCGTAATACCCCT-ATAGGGTAAAAT
*
47623848 GATCGTAATACCCCTATAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * *
47623875 GACCGTAATGCCCCTGTAGGGTAAAGT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * *
47623902 GACTGTAATGCCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * *
47623929 CATCGTAATACCCCTATAGGTTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * *
47623956 GACCGTAATAGCCTTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* *
47623983 AACTGTAAT
1 GACCGTAAT
47623992 TCCTGGTGGG
Statistics
Matches: 179, Mismatches: 41, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
25 6 0.03
26 16 0.09
27 150 0.84
28 7 0.04
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GACCGTAATACCCCTATAGGGTAAAAT
Found at i:47623937 original size:81 final size:81
Alignment explanation
Indices: 47623789--47623991 Score: 250
Period size: 81 Copynumber: 2.5 Consensus size: 81
47623779 CCCCATACGA
* * * * *** * *
47623789 TAAAATGACCGAAATACCCCCGTAGGGTAGAAT-ACTG-AACAACCCTCATAGGGTAAAATGATC
1 TAAAATGACCGTAATAGCCCTGTAGGGTAAAATAACTGTAATGCCCCT-GTAGGGTAAAATCATC
47623852 GTAATACCCCTATAGGG
65 GTAATACCCCTATAGGG
* *
47623869 TAAAATGACCGTAAT-GCCCCTGTAGGGTAAAGTGACTGTAATGCCCCTGTAGGGTAAAATCATC
1 TAAAATGACCGTAATAG-CCCTGTAGGGTAAAATAACTGTAATGCCCCTGTAGGGTAAAATCATC
*
47623933 GTAATACCCCTATAGGT
65 GTAATACCCCTATAGGG
*
47623950 TAAAATGACCGTAATAGCCTTGTAGGGTAAAATAACTGTAAT
1 TAAAATGACCGTAATAGCCCTGTAGGGTAAAATAACTGTAAT
47623992 TCCTGGTGGG
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
80 27 0.26
81 71 0.68
82 7 0.07
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (81 bp):
TAAAATGACCGTAATAGCCCTGTAGGGTAAAATAACTGTAATGCCCCTGTAGGGTAAAATCATCG
TAATACCCCTATAGGG
Found at i:47623991 original size:54 final size:54
Alignment explanation
Indices: 47623759--47623991 Score: 220
Period size: 54 Copynumber: 4.3 Consensus size: 54
47623749 TACCCTCGAT
* * * * * * *
47623759 GGGTAAAATGACTGAAATGCCCCCATACGATAAAATGACCGAAATACCCCCGTA
1 GGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTA
* * * * *
47623813 GGGTAGAAT-ACTG-AACAACCCTCATAGGGTAAAATGATCGTAATACCCCTATA
1 GGGTAAAATGACTGTAATACCCCT-ATAGGGTAAAATGACCGTAATACCCCTGTA
* * * * * *
47623866 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAGTGACTGTAATGCCCCTGTA
1 GGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTA
* * * *
47623920 GGGTAAAATCA-TCGTAATACCCCTATAGGTTAAAATGACCGTAATAGCCTTGTA
1 GGGTAAAATGACT-GTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTA
*
47623974 GGGTAAAATAACTGTAAT
1 GGGTAAAATGACTGTAAT
47623992 TCCTGGTGGG
Statistics
Matches: 141, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
52 5 0.04
53 36 0.26
54 93 0.66
55 7 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (54 bp):
GGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTA
Found at i:47624087 original size:24 final size:24
Alignment explanation
Indices: 47624054--47624112 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
47624044 TCTGTGGTTA
47624054 AATGACTGATTTGT-CTGTG-TTTGG
1 AATGACTGATTTGTGC-GTGATTT-G
*
47624078 TATGACTGATTTGTGCGTGATTTG
1 AATGACTGATTTGTGCGTGATTTG
47624102 AATGACTGATT
1 AATGACTGATT
47624113 CTGAGCATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.20, C:0.08, G:0.27, T:0.44
Consensus pattern (24 bp):
AATGACTGATTTGTGCGTGATTTG
Found at i:47624328 original size:32 final size:32
Alignment explanation
Indices: 47624286--47624496 Score: 153
Period size: 32 Copynumber: 6.6 Consensus size: 32
47624276 CGATGCTACC
* *
47624286 GATGGATTTGTGCCGGTCATAGTACCGTTACT
1 GATGGCTTTGTGCCGATCATAGTACCGTTACT
* * *
47624318 GATGGCTTTGTGCCGATCATATTACCATTACC
1 GATGGCTTTGTGCCGATCATAGTACCGTTACT
* * * **
47624350 AATGGCTGTGTGCCGATCAT-TTCACTATTACT
1 GATGGCTTTGTGCCGATCATAGT-ACCGTTACT
* * ** * *
47624382 AATGG-TTGTGTACCGATCATACCACTGCTACT
1 GATGGCTT-TGTGCCGATCATAGTACCGTTACT
* *
47624414 GATGGCTTTGTGTCGATTAT-GTTACCGTTACT
1 GATGGCTTTGTGCCGATCATAG-TACCGTTACT
* *
47624446 GATGG-TTGTGTGCCGATCATA-TCACTGCTACT
1 GATGGCTT-TGTGCCGATCATAGT-ACCGTTACT
*
47624478 GATGGCTTTGTGCCAATCA
1 GATGGCTTTGTGCCGATCA
47624497 CATTACTGTA
Statistics
Matches: 142, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
31 6 0.04
32 132 0.93
33 4 0.03
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (32 bp):
GATGGCTTTGTGCCGATCATAGTACCGTTACT
Found at i:47624419 original size:64 final size:64
Alignment explanation
Indices: 47624351--47624496 Score: 195
Period size: 64 Copynumber: 2.3 Consensus size: 64
47624341 ACCATTACCA
* *
47624351 ATGGCTGTGTGCCGATCAT-TTCACTATTACTAATGGTTGTGTACCGATCATACCACTGCTACTG
1 ATGGCTTTGTGCCGATCATGTT-ACCATTACTAATGGTTGTGTACCGATCATACCACTGCTACTG
* * * * * *
47624415 ATGGCTTTGTGTCGATTATGTTACCGTTACTGATGGTTGTGTGCCGATCATATCACTGCTACTG
1 ATGGCTTTGTGCCGATCATGTTACCATTACTAATGGTTGTGTACCGATCATACCACTGCTACTG
*
47624479 ATGGCTTTGTGCCAATCA
1 ATGGCTTTGTGCCGATCA
47624497 CATTACTGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
64 68 0.97
65 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (64 bp):
ATGGCTTTGTGCCGATCATGTTACCATTACTAATGGTTGTGTACCGATCATACCACTGCTACTG
Found at i:47624552 original size:22 final size:22
Alignment explanation
Indices: 47624508--47624554 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
47624498 ATTACTGTAC
* **
47624508 TTATAGCTTGTAGCCATTTTGT
1 TTATAGCTTATAGCCATCCTGT
*
47624530 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
47624552 TTA
1 TTA
47624555 CGACTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:47630398 original size:106 final size:106
Alignment explanation
Indices: 47630213--47630415 Score: 406
Period size: 106 Copynumber: 1.9 Consensus size: 106
47630203 ATTGCTGCAA
47630213 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
1 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
47630278 GTTGTTTTAATGTAAATGAATCAATATATATAATATGTTGT
66 GTTGTTTTAATGTAAATGAATCAATATATATAATATGTTGT
47630319 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
1 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
47630384 GTTGTTTTAATGTAAATGAATCAATATATATA
66 GTTGTTTTAATGTAAATGAATCAATATATATA
47630416 TGATTATGTC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (106 bp):
TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
GTTGTTTTAATGTAAATGAATCAATATATATAATATGTTGT
Found at i:47630724 original size:20 final size:20
Alignment explanation
Indices: 47630709--47630746 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47630699 AAAGGAATGG
47630709 TAAGTGTACAAAAGGAACCA
1 TAAGTGTACAAAAGGAACCA
47630729 TAAGTGTACAAAAGGAAC
1 TAAGTGTACAAAAGGAAC
47630747 TATGTCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (20 bp):
TAAGTGTACAAAAGGAACCA
Found at i:47631397 original size:24 final size:24
Alignment explanation
Indices: 47631370--47631420 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
47631360 AAGTTTATGC
47631370 TAAGAAAATG-GAATGGAAAGTAAG
1 TAAGAAAATGAG-ATGGAAAGTAAG
* *
47631394 TAAGTAAATGAGGTGGAAAGTAAG
1 TAAGAAAATGAGATGGAAAGTAAG
47631418 TAA
1 TAA
47631421 ATGGAATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (24 bp):
TAAGAAAATGAGATGGAAAGTAAG
Found at i:47638965 original size:8 final size:8
Alignment explanation
Indices: 47638954--47638979 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
47638944 TTATTTAATT
47638954 TAAAATAA
1 TAAAATAA
47638962 TAAAATAA
1 TAAAATAA
47638970 TAAAATAA
1 TAAAATAA
47638978 TA
1 TA
47638980 TTTAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
TAAAATAA
Found at i:47639030 original size:75 final size:75
Alignment explanation
Indices: 47638881--47639031 Score: 277
Period size: 76 Copynumber: 2.0 Consensus size: 75
47638871 TATATATACT
*
47638881 AAATAATAAAATAATAAAATATTATTTAAAATCAAATTAAAATATTAATAAACTAATATTTATTT
1 AAATAATAAAATAATAAAATAATATTTAAAATCAAATTAAAATATTAATAAACTAATATTTATTT
47638946 ATTTAATTTA
66 ATTTAATTTA
47638956 AAATAATAAAATAATAAAATAATATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATT
1 AAATAATAAAATAATAAAATAATATTT-AAAATCAAATTAAAATATTAATAAACTAATATTTATT
47639021 TATTT-ATTTA
65 TATTTAATTTA
47639031 A
1 A
47639032 TCTAAAATAT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
75 32 0.43
76 42 0.57
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (75 bp):
AAATAATAAAATAATAAAATAATATTTAAAATCAAATTAAAATATTAATAAACTAATATTTATTT
ATTTAATTTA
Found at i:47641317 original size:33 final size:33
Alignment explanation
Indices: 47641275--47641497 Score: 152
Period size: 33 Copynumber: 6.4 Consensus size: 33
47641265 GTAGATTCAA
*
47641275 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
47641308 CACTTAGCAACCCCTGTCACATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAG
*
47641351 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
47641384 TACTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * *
47641411 CACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
*
47641453 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
47641486 CACTTAGCAACC
1 CACTTAGCAACC
47641498 CCTTAGGGAA
Statistics
Matches: 151, Mismatches: 14, Indels: 50
0.70 0.07 0.23
Matches are distributed among these distances:
27 20 0.13
28 2 0.01
29 1 0.01
31 1 0.01
32 2 0.01
33 49 0.32
34 13 0.09
36 2 0.01
37 3 0.02
38 1 0.01
39 5 0.03
40 1 0.01
41 6 0.04
42 27 0.18
43 18 0.12
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:47641468 original size:102 final size:102
Alignment explanation
Indices: 47641298--47641528 Score: 394
Period size: 102 Copynumber: 2.3 Consensus size: 102
47641288 CCAGTGATTC
*
47641298 GGGGAATCAGCACTTAGCAA-CCCCTGTCACATTCAATGATACGGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCT-TCACATTCAATAATACGGTGGAATCAGCACTTAGCAAC
*
47641362 CACCAATGAATCGGGGAATCAGTACTTAGCAACCCCTT
65 CACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
*
47641400 GGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAA-AATACGGTGGAATCAGCACTTAGCAAC
1 -GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAATAATACGGTGGAATCAGCACTTAGCAAC
47641464 CACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
65 CACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
*
47641502 AGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
47641529 TATATCCAAA
Statistics
Matches: 123, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
101 26 0.21
102 63 0.51
103 29 0.24
104 5 0.04
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAATAATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
Found at i:47641629 original size:51 final size:51
Alignment explanation
Indices: 47641553--47641741 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 51
47641543 CCGGTTCACA
* *
47641553 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * *
47641604 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCGATACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTATCCGATACACG
* * * * *
47641655 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTATCCGATACACG
47641705 TA--AGCCTACACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
47641742 TTCACTTTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
47 4 0.03
48 27 0.23
50 11 0.09
51 71 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:47641757 original size:99 final size:99
Alignment explanation
Indices: 47641550--47641733 Score: 275
Period size: 102 Copynumber: 1.8 Consensus size: 99
47641540 ATACCGGTTC
*
47641550 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAG-AGCCTAC
*
47641615 ACATAGTACTACACACGTGATCGAAGCTATCCGAT
65 ACATAGTACTACACACGTGATCCAAGCTATCCGAT
* *
47641650 ACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTA-AGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGAGCCT
47641712 ACACATAGTACTACACACGTGA
63 ACACATAGTACTACACACGTGA
47641734 CCATCACTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
99 27 0.35
100 1 0.01
101 11 0.14
102 35 0.45
103 4 0.05
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGAGCCTACA
CATAGTACTACACACGTGATCCAAGCTATCCGAT
Found at i:47645741 original size:30 final size:31
Alignment explanation
Indices: 47645674--47645743 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
47645664 CCACCCTTAA
*** *
47645674 AATATTTACACCTTTGGTCCTTCAAATTTTT
1 AATATTTACACCTTTAACCCTTCAAATTTTG
**
47645705 TGTATTTACA-CTTTAACCCTTCAAATTTTG
1 AATATTTACACCTTTAACCCTTCAAATTTTG
47645735 AATATTTAC
1 AATATTTAC
47645744 TCTTGACCCA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.47
Consensus pattern (31 bp):
AATATTTACACCTTTAACCCTTCAAATTTTG
Found at i:47656603 original size:23 final size:23
Alignment explanation
Indices: 47656577--47656625 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
47656567 TTCAATACGA
47656577 ACAAATACATGTATATATGAAAT
1 ACAAATACATGTATATATGAAAT
47656600 ACAAATACATGTATATATGAAAT
1 ACAAATACATGTATATATGAAAT
47656623 ACA
1 ACA
47656626 TTGAAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (23 bp):
ACAAATACATGTATATATGAAAT
Found at i:47669466 original size:19 final size:19
Alignment explanation
Indices: 47669442--47669485 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
47669432 TATAAATTGT
47669442 ATATATTTAAAATTTTAAA
1 ATATATTTAAAATTTTAAA
* *
47669461 ATATATATATAATTTTAAA
1 ATATATTTAAAATTTTAAA
47669480 AT-TATT
1 ATATATT
47669486 AAATATTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATTTAAAATTTTAAA
Found at i:47669518 original size:18 final size:15
Alignment explanation
Indices: 47669495--47669537 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 15
47669485 TAAATATTAG
47669495 ATAAAAAAGTTTATAAAA
1 ATAAAAAA-TTT-T-AAA
47669513 ATAAAATAATTTTAAA
1 ATAAAA-AATTTTAAA
47669529 ATAAAAAAT
1 ATAAAAAAT
47669538 ATGAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 9 0.38
17 1 0.04
18 9 0.38
19 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAAAAAATTTTAAA
Found at i:47672983 original size:2 final size:2
Alignment explanation
Indices: 47672976--47673009 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
47672966 TTCGCGCATG
*
47672976 CA CA CA CA GA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
47673010 TATATATGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:47677704 original size:16 final size:16
Alignment explanation
Indices: 47677683--47677714 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47677673 TATTTATTTA
*
47677683 CAAAAATTATCTAAGT
1 CAAAAATTATATAAGT
47677699 CAAAAATTATATAAGT
1 CAAAAATTATATAAGT
47677715 AAATGATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (16 bp):
CAAAAATTATATAAGT
Found at i:47678508 original size:46 final size:47
Alignment explanation
Indices: 47678456--47678549 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
47678446 ATTTCCTATT
* * *
47678456 TCTATTTTGCATATTTGTTATTCTCTTT-TCTTCCCATATTTGATTC
1 TCTATTTTGCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
* * *
47678502 TCTATTTTTCATATATGTTAGTATCTTTCTTTTCTCATATTTGATTC
1 TCTATTTTGCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
47678549 T
1 T
47678550 TGTTTTCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 24 0.59
47 17 0.41
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (47 bp):
TCTATTTTGCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
Found at i:47678517 original size:23 final size:24
Alignment explanation
Indices: 47678456--47678517 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 24
47678446 ATTTCCTATT
* *
47678456 TCTATTTTGCATAT-TTGTTATTC
1 TCTATTTTTCATATATTGTGATTC
**
47678479 TCT-TTTCTTCCCATATT-TGATTC
1 TCTATTT-TTCATATATTGTGATTC
47678502 TCTATTTTTCATATAT
1 TCTATTTTTCATATAT
47678518 GTTAGTATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
22 3 0.10
23 22 0.73
24 5 0.17
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.60
Consensus pattern (24 bp):
TCTATTTTTCATATATTGTGATTC
Found at i:47678557 original size:106 final size:107
Alignment explanation
Indices: 47678349--47678547 Score: 276
Period size: 106 Copynumber: 1.9 Consensus size: 107
47678339 AATACATATC
** * * *
47678349 TCTATTTTTTATATATGTTATTCTCTTTCCTTTCTCATATTTGATTCTTTATTTTCCATGTATGT
1 TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
* * *
47678414 TATTCTCTTTGTTTTCCAATATTTGATTTTCCATTTCCTATT
66 TAGTATCTTTCTTTTCCAATATTTGATTTTCCATTTCCTATT
* * *
47678456 TCTATTTTGCATATTTGTTATTCTCTTTTC-TTCCCATATTTGATTCTCTATTTTTCATATATGT
1 TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
47678520 TAGTATCTTTCTTTTCTC-ATATTTGATT
66 TAGTATCTTTCTTTTC-CAATATTTGATT
47678548 CTTGTTTTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
106 53 0.66
107 27 0.34
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (107 bp):
TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
TAGTATCTTTCTTTTCCAATATTTGATTTTCCATTTCCTATT
Found at i:47688420 original size:20 final size:20
Alignment explanation
Indices: 47688395--47688435 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
47688385 ATAGTTCTGG
*
47688395 AGTTGAAACTGTAGACTTTC
1 AGTTGAAACTATAGACTTTC
47688415 AGTTGAAACTATAGACTTTC
1 AGTTGAAACTATAGACTTTC
47688435 A
1 A
47688436 TTTTTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
AGTTGAAACTATAGACTTTC
Found at i:47690520 original size:23 final size:23
Alignment explanation
Indices: 47690480--47690736 Score: 291
Period size: 23 Copynumber: 11.0 Consensus size: 23
47690470 TCTACCCTGT
*
47690480 TTGGACAGC-TCTTATACATCAAA
1 TTGGACAGCAT-TTATACACCAAA
* *
47690503 TTGGATAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACC-AAA
47690527 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * *
47690550 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
47690573 TTGGATAGCATTTTTTACACCAAAA
1 TTGGACAGCA-TTTATACACC-AAA
* *
47690598 CTAGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * * *
47690621 TTGGGCAGTATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
*
47690644 TTGGACAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACC-AAA
47690668 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * *
47690691 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
*
47690714 TTGGACAGCATTTTTACACCAAA
1 TTGGACAGCATTTATACACCAAA
47690737 ATTCACTTGA
Statistics
Matches: 193, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
23 123 0.64
24 60 0.31
25 10 0.05
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:47690697 original size:70 final size:70
Alignment explanation
Indices: 47690499--47690739 Score: 428
Period size: 70 Copynumber: 3.4 Consensus size: 70
47690489 TCTTATACAT
*
47690499 CAAATTGGATAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
1 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
47690564 TATAC
66 TATAC
* * * *
47690569 CAAATTGGATAGCATTTTTTACACCAAAACTAGACAGCATTTATACACCAAATTGGGCAGTATAT
1 CAAATTGGACAGCA-TTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATAT
47690634 ATATAC
65 ATATAC
47690640 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
1 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
47690705 TATAC
66 TATAC
47690710 CAAATTGGACAGCATTTTTACACCAAAATT
1 CAAATTGGACAGCATTTTTACACCAAAATT
47690740 CACTTGAATC
Statistics
Matches: 163, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
70 97 0.60
71 66 0.40
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (70 bp):
CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
TATAC
Found at i:47693774 original size:15 final size:15
Alignment explanation
Indices: 47693754--47693786 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
47693744 CGATATATGT
47693754 AAGACTTAGAAAACA
1 AAGACTTAGAAAACA
47693769 AAGACTTAGAAAACA
1 AAGACTTAGAAAACA
47693784 AAG
1 AAG
47693787 TTAAGAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGACTTAGAAAACA
Found at i:47694793 original size:13 final size:12
Alignment explanation
Indices: 47694771--47694823 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
47694761 ATAATGAATG
47694771 GTTTTTATTCAA
1 GTTTTTATTCAA
47694783 GTTTTTCATTC-A
1 GTTTTT-ATTCAA
*
47694795 GTTTTTATTCAT
1 GTTTTTATTCAA
* *
47694807 CTTTGTATT-AA
1 GTTTTTATTCAA
47694818 GTTTTT
1 GTTTTT
47694824 CTTTAGTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 9 0.27
12 20 0.61
13 4 0.12
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.62
Consensus pattern (12 bp):
GTTTTTATTCAA
Found at i:47694820 original size:23 final size:24
Alignment explanation
Indices: 47694771--47694823 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
47694761 ATAATGAATG
* * *
47694771 GTTTTTATTCAAGTTTTTCATTCA
1 GTTTTTATTCAACTTTGTCATTAA
*
47694795 GTTTTTATTCATCTTTGT-ATTAA
1 GTTTTTATTCAACTTTGTCATTAA
47694818 GTTTTT
1 GTTTTT
47694824 CTTTAGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.62
Consensus pattern (24 bp):
GTTTTTATTCAACTTTGTCATTAA
Found at i:47694900 original size:47 final size:47
Alignment explanation
Indices: 47694847--47694939 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
47694837 TTTCTTTTAT
47694847 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAACA
1 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAACA
47694894 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAAC
1 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAAC
47694940 GGATTATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (47 bp):
TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAACA
Found at i:47703530 original size:27 final size:27
Alignment explanation
Indices: 47703466--47703517 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
47703456 AGTTTGACAG
* * *
47703466 GACGTTAAACACGGGTTGGTCCCATAA
1 GACGTTAAACACGGGATAGTCCAATAA
47703493 GACGTTAAACACGGGATAGTCCAAT
1 GACGTTAAACACGGGATAGTCCAAT
47703518 GGGCCGTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
GACGTTAAACACGGGATAGTCCAATAA
Found at i:47708067 original size:3 final size:3
Alignment explanation
Indices: 47708053--47708083 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
47708043 CTAAATCTGG
*
47708053 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
47708084 CACATGCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:47718559 original size:37 final size:37
Alignment explanation
Indices: 47718518--47718628 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
47718508 TAGTTTTAGC
47718518 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
47718555 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
47718592 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
47718629 AGCCTAGCTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:47726173 original size:37 final size:37
Alignment explanation
Indices: 47726132--47726242 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
47726122 TAGTTTTAGC
*
47726132 TACACTTATCTGATTAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
47726169 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
47726206 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
47726243 AGCCTAGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:47730518 original size:20 final size:20
Alignment explanation
Indices: 47730489--47730533 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
47730479 AAAAGAAACC
47730489 TCTA-CAACTCTACAAGGGT
1 TCTACCAACTCTACAAGGGT
47730508 TCTACCAACTCTACAAGGGT
1 TCTACCAACTCTACAAGGGT
47730528 TCTACC
1 TCTACC
47730534 TTTTCTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (20 bp):
TCTACCAACTCTACAAGGGT
Found at i:47731174 original size:23 final size:23
Alignment explanation
Indices: 47731133--47731176 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
47731123 TATTTTTAAA
*
47731133 GTTTGTTTATGGTTTGGGTTTGG
1 GTTTGTTTAAGGTTTGGGTTTGG
47731156 GTTT-TTTAAGGTTTAGGGTTT
1 GTTTGTTTAAGGTTT-GGGTTT
47731177 TTAAGATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.57
Consensus pattern (23 bp):
GTTTGTTTAAGGTTTGGGTTTGG
Found at i:47731816 original size:30 final size:30
Alignment explanation
Indices: 47731759--47731817 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
47731749 GGAGAAAAGT
* * * *
47731759 TGGAGGTTGAGTTAGGGTGATAGCGGTAGC
1 TGGAGGTTGAGTCAAGGCGATACCGGTAGC
47731789 TGGAGGTTGAGTCAAGGCGATACCGGTAG
1 TGGAGGTTGAGTCAAGGCGATACCGGTAG
47731818 TATTTATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.44, T:0.24
Consensus pattern (30 bp):
TGGAGGTTGAGTCAAGGCGATACCGGTAGC
Found at i:47752112 original size:15 final size:16
Alignment explanation
Indices: 47752061--47752113 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
47752051 TACAAATCCC
47752061 TTTAAAAGTTTTATAA
1 TTTAAAAGTTTTATAA
* *
47752077 -ATAATAAGTTTTACCAA
1 TTTAA-AAGTTTTA-TAA
47752094 TTTAAAA-TTTTATAA
1 TTTAAAAGTTTTATAA
47752109 TTTAA
1 TTTAA
47752114 CTTTGGTCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 10 0.33
16 13 0.43
17 4 0.13
18 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTAAAAGTTTTATAA
Found at i:47754748 original size:23 final size:24
Alignment explanation
Indices: 47754722--47754767 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
47754712 AAATTAAATC
47754722 TCTAAGATTACAGA-ATCATATCT
1 TCTAAGATTACAGATATCATATCT
* *
47754745 TCTAAGATTGCATATATCATATC
1 TCTAAGATTACAGATATCATATC
47754768 AAAGATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (24 bp):
TCTAAGATTACAGATATCATATCT
Found at i:47754774 original size:21 final size:21
Alignment explanation
Indices: 47754748--47754799 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
47754738 CATATCTTCT
47754748 AAGATTGCATATATCATATCA
1 AAGATTGCATATATCATATCA
*
47754769 AAGATTGC--ATATCATATCT
1 AAGATTGCATATATCATATCA
47754788 AAGATTGCATAT
1 AAGATTGCATAT
47754800 CCTCAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 18 0.64
21 10 0.36
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (21 bp):
AAGATTGCATATATCATATCA
Found at i:47755190 original size:44 final size:44
Alignment explanation
Indices: 47755142--47755330 Score: 109
Period size: 44 Copynumber: 4.3 Consensus size: 44
47755132 ACCATATTCG
47755142 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCA
* ** * * *
47755186 ATCTATTCCACTGTTGCCTAGGGA-AGT-AGAAT-T-ACTAGCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA-AATCTTCA
* * ** * * * ** *
47755229 ATGTACTCCACTA-TAACCACATGGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAAATCTTCA
* * * *
47755274 ATCTTCTCCACCACTTCTTAGGGAGATAAGTTCTGAAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCA
*
47755318 ATCTATTCCACTA
1 ATCTACTCCACTA
47755331 TAATGCCAAA
Statistics
Matches: 100, Mismatches: 35, Indels: 20
0.65 0.23 0.13
Matches are distributed among these distances:
42 2 0.02
43 20 0.20
44 60 0.60
45 17 0.17
46 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCA
Found at i:47755274 original size:132 final size:132
Alignment explanation
Indices: 47755029--47755329 Score: 419
Period size: 132 Copynumber: 2.3 Consensus size: 132
47755019 TTGCAACTGC
* * *
47755029 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTACTGAC
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGACTAGGGAGATAGAATTACTGAC
* * *
47755093 TTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCCACCATATTCGATCTACTCCACTACTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATATTCGATCTACTCCACCACTG
47755158 CTT
130 CTT
* *
47755161 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGA-AGTAGAATTACT-AG
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACTAGGGAGA-TAGAATTACTGA-
* ** * *
47755224 CTTCAATGTACTCCACTATAACCACATGGAGGTAAAATCTGCCATCTTCGATCTTCTCCACCACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATATTCGATCTACTCCACCACT
*
47755289 TCTT
129 GCTT
*
47755293 AGGGAGATAAGTTCTGAAATCTTCAATCTATTCCACT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
47755330 ATAATGCCAA
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
131 2 0.01
132 146 0.97
133 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACTAGGGAGATAGAATTACTGACT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATATTCGATCTACTCCACCACTGC
TT
Found at i:47755871 original size:220 final size:220
Alignment explanation
Indices: 47755500--47755994 Score: 715
Period size: 220 Copynumber: 2.2 Consensus size: 220
47755490 TGTCGGTGCA
* * * * * * *
47755500 GGAAGACAGGACCTACTATTTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTC
1 GGAAGACAAGATCTAC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTTTC
* * ** * *
47755564 TTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCTACTTCCTACCAAT
64 TTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
* * *
47755629 ATAGGAAGACAAGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTT
129 ATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATATGCTT
* *
47755694 TCTTCGATCTACTTCGCCACCAGTATG
194 TCTTCGATCTACTCCGCCACCAATATG
*
47755721 GGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTGCTTTCT
1 GGAAGACAAGATCTACATCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTTTCT
* * * *
47755786 TCGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATA
65 TCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATA
* *
47755850 TAGGAAGACAGGACTTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATATGCTTT
130 TAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATATGCTTT
47755915 CTTCGATCTACTCCGCCACCAATATG
195 CTTCGATCTACTCCGCCACCAATATG
*
47755941 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGA
1 GGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGA
47755995 CATGCTATCT
Statistics
Matches: 245, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
219 21 0.09
220 172 0.70
221 52 0.21
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (220 bp):
GGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAT
AGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATATGCTTTC
TTCGATCTACTCCGCCACCAATATG
Found at i:47756005 original size:44 final size:44
Alignment explanation
Indices: 47755499--47756005 Score: 483
Period size: 44 Copynumber: 11.5 Consensus size: 44
47755489 CTGTCGGTGC
* * * * * * *
47755499 AGGAAGACAGGACCTACTATTTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCACCAATAT
* * *
47755543 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCG-CACCAATAT
* *
47755588 GGGAAGATAAGATCTGC-ATCTTCGATCTACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATAT
* * * * *
47755631 AGGAAGACAAGACCTGCTATCTTTGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCACCAATAT
* * * *
47755675 ATGAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCG-CACCAATAT
* * *
47755720 GGGAAGACAAGATCTAC-ATCTTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATAT
* * * * * *
47755764 AGGAAGACATGATCTGCTTTCTTCGATCTACTTCACGCTAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCACCAATAT
* * *
47755808 ATGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATAT
* * * *
47755851 AGGAAGACAGGA-CTTGCTATCTTCGATCTACTTCACGCCAATAA
1 AGGAAGACAAGATC-TGCTATCTTCGATCTACTTCGCACCAATAT
* * * *
47755895 ATGAAGACAAGATATGCTTTCTTCGATCTACTCCGCCACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCG-CACCAATAT
* *
47755940 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATAT
47755983 AGGAAGACAAGA-CATGCTATCTT
1 AGGAAGACAAGATC-TGCTATCTT
47756006 TACTGATCTG
Statistics
Matches: 372, Mismatches: 75, Indels: 32
0.78 0.16 0.07
Matches are distributed among these distances:
42 5 0.01
43 75 0.20
44 215 0.58
45 77 0.21
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCACCAATAT
Found at i:47756005 original size:132 final size:132
Alignment explanation
Indices: 47755520--47755994 Score: 584
Period size: 132 Copynumber: 3.6 Consensus size: 132
47755510 ACCTACTATT
* * *
47755520 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAA
* * * *
47755585 TATGGGAAGATAAGATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGACCTGCTA
66 TATAGGAAGACAAGATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTT
47755650 TC
131 TC
* * * * *
47755652 TTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAG
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAA
* * * *
47755717 TATGGGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTGCT
66 TATAGGAAGACAAGATCTGCATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCT
47755782 TTC
130 TTC
* * *
47755785 TTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAA
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAA
* * * * *
47755848 TATAGGAAGACAGGA-CTTGCTATCTTCGATCTACTTCAC-GCCAATAAATGAAGACAAGATATG
66 TATAGGAAGACAAGATC-TGC-ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTG
47755911 CTTTC
128 CTTTC
* * * *** *
47755916 TTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCA
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCA
47755979 ATATAGGAAGACAAGA
65 ATATAGGAAGACAAGA
47755995 CATGCTATCT
Statistics
Matches: 304, Mismatches: 35, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
130 1 0.00
131 56 0.18
132 182 0.60
133 65 0.21
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCCACCAA
TATAGGAAGACAAGATCTGCATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTT
TC
Found at i:47761313 original size:19 final size:17
Alignment explanation
Indices: 47761291--47761334 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
47761281 GATGCTATAT
47761291 TAAATATACAATGCAATAA
1 TAAATATACAATG-AA-AA
47761310 TAAATATTACAATGAAAA
1 TAAATA-TACAATGAAAA
47761328 T-AATATA
1 TAAATATA
47761335 AATAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 4 0.17
18 3 0.12
19 8 0.33
20 7 0.29
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAATATACAATGAAAA
Found at i:47761956 original size:25 final size:22
Alignment explanation
Indices: 47761899--47761948 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
47761889 ATATATAGCT
**
47761899 AAAATAATAATAATTACATATG
1 AAAATAATAATAATTACATAAC
47761921 AAAATAATAATAATTACATTAAC
1 AAAATAATAATAATTACA-TAAC
47761944 AAAAT
1 AAAAT
47761949 TAACTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATAATAATAATTACATAAC
Found at i:47762506 original size:22 final size:21
Alignment explanation
Indices: 47762471--47762547 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
47762461 AAAGAGTATC
* *
47762471 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
47762492 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
47762515 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
47762534 TGCATATCATATCT
1 TACAAATCATATCT
47762548 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.38
21 4 0.08
22 15 0.31
23 11 0.23
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:47762514 original size:23 final size:22
Alignment explanation
Indices: 47762471--47762528 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
47762461 AAAGAGTATC
* *
47762471 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
47762492 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
47762515 TACATATCATATCT
1 TACAAATCATATCT
47762529 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:47762531 original size:19 final size:19
Alignment explanation
Indices: 47762484--47762560 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
47762474 AAATTAAATC
*
47762484 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
47762504 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
47762526 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
47762545 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
47762561 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 7 0.13
23 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:47769758 original size:17 final size:16
Alignment explanation
Indices: 47769720--47769772 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
47769710 TATAATAGTA
*
47769720 AAAATTAATTTTAAAT
1 AAAATTAATATTAAAT
**
47769736 TTAATTACATATTAAAT
1 AAAATTA-ATATTAAAT
47769753 AAAATTAATTATATAAAT
1 AAAATTAA-TAT-TAAAT
47769771 AA
1 AA
47769773 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTAATATTAAAT
Found at i:47770891 original size:15 final size:15
Alignment explanation
Indices: 47770871--47770900 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47770861 ATTAATTAGT
47770871 TATTATTTTAAATAA
1 TATTATTTTAAATAA
*
47770886 TATTATTTTATATAA
1 TATTATTTTAAATAA
47770901 AATAAAATTA
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:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATTTTAAATAA
Found at i:47770896 original size:20 final size:20
Alignment explanation
Indices: 47770880--47770917 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47770870 TTATTATTTT
* *
47770880 AAATAATATTATTTTATATA
1 AAATAAAATTATATTATATA
47770900 AAATAAAATTATATTATA
1 AAATAAAATTATATTATA
47770918 CTGTTGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAAAATTATATTATATA
Found at i:47772589 original size:63 final size:64
Alignment explanation
Indices: 47772456--47772591 Score: 168
Period size: 63 Copynumber: 2.1 Consensus size: 64
47772446 TCATTTTCTT
* * ** * * *
47772456 CCCCTTTCCTGTCAGTTTCCCCATCCCTGAACCCCCCTTCCTCATCGATTATCCCATCCTCGAA
1 CCCCTTCCCTGTCAGTTTCCCCATCCCTAAAAACCCCATCCCCATCGATTATCCCATCCTCAAA
* *
47772520 CCCCTTCCCTGTCGGTTTCCCCATCCC-AAAAACCCCATCCCCAT-GAATTATCCCATCCTTAAA
1 CCCCTTCCCTGTCAGTTTCCCCATCCCTAAAAACCCCATCCCCATCG-ATTATCCCATCCTCAAA
47772583 CCCCTTCCC
1 CCCCTTCCC
47772592 CCGCTAGTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
62 1 0.02
63 36 0.58
64 25 0.40
ACGTcount: A:0.18, C:0.48, G:0.07, T:0.27
Consensus pattern (64 bp):
CCCCTTCCCTGTCAGTTTCCCCATCCCTAAAAACCCCATCCCCATCGATTATCCCATCCTCAAA
Found at i:47774060 original size:25 final size:27
Alignment explanation
Indices: 47773999--47774062 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
47773989 AGAATCTATT
**
47773999 AGAATACGCCACAAAGACTTTCCATTA
1 AGAATACGCCACAAAGACGATCCATTA
47774026 AGAATACGCCACAAA-ACGATCC-TTA
1 AGAATACGCCACAAAGACGATCCATTA
* *
47774051 AGAGTGCGCCAC
1 AGAATACGCCAC
47774063 GAAGGCGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.39
26 5 0.15
27 15 0.45
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (27 bp):
AGAATACGCCACAAAGACGATCCATTA
Found at i:47782991 original size:22 final size:22
Alignment explanation
Indices: 47782960--47783024 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
47782950 GTGTTCTCAA
47782960 TGGCAATTTATCTGCAAATCAG
1 TGGCAATTTATCTGCAAATCAG
* * *
47782982 TGGCAGTTTATCTACTAATCAG
1 TGGCAATTTATCTGCAAATCAG
* *
47783004 TGACAATTTATTTGCAAATCA
1 TGGCAATTTATCTGCAAATCA
47783025 ATGGTGGCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (22 bp):
TGGCAATTTATCTGCAAATCAG
Found at i:47793343 original size:21 final size:20
Alignment explanation
Indices: 47793304--47793344 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
47793294 AATATTGTTG
* *
47793304 CATTTTGTATTTAGTATATT
1 CATTTTGTATATAGGATATT
47793324 CATTTTGGTATATAGGATATT
1 CATTTT-GTATATAGGATATT
47793345 TTATCATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (20 bp):
CATTTTGTATATAGGATATT
Found at i:47794441 original size:35 final size:32
Alignment explanation
Indices: 47794353--47794451 Score: 144
Period size: 32 Copynumber: 3.0 Consensus size: 32
47794343 AAATTTAATT
*
47794353 TGACGTGAACAGGAGAGATTCCCTGCAAGAAA
1 TGACGTGAACAGGAAAGATTCCCTGCAAGAAA
47794385 TGACGTGAACAGGAAAGATTCCCTGCAAGAAA
1 TGACGTGAACAGGAAAGATTCCCTGCAAGAAA
* *
47794417 TGATGTGAACAGGAGGAAATATTCCCTGCAAGAAA
1 TGACGTGAAC---AGGAAAGATTCCCTGCAAGAAA
47794452 AGACAAGTGA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
32 40 0.66
35 21 0.34
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (32 bp):
TGACGTGAACAGGAAAGATTCCCTGCAAGAAA
Found at i:47800257 original size:32 final size:32
Alignment explanation
Indices: 47800195--47800387 Score: 260
Period size: 32 Copynumber: 5.8 Consensus size: 32
47800185 TCACTTGTCT
*
47800195 TTTCTTGCAGGGAATATTTCCTCCTGTTCACATCA
1 TTTCTTGCAGGG-A-ATCT-CTCCTGTTCACATCA
*
47800230 TTTCTTGCAGGGAATCTTTCCTGTTCACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
*
47800262 TTTCTTGCAGGGAATCTCTCCTGTTCACGTCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
* *
47800294 TTTCTTGCAGGGAATCTCTCCTGTTCACGTTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
*
47800326 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* *
47800360 TTTTGTTGCAGGGAATCTTTCCTGTTCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCA
47800388 TGTATTATTT
Statistics
Matches: 147, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
32 102 0.69
33 3 0.02
34 5 0.03
35 37 0.25
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (32 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
Found at i:47805603 original size:20 final size:22
Alignment explanation
Indices: 47805566--47805609 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
47805556 GAGCAAATTG
47805566 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
47805587 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
47805608 TT
1 TT
47805610 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:47808373 original size:13 final size:14
Alignment explanation
Indices: 47808349--47808377 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47808339 TTTCAATAGT
47808349 AATCCACAAAATAA
1 AATCCACAAAATAA
47808363 AATCC-CAAAATAA
1 AATCCACAAAATAA
47808376 AA
1 AA
47808378 GTTAAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.14
Consensus pattern (14 bp):
AATCCACAAAATAA
Found at i:47822931 original size:21 final size:21
Alignment explanation
Indices: 47822907--47822962 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
47822897 CTGAACAATT
*
47822907 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
47822928 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
47822948 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
47822963 CGATTTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Found at i:47822948 original size:20 final size:23
Alignment explanation
Indices: 47822918--47822962 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
47822908 AGAAAAAGAG
47822918 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
47822939 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
47822961 AA
1 AA
47822963 CGATTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:47825796 original size:32 final size:31
Alignment explanation
Indices: 47825748--47825846 Score: 108
Period size: 32 Copynumber: 3.0 Consensus size: 31
47825738 ACAAGAAATG
*
47825748 ACACATTTCTTACAGGGAATCTTTCCTGTTC
1 ACACATTTCTTTCAGGGAATCTTTCCTGTTC
* * *
47825779 ACGTCATTTCTTTCAGGGAATATCTCCTGTTC
1 AC-ACATTTCTTTCAGGGAATCTTTCCTGTTC
*
47825811 ACACATTATTTTGTTGCAGGGAATCTTTCCTGTTC
1 ACACA-T-TTCT-TT-CAGGGAATCTTTCCTGTTC
47825846 A
1 A
47825847 TGTATTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
31 4 0.07
32 28 0.51
33 3 0.05
34 2 0.04
35 18 0.33
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (31 bp):
ACACATTTCTTTCAGGGAATCTTTCCTGTTC
Found at i:47825854 original size:35 final size:33
Alignment explanation
Indices: 47825760--47825856 Score: 99
Period size: 35 Copynumber: 2.9 Consensus size: 33
47825750 ACATTTCTTA
*
47825760 CAGGGAATCTTTCCTGTTCACGTCA-T-TTCTTT
1 CAGGGAATCTTTCCTGTTCACGT-ATTATTTTTT
* * **
47825792 CAGGGAATATCTCCTGTTCACACATTATTTTGTT
1 CAGGGAATCTTTCCTGTTCACGTATTATTTT-TT
*
47825826 GCAGGGAATCTTTCCTGTTCATGTATTATTT
1 -CAGGGAATCTTTCCTGTTCACGTATTATTT
47825857 CTTTTTGGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
31 1 0.02
32 20 0.39
33 3 0.06
34 2 0.04
35 25 0.49
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (33 bp):
CAGGGAATCTTTCCTGTTCACGTATTATTTTTT
Found at i:47828689 original size:20 final size:23
Alignment explanation
Indices: 47828654--47828698 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
47828644 GAGCAAATCG
47828654 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
47828676 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
47828697 TT
1 TT
47828699 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:47829808 original size:13 final size:13
Alignment explanation
Indices: 47829790--47829832 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
47829780 CATTTGAGTT
47829790 GTTTCTCCAAAAA
1 GTTTCTCCAAAAA
47829803 GTTTCT-C--AAA
1 GTTTCTCCAAAAA
47829813 GTTTCTCCAAAAA
1 GTTTCTCCAAAAA
47829826 GTTTCTC
1 GTTTCTC
47829833 AAAGTTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
12 1 0.04
13 16 0.59
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.37
Consensus pattern (13 bp):
GTTTCTCCAAAAA
Found at i:47829815 original size:10 final size:10
Alignment explanation
Indices: 47829800--47829845 Score: 65
Period size: 10 Copynumber: 4.3 Consensus size: 10
47829790 GTTTCTCCAA
47829800 AAAGTTTCTC
1 AAAGTTTCTC
47829810 AAAGTTTCTCC
1 AAAGTTTCT-C
47829821 AAAAAGTTTCTC
1 --AAAGTTTCTC
47829833 AAAGTTTCTC
1 AAAGTTTCTC
47829843 AAA
1 AAA
47829846 ACTCTCGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
12 1 0.03
13 9 0.27
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (10 bp):
AAAGTTTCTC
Found at i:47829819 original size:23 final size:23
Alignment explanation
Indices: 47829790--47829846 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
47829780 CATTTGAGTT
47829790 GTTTCTCCAAAAAGTTTCTCAAA
1 GTTTCTCCAAAAAGTTTCTCAAA
47829813 GTTTCTCCAAAAAGTTTCTCAAA
1 GTTTCTCCAAAAAGTTTCTCAAA
47829836 GTTTCT-CAAAA
1 GTTTCTCCAAAA
47829847 CTCTCGCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (23 bp):
GTTTCTCCAAAAAGTTTCTCAAA
Found at i:47830072 original size:20 final size:18
Alignment explanation
Indices: 47830022--47830073 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
47830012 CTACAAGATA
47830022 AACATTAAATTAA-ATTT
1 AACATTAAATTAATATTT
47830039 AACATTAAGA-TAATCACTTT
1 AACATTAA-ATTAAT-A-TTT
*
47830059 AATATTAAATTAATA
1 AACATTAAATTAATA
47830074 AAATACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (18 bp):
AACATTAAATTAATATTT
Found at i:47851905 original size:25 final size:26
Alignment explanation
Indices: 47851868--47851928 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
47851858 GTTGTAAATC
* * *
47851868 AAAAAAATATCTTTAGA-AATTTTCT
1 AAAATAATCTCTTCAGAGAATTTTCT
47851893 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAATAATCTCTTCAGAGAATTTTCT
*
47851919 GAAATAATCT
1 AAAATAATCT
47851929 TTCTCTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (26 bp):
AAAATAATCTCTTCAGAGAATTTTCT
Found at i:47852138 original size:25 final size:25
Alignment explanation
Indices: 47852084--47852138 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
47852074 TAAATATTAA
*
47852084 TTTAATTTAATATTAATATAATCAC
1 TTTAATTTAATATTAATAAAATCAC
47852109 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAATAAAATCAC
47852133 TATTAA
1 T-TTAA
47852139 AATAGTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 3 0.11
25 20 0.74
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTAATTTAATATTAATAAAATCAC
Found at i:47853578 original size:60 final size:60
Alignment explanation
Indices: 47853485--47853605 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 60
47853475 CTACTCGTGG
* * **
47853485 AGTCAACTACTCTAATAGCCAAGATTAGCCATCTC-CTCAATTGTTGTTATAGATGACATA
1 AGTCAACTACTCCAATAGCCAAGACTAGCCATCTCTC-CAATTGGAGTTATAGATGACATA
* * * *
47853545 AGTCAACTACTCCGATAGCTAAGACTAGCCATCTCTCCAATTGGAGTTGTAGGTGACATA
1 AGTCAACTACTCCAATAGCCAAGACTAGCCATCTCTCCAATTGGAGTTATAGATGACATA
47853605 A
1 A
47853606 TAATCCTTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 51 0.98
61 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (60 bp):
AGTCAACTACTCCAATAGCCAAGACTAGCCATCTCTCCAATTGGAGTTATAGATGACATA
Found at i:47854850 original size:16 final size:15
Alignment explanation
Indices: 47854822--47854864 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
47854812 AACCCTAAAG
*
47854822 TAAACCATAAAAACCC
1 TAAACCA-AAAAACCA
*
47854838 TAAACCTAAAAAATCA
1 TAAACC-AAAAAACCA
47854854 TAAACCAAAAA
1 TAAACCAAAAA
47854865 CAGAAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 18 0.75
17 1 0.04
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.14
Consensus pattern (15 bp):
TAAACCAAAAAACCA
Found at i:47856790 original size:21 final size:21
Alignment explanation
Indices: 47856742--47856795 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
47856732 CACCATTGTT
47856742 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
47856763 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGT-A
47856785 T-TAATCTCACC
1 TCTAATCTCACC
47856796 ACCACCGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.35, G:0.07, T:0.28
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:47858041 original size:31 final size:29
Alignment explanation
Indices: 47858006--47858070 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
47857996 GTGACCACTT
*
47858006 CGTAACAAAACAATAATATAAGTGACTAAAA
1 CGTAACAAAAC-A-AACATAAGTGACTAAAA
* *
47858037 CGTAACATATCAAACATAAGTGACTAAAA
1 CGTAACAAAACAAACATAAGTGACTAAAA
*
47858066 TGTAA
1 CGTAA
47858071 TATGAGACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.67
30 1 0.03
31 9 0.30
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (29 bp):
CGTAACAAAACAAACATAAGTGACTAAAA
Found at i:47858092 original size:31 final size:29
Alignment explanation
Indices: 47858006--47858093 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
47857996 GTGACCACTT
*
47858006 CGTAACAAAACAATAATATAAGTGACTAAAA
1 CGTAACATAAC-A-AATATAAGTGACTAAAA
* *
47858037 CGTAACATATCAAACATAAGTGACTAAAA
1 CGTAACATAACAAATATAAGTGACTAAAA
* * *
47858066 TGTAATATGAGACAAATAAAAGTGACTA
1 CGTAACAT-A-ACAAATATAAGTGACTA
47858094 TTTTTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 22 0.47
30 2 0.04
31 23 0.49
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (29 bp):
CGTAACATAACAAATATAAGTGACTAAAA
Found at i:47859860 original size:20 final size:20
Alignment explanation
Indices: 47859837--47859881 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47859827 TTATAAAAAG
47859837 TAAAAATAAATAAAAAATAT
1 TAAAAATAAATAAAAAATAT
* * *
47859857 TAAAATTTAATGAAAAATAT
1 TAAAAATAAATAAAAAATAT
47859877 TAAAA
1 TAAAA
47859882 TTTCATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAAATAAATAAAAAATAT
Found at i:47859882 original size:20 final size:20
Alignment explanation
Indices: 47859849--47859895 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
47859839 AAAATAAATA
47859849 AAAAATATTAAAATTTAATG
1 AAAAATATTAAAATTTAATG
* *
47859869 AAAAATATTAAAATTTCATT
1 AAAAATATTAAAATTTAATG
47859889 AAAAATA
1 AAAAATA
47859896 GAAAAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATATTAAAATTTAATG
Found at i:47859934 original size:10 final size:10
Alignment explanation
Indices: 47859921--47859972 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
47859911 AAATCGTAAC
47859921 AAAATTATAA
1 AAAATTATAA
47859931 AAAATTATAA
1 AAAATTATAA
***
47859941 ATTTTTAT-A
1 AAAATTATAA
47859950 AAAATTATAAA
1 AAAATTAT-AA
47859961 AAAATTATAA
1 AAAATTATAA
47859971 AA
1 AA
47859973 TGCATCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 6 0.18
10 19 0.56
11 9 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:47859968 original size:20 final size:20
Alignment explanation
Indices: 47859888--47859972 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
47859878 AAAATTTCAT
*
47859888 TAAAAA-TAGAAAAGAAATTA
1 TAAAAATTATAAAA-AAATTA
* ** *
47859908 TACAAATCGTAACAAAATTA
1 TAAAAATTATAAAAAAATTA
***
47859928 TAAAAAATTAT-AAATTTTTA
1 T-AAAAATTATAAAAAAATTA
47859948 TAAAAATTATAAAAAAATTA
1 TAAAAATTATAAAAAAATTA
47859968 TAAAA
1 TAAAA
47859973 TGCATCAAAA
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
19 9 0.19
20 29 0.62
21 9 0.19
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAAATTATAAAAAAATTA
Found at i:47860178 original size:20 final size:19
Alignment explanation
Indices: 47860153--47860256 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 19
47860143 TTTGGTATGC
47860153 TTTTATAATCTTTTTACAAT
1 TTTTATAAT-TTTTTACAAT
*
47860173 TTTTAT-ATTTCTTTACATTT
1 TTTTATAATTT-TTTACA-AT
47860193 TTTTATAATTTTCTTACAACT
1 TTTTATAATTTT-TTACAA-T
* * * *
47860214 TTATAAAATTTTATA-TAT
1 TTTTATAATTTTTTACAAT
*
47860232 TTTTATAATTTTTTTCTAAT
1 TTTTATAATTTTTTAC-AAT
47860252 TTTTA
1 TTTTA
47860257 ATAAGTTTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
18 14 0.21
19 9 0.14
20 23 0.35
21 20 0.30
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:47861037 original size:11 final size:12
Alignment explanation
Indices: 47861020--47861049 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
47861010 GAACACTATA
47861020 ATATATTATTTT
1 ATATATTATTTT
47861032 -TATATTATTTT
1 ATATATTATTTT
47861043 ATATATT
1 ATATATT
47861050 TACATTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATATTATTTT
Found at i:47864037 original size:24 final size:25
Alignment explanation
Indices: 47864005--47864053 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
47863995 GTGTGACACA
*
47864005 TGGCTATGTGACACGGTCAT-TGTC
1 TGGCCATGTGACACGGTCATGTGTC
47864029 TGGCCATGTGACACGGTCATGTGTC
1 TGGCCATGTGACACGGTCATGTGTC
47864054 CCCTGTAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (25 bp):
TGGCCATGTGACACGGTCATGTGTC
Found at i:47869132 original size:10 final size:10
Alignment explanation
Indices: 47869117--47869145 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
47869107 ATTGCGTGTT
47869117 TGAATAGAAA
1 TGAATAGAAA
47869127 TGAATAG-AA
1 TGAATAGAAA
47869136 TGAATAGAAA
1 TGAATAGAAA
47869146 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:47869444 original size:26 final size:26
Alignment explanation
Indices: 47869407--47869475 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
47869397 TTCTCGAAAC
47869407 TTTATT-GAGGGTAAAATCGTCAAAAT
1 TTTATTAG-GGGTAAAATCGTCAAAAT
47869433 TTTATTAGGGGTAAAATCGTCAAAAT
1 TTTATTAGGGGTAAAATCGTCAAAAT
47869459 TTT-TCTAGGGGTAAAAT
1 TTTAT-TAGGGGTAAAAT
47869476 TGAGATGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
25 1 0.02
26 39 0.95
27 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (26 bp):
TTTATTAGGGGTAAAATCGTCAAAAT
Found at i:47871503 original size:13 final size:13
Alignment explanation
Indices: 47871485--47871532 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
47871475 AGTTTCACAT
47871485 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
47871498 TGCTTTAGAAAAG
1 TGCTTTTGAGAAG
* *
47871511 TGGTTTTAAGAAG
1 TGCTTTTGAGAAG
*
47871524 TACTTTTGA
1 TGCTTTTGA
47871533 AAAATTTAGT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:47876984 original size:15 final size:17
Alignment explanation
Indices: 47876963--47877003 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
47876953 TAATCAACTA
47876963 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATGAT
*
47876979 -AAATTATTAAAATGAT
1 AAAATTATAAAAATGAT
47876995 AAAATTATA
1 AAAATTATA
47877004 TTTTTACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATGAT
Found at i:47882436 original size:13 final size:13
Alignment explanation
Indices: 47882415--47882467 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
47882405 TGAGTTCGGT
47882415 TATATTGTTTTAA
1 TATATTGTTTTAA
* *
47882428 TATACTGTTATAA
1 TATATTGTTTTAA
47882441 TTATATTGTTTTAA
1 -TATATTGTTTTAA
*
47882455 TATAATGTTTTAA
1 TATATTGTTTTAA
47882468 CTTTTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
13 23 0.68
14 11 0.32
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (13 bp):
TATATTGTTTTAA
Found at i:47882444 original size:27 final size:27
Alignment explanation
Indices: 47882414--47882499 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
47882404 ATGAGTTCGG
47882414 TTATATTGTTTTAATATACTGTTATAA
1 TTATATTGTTTTAATATACTGTTATAA
* *
47882441 TTATATTGTTTTAATATAATGTTTTAA
1 TTATATTGTTTTAATATACTGTTATAA
* ** *
47882468 CTTTTA-AATTTTAGTATACTGTTATAA
1 -TTATATTGTTTTAATATACTGTTATAA
*
47882495 ATATA
1 TTATA
47882500 CATTTAATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.06
27 41 0.85
28 4 0.08
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (27 bp):
TTATATTGTTTTAATATACTGTTATAA
Found at i:47882523 original size:15 final size:15
Alignment explanation
Indices: 47882503--47882536 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
47882493 AAATATACAT
*
47882503 TTAATTTGTAACACA
1 TTAATTTCTAACACA
47882518 TTAATTTCTAACACA
1 TTAATTTCTAACACA
47882533 TTAA
1 TTAA
47882537 ATTTAGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (15 bp):
TTAATTTCTAACACA
Found at i:47882678 original size:13 final size:13
Alignment explanation
Indices: 47882662--47882771 Score: 86
Period size: 13 Copynumber: 8.6 Consensus size: 13
47882652 TACTGTTTTA
47882662 ATAATATATTGTT
1 ATAATATATTGTT
47882675 ATAA-A-A-T-TT
1 ATAATATATTGTT
*
47882684 ATAATATACTGTT
1 ATAATATATTGTT
* * *
47882697 TTAATATACTATT
1 ATAATATATTGTT
47882710 ATAAATATACTT-TT
1 AT-AATATA-TTGTT
*
47882724 TTAATATATTGTT
1 ATAATATATTGTT
* *
47882737 TTAATATACTGTT
1 ATAATATATTGTT
47882750 ATAATTATATTGTT
1 ATAA-TATATTGTT
*
47882764 TTAATATA
1 ATAATATA
47882772 ATTTTTTAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
11 2 0.03
12 4 0.05
13 45 0.56
14 20 0.25
15 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.53
Consensus pattern (13 bp):
ATAATATATTGTT
Found at i:47882740 original size:40 final size:40
Alignment explanation
Indices: 47882685--47882780 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
47882675 ATAAAATTTA
*
47882685 TAATATACTGTTTTAATATACTATTATAAATATACTT-TTT
1 TAATATATTGTTTTAATATACTATTATAAATATA-TTGTTT
* *
47882725 TAATATATTGTTTTAATATACTGTTATAATTATATTGTTT
1 TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
47882765 TAATATAATT-TTTTAA
1 TAATAT-ATTGTTTTAA
47882781 CTTTTAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
39 2 0.04
40 46 0.90
41 3 0.06
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (40 bp):
TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
Found at i:47882766 original size:27 final size:26
Alignment explanation
Indices: 47882685--47882780 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 26
47882675 ATAAAATTTA
* *
47882685 TAATATACTGTTTTAATATACTATTAT
1 TAATATACTGTTTTAATATATTGTT-T
* *
47882712 AAATATACTTTTTTAATATATTGTTT
1 TAATATACTGTTTTAATATATTGTTT
*
47882738 TAATATACTGTTATAATTATATTGTTT
1 TAATATACTGTTTTAA-TATATTGTTT
* *
47882765 TAATATAATTTTTTAA
1 TAATATACTGTTTTAA
47882781 CTTTTAAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.24
27 44 0.76
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (26 bp):
TAATATACTGTTTTAATATATTGTTT
Found at i:47882778 original size:13 final size:13
Alignment explanation
Indices: 47882685--47882780 Score: 88
Period size: 13 Copynumber: 7.2 Consensus size: 13
47882675 ATAAAATTTA
*
47882685 TAATATACTGTTT
1 TAATATACTTTTT
*
47882698 TAATATACTATTAT
1 TAATATACT-TTTT
*
47882712 AAATATACTTTTT
1 TAATATACTTTTT
47882725 TAATATA-TTGTTT
1 TAATATACTT-TTT
* *
47882738 TAATATACTGTTA
1 TAATATACTTTTT
47882751 TAATTATA-TTGTTT
1 TAA-TATACTT-TTT
*
47882765 TAATATAATTTTT
1 TAATATACTTTTT
47882778 TAA
1 TAA
47882781 CTTTTAAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
12 2 0.03
13 44 0.65
14 22 0.32
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (13 bp):
TAATATACTTTTT
Found at i:47882836 original size:15 final size:15
Alignment explanation
Indices: 47882816--47882849 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
47882806 AAATATACAT
*
47882816 TTAATTTGTAACACA
1 TTAATTTCTAACACA
47882831 TTAATTTCTAACACA
1 TTAATTTCTAACACA
47882846 TTAA
1 TTAA
47882850 ATTTTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (15 bp):
TTAATTTCTAACACA
Found at i:47882994 original size:13 final size:13
Alignment explanation
Indices: 47882963--47883092 Score: 88
Period size: 13 Copynumber: 9.9 Consensus size: 13
47882953 ATTTTTAATG
47882963 TAATATACTGTTTTAA
1 TAATATACTG--TT-A
47882979 TAATATACTGTTA
1 TAATATACTGTTA
47882992 TAA-A-A-T-TTA
1 TAATATACTGTTA
* *
47883001 TAATATACTATTT
1 TAATATACTGTTA
*
47883014 TAATATACTATTA
1 TAATATACTGTTA
* *
47883027 TAAATATACTTTTT
1 T-AATATACTGTTA
* *
47883041 TAATATATTGTTT
1 TAATATACTGTTA
*
47883054 TAATATACTATTA
1 TAATATACTGTTA
* *
47883067 TAATTATATTGTTT
1 TAA-TATACTGTTA
*
47883081 TAATATAATGTT
1 TAATATACTGTT
47883093 TTAACTTTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
9 6 0.06
10 2 0.02
11 2 0.02
12 2 0.02
13 50 0.53
14 23 0.24
16 10 0.11
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (13 bp):
TAATATACTGTTA
Found at i:47883043 original size:316 final size:313
Alignment explanation
Indices: 47882415--47883150 Score: 1384
Period size: 316 Copynumber: 2.3 Consensus size: 313
47882405 TGAGTTCGGT
47882415 TATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATTTT
1 TATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATTTT
47882480 AGTATACTGTTATAAATATACATTTAATTTGTAACACATTAATTTCTAACACATTAAATTTAGTT
66 AGTATACTGTTATAAATATACATTTAATTTGTAACACATTAATTTCTAACACATTAAATTTAGTT
47882545 TCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTAACTAAATAATTAAT
131 TCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTAACTAAATAATTAAT
*
47882610 ATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTGTTTTAATAATATATTGTT
196 ATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTGTTTTAATAATATACTGTT
*
47882675 ATAAAATTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTTAA
261 ATAAAATTTATAATATACTATTTTAATATACTATTATAAATATACTTTTTTAA
*
47882728 TATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATTTTTTAACTTTTAAATTTT
1 TATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATTTT
47882793 AGTATACTGTTATAAATATACATTTAATTTGTAACACATTAATTTCTAACACATTAAATTTTAGT
66 AGTATACTGTTATAAATATACATTTAATTTGTAACACATTAATTTCTAACACATTAAA-TTTAGT
47882858 TTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTT-TAATGTTATTAACTAAATAAT
130 TTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATG---TTAACTAAATAAT
47882922 TAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTGTTTTAATAATATAC
192 TAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTGTTTTAATAATATAC
47882987 TGTTATAAAATTTATAATATACTATTTTAATATACTATTATAAATATACTTTTTTAA
257 TGTTATAAAATTTATAATATACTATTTTAATATACTATTATAAATATACTTTTTTAA
*
47883044 TATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATTTT
1 TATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATTTT
*
47883109 AATATACTGTTATAAATATACATTTAATTTGTAACACATTAA
66 AGTATACTGTTATAAATATACATTTAATTTGTAACACATTAA
47883151 ATGTTGATGT
Statistics
Matches: 413, Mismatches: 6, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
313 127 0.31
314 49 0.12
316 237 0.57
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (313 bp):
TATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATTTT
AGTATACTGTTATAAATATACATTTAATTTGTAACACATTAATTTCTAACACATTAAATTTAGTT
TCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTAACTAAATAATTAAT
ATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTGTTTTAATAATATACTGTT
ATAAAATTTATAATATACTATTTTAATATACTATTATAAATATACTTTTTTAA
Found at i:47883055 original size:40 final size:40
Alignment explanation
Indices: 47883001--47883096 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
47882991 ATAAAATTTA
* *
47883001 TAATATACTATTTTAATATACTATTATAAATATACTT-TTT
1 TAATATAATGTTTTAATATACTATTATAAATATA-TTGTTT
* *
47883041 TAATATATTGTTTTAATATACTATTATAATTATATTGTTT
1 TAATATAATGTTTTAATATACTATTATAAATATATTGTTT
47883081 TAATATAATGTTTTAA
1 TAATATAATGTTTTAA
47883097 CTTTTAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.04
40 49 0.96
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (40 bp):
TAATATAATGTTTTAATATACTATTATAAATATATTGTTT
Found at i:47883082 original size:27 final size:26
Alignment explanation
Indices: 47883001--47883096 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 26
47882991 ATAAAATTTA
* *
47883001 TAATATACTATTTTAATATACTATTAT
1 TAATATACTATTTTAATATATTGTT-T
* *
47883028 AAATATACTTTTTTAATATATTGTTT
1 TAATATACTATTTTAATATATTGTTT
*
47883054 TAATATACTATTATAATTATATTGTTT
1 TAATATACTATTTTAA-TATATTGTTT
* *
47883081 TAATATAATGTTTTAA
1 TAATATACTATTTTAA
47883097 CTTTTAAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.24
27 44 0.76
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (26 bp):
TAATATACTATTTTAATATATTGTTT
Found at i:47883096 original size:13 final size:13
Alignment explanation
Indices: 47882996--47883087 Score: 94
Period size: 13 Copynumber: 6.8 Consensus size: 13
47882986 CTGTTATAAA
47882996 ATTTATAATATACT
1 ATTT-TAATATACT
47883010 ATTTTAATATACT
1 ATTTTAATATACT
*
47883023 ATTATAAATATACT
1 ATT-TTAATATACT
* *
47883037 TTTTTAATATATT
1 ATTTTAATATACT
*
47883050 GTTTTAATATACT
1 ATTTTAATATACT
* *
47883063 ATTATAATTATATT
1 ATTTTAA-TATACT
*
47883077 GTTTTAATATA
1 ATTTTAATATA
47883088 ATGTTTTAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
13 40 0.62
14 25 0.38
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (13 bp):
ATTTTAATATACT
Found at i:47886387 original size:25 final size:25
Alignment explanation
Indices: 47886353--47886400 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
47886343 TTAGGATTTG
47886353 ATTGTTTGTAATTAAATTCAAATTA
1 ATTGTTTGTAATTAAATTCAAATTA
47886378 ATTGTTTGTAATTAAATTCAAAT
1 ATTGTTTGTAATTAAATTCAAAT
47886401 AAGTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
ATTGTTTGTAATTAAATTCAAATTA
Found at i:47886494 original size:16 final size:16
Alignment explanation
Indices: 47886473--47886506 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47886463 ATATAAATTC
47886473 AATAACAATTAATTTT
1 AATAACAATTAATTTT
*
47886489 AATAACAATTAGTTTT
1 AATAACAATTAATTTT
47886505 AA
1 AA
47886507 CTTTTAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAACAATTAATTTT
Found at i:47886914 original size:2 final size:2
Alignment explanation
Indices: 47886907--47886949 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
47886897 AAGTTTCTTT
47886907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
47886950 AACAGGTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:47891446 original size:12 final size:13
Alignment explanation
Indices: 47891431--47891459 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47891421 GCATTACTTT
47891431 TTTTATTT-TTTA
1 TTTTATTTGTTTA
47891443 TTTTATTTGTTTA
1 TTTTATTTGTTTA
47891456 TTTT
1 TTTT
47891460 TTAGTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTATTTGTTTA
Done.