Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 104 of 204
Found at i:31744083 original size:14 final size:15
Alignment explanation
Indices: 31744007--31744083 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
31743997 GATTGCCAGT
* *
31744007 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
31744021 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
31744035 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
31744055 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
31744070 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
31744084 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:31744144 original size:32 final size:32
Alignment explanation
Indices: 31744060--31744144 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
31744050 TCTGTAAAAT
* * **
31744060 GATTTACTGGAAAATATTTTCTGGTGTTTGATT
1 GATTT-CTTGAAAATATTTTCTGCTGTTTGACA
*
31744093 GA-ATCTATGTAAAATATTTTCTGCTGTTTGACA
1 GATTTCT-TG-AAAATATTTTCTGCTGTTTGACA
31744126 GATTTCTTGAAAATATTTT
1 GATTTCTTGAAAATATTTT
31744145 TTGAAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
31 2 0.05
32 12 0.28
33 26 0.60
34 3 0.07
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.47
Consensus pattern (32 bp):
GATTTCTTGAAAATATTTTCTGCTGTTTGACA
Found at i:31745468 original size:27 final size:28
Alignment explanation
Indices: 31745438--31745505 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
31745428 ATATTAAATA
*
31745438 CAATATCCAACAAGGTT-AAAACATA-AT
1 CAATATCCAACAA-ATTCAAAACATATAT
* *
31745465 CAATATCTAACAAATTCAAGACATATAT
1 CAATATCCAACAAATTCAAAACATATAT
*
31745493 CAAAATCCAACAA
1 CAATATCCAACAA
31745506 TCTAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 19 0.56
28 13 0.38
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.22
Consensus pattern (28 bp):
CAATATCCAACAAATTCAAAACATATAT
Found at i:31747125 original size:13 final size:13
Alignment explanation
Indices: 31747107--31747131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31747097 AATTAATCAC
31747107 AAATTTGAATGGG
1 AAATTTGAATGGG
31747120 AAATTTGAATGG
1 AAATTTGAATGG
31747132 AATTCATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (13 bp):
AAATTTGAATGGG
Found at i:31747197 original size:62 final size:62
Alignment explanation
Indices: 31747100--31747224 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
31747090 ATTAATTAAT
31747100 TAATCACAAATTTGAATGGGAAATTTGAATGGAATTCATTTAAAAATAAATATATTATTAGG
1 TAATCACAAATTTGAATGGGAAATTTGAATGGAATTCATTTAAAAATAAATATATTATTAGG
*
31747162 TAATCA-AGAATTTGAATGGGAAATTTGAATGGAATTCATTTAAAAATCAATATATTATTAGG
1 TAATCACA-AATTTGAATGGGAAATTTGAATGGAATTCATTTAAAAATAAATATATTATTAGG
31747224 T
1 T
31747225 GCAAATTTGA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 1 0.02
62 60 0.98
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (62 bp):
TAATCACAAATTTGAATGGGAAATTTGAATGGAATTCATTTAAAAATAAATATATTATTAGG
Found at i:31753323 original size:16 final size:16
Alignment explanation
Indices: 31753299--31753350 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
31753289 TGGTTCACTT
31753299 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
*
31753315 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTG
*
31753331 TAATGGAATAAAGCTG
1 TAATGGAATAGAGCTG
31753347 TAAT
1 TAAT
31753351 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:31764371 original size:29 final size:29
Alignment explanation
Indices: 31764303--31764359 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
31764293 AGGAATTAGT
*
31764303 AGGCACTATGTGCCAGTGTTTATATTATC
1 AGGCACTATGTGCCAGTGTTCATATTATC
*
31764332 AGGCACTATGTGTCAGTGTTCATATTAT
1 AGGCACTATGTGCCAGTGTTCATATTAT
31764360 TAGGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (29 bp):
AGGCACTATGTGCCAGTGTTCATATTATC
Found at i:31767803 original size:40 final size:38
Alignment explanation
Indices: 31767759--31767861 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 38
31767749 GAGCTACCAT
* *
31767759 AGTGCAACCAGAGGCACAAATGTACAATTAGAGGC-CCTGA
1 AGTGCAAACAGAGGCACAAATGTA-AA-CAGAGGCACC-GA
* * *
31767799 AGTGCAAATAGAGACACTAAAGTGTATACAGAGGCACCGA
1 AGTGCAAACAGAGGCAC-AAA-TGTAAACAGAGGCACCGA
*
31767839 AGTGCAAACAGAGGCACGAATGT
1 AGTGCAAACAGAGGCACAAATGT
31767862 GTAATCCCGT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
38 3 0.06
39 2 0.04
40 37 0.71
41 6 0.12
42 4 0.08
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (38 bp):
AGTGCAAACAGAGGCACAAATGTAAACAGAGGCACCGA
Found at i:31767854 original size:20 final size:20
Alignment explanation
Indices: 31767788--31767855 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
31767778 ATGTACAATT
*
31767788 AGAGGC-CCTGAAGTGCAAAT
1 AGAGGCACC-GAAGTGCAAAC
* ** * *
31767808 AGAGACACTAAAGTGTATAC
1 AGAGGCACCGAAGTGCAAAC
31767828 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
31767848 AGAGGCAC
1 AGAGGCAC
31767856 GAATGTGTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.28, T:0.12
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:31767864 original size:40 final size:40
Alignment explanation
Indices: 31767788--31767864 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
31767778 ATGTACAATT
* *
31767788 AGAGGCCCTGAAGTGCAAATAGAGACACTAAAGTGTATAC
1 AGAGGCCCTGAAGTGCAAACAGAGACACGAAAGTGTATAC
* *
31767828 AGAGGCACC-GAAGTGCAAACAGAGGCACGAATGTGTA
1 AGAGGC-CCTGAAGTGCAAACAGAGACACGAAAGTGTA
31767865 ATCCCGTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (40 bp):
AGAGGCCCTGAAGTGCAAACAGAGACACGAAAGTGTATAC
Found at i:31769847 original size:40 final size:40
Alignment explanation
Indices: 31769782--31769876 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
31769772 ACTATGTTTA
* *
31769782 GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATG
*
31769822 GCACTTAGTGTGCGATT-GGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGATTCGAG-ATAGCTTCGGCTATATATG
31769862 GCACTTAGTGTGCGA
1 GCACTTAGTGTGCGA
31769877 GACTAAGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.04
40 49 0.96
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATG
Found at i:31777866 original size:32 final size:32
Alignment explanation
Indices: 31777830--31777893 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
31777820 TTTCCTTAGT
31777830 TTCTAGATTATTCCACCCTTAAAATATTTACA
1 TTCTAGATTATTCCACCCTTAAAATATTTACA
31777862 TTCTAGATTATTCCACCCTTAAAATATTTACA
1 TTCTAGATTATTCCACCCTTAAAATATTTACA
31777894 CTATTGGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (32 bp):
TTCTAGATTATTCCACCCTTAAAATATTTACA
Found at i:31780857 original size:22 final size:22
Alignment explanation
Indices: 31780829--31780871 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
31780819 TTTATTGTTC
31780829 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
31780851 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
31780872 TACTGTAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:31788071 original size:152 final size:152
Alignment explanation
Indices: 31787795--31788099 Score: 592
Period size: 152 Copynumber: 2.0 Consensus size: 152
31787785 CTCTTCAAGA
31787795 CCTTTTGCTACAGGCTACTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
1 CCTTTTGCTACAGGCTACTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
31787860 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
66 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
*
31787925 ATGAAGACAAAACATAGATCTT
131 ATGAAGACAAAACATACATCTT
*
31787947 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
1 CCTTTTGCTACAGGCTACTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
31788012 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
66 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
31788077 ATGAAGACAAAACATACATCTT
131 ATGAAGACAAAACATACATCTT
31788099 C
1 C
31788100 AACAGTATAA
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (152 bp):
CCTTTTGCTACAGGCTACTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
ATGAAGACAAAACATACATCTT
Found at i:31789433 original size:24 final size:24
Alignment explanation
Indices: 31789400--31789464 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
31789390 GGTTTCACAC
31789400 TGTTTGGGTACTATTCACGAGCAT
1 TGTTTGGGTACTATTCACGAGCAT
* * *
31789424 TGTTTAGGTACCATTTACGAGCAT
1 TGTTTGGGTACTATTCACGAGCAT
*
31789448 TGTTTGGGTACTGTTCA
1 TGTTTGGGTACTATTCA
31789465 ACACTGTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (24 bp):
TGTTTGGGTACTATTCACGAGCAT
Found at i:31795218 original size:19 final size:20
Alignment explanation
Indices: 31795194--31795233 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
31795184 AAATATAAAT
31795194 ACGGGTCAAAATAC-GGTAA
1 ACGGGTCAAAATACGGGTAA
31795213 ACGGGTCAAAATACGGGTAA
1 ACGGGTCAAAATACGGGTAA
31795233 A
1 A
31795234 AAATGGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (20 bp):
ACGGGTCAAAATACGGGTAA
Found at i:31795742 original size:60 final size:60
Alignment explanation
Indices: 31795672--31795790 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
31795662 TTGCTTTTTA
* * *
31795672 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
31795732 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
31795791 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:31796130 original size:55 final size:55
Alignment explanation
Indices: 31796060--31796169 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
31796050 AAAAAAAAAA
*
31796060 TTAATCGCGCCTATCTAACAGATGCGAATCAATT-TTTATATTAAAAAATATTTTT
1 TTAATCGCGCCTATCTAACAGACGCGAATCAATTATTTATATT-AAAAATATTTTT
** *
31796115 TTAATCGCGGTTATCTAACAGGCGCGAATCAATTATTTATATTAAAAATATTTTT
1 TTAATCGCGCCTATCTAACAGACGCGAATCAATTATTTATATTAAAAATATTTTT
31796170 GTTTAAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
55 42 0.84
56 8 0.16
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (55 bp):
TTAATCGCGCCTATCTAACAGACGCGAATCAATTATTTATATTAAAAATATTTTT
Found at i:31796454 original size:15 final size:16
Alignment explanation
Indices: 31796414--31796452 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
31796404 TTAACTCATT
31796414 TAATTTTTATATAATG
1 TAATTTTTATATAATG
31796430 TAATTTTTATATAATG
1 TAATTTTTATATAATG
31796446 TAATTTT
1 TAATTTT
31796453 ATTTGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATG
Found at i:31798093 original size:18 final size:18
Alignment explanation
Indices: 31798072--31798107 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31798062 GCATCATGCA
31798072 CCAGAGCCGGAGCCAGAG
1 CCAGAGCCGGAGCCAGAG
*
31798090 CCAGAGCCGGAGGCAGAG
1 CCAGAGCCGGAGCCAGAG
31798108 ACGGAACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.42, T:0.00
Consensus pattern (18 bp):
CCAGAGCCGGAGCCAGAG
Found at i:31807826 original size:103 final size:104
Alignment explanation
Indices: 31807488--31807858 Score: 593
Period size: 105 Copynumber: 3.6 Consensus size: 104
31807478 TGTATATAAA
** * * *
31807488 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
* **
31807552 TTAAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
31807592 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
31807657 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
31807697 AGGGGTTGGTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
31807762 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
31807800 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
31807859 ATAACGGCTA
Statistics
Matches: 250, Mismatches: 15, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
103 86 0.34
104 69 0.28
105 94 0.38
106 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:31812230 original size:35 final size:35
Alignment explanation
Indices: 31812184--31812250 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
31812174 TTAATGACAG
*
31812184 GAAAGTTCACTTGAGGTTTCATAACAGGGAGATAA
1 GAAAGTTCACTTGAGGTTTCATAAAAGGGAGATAA
31812219 GAAAGTTCACTTGAGGTTTCATAAAAGGGAGA
1 GAAAGTTCACTTGAGGTTTCATAAAAGGGAGA
31812251 CATTCATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.25
Consensus pattern (35 bp):
GAAAGTTCACTTGAGGTTTCATAAAAGGGAGATAA
Found at i:31812513 original size:9 final size:9
Alignment explanation
Indices: 31812496--31812532 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
31812486 TGAGTTTTCG
31812496 AATTCGAAT
1 AATTCGAAT
*
31812505 AACTCGAAT
1 AATTCGAAT
31812514 AATTCGAAT
1 AATTCGAAT
31812523 AATTCGAAT
1 AATTCGAAT
31812532 A
1 A
31812533 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:31814439 original size:5 final size:5
Alignment explanation
Indices: 31814429--31814454 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31814419 CTCGAAAATT
31814429 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
31814455 CGAATGCTCA
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:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:31823632 original size:21 final size:20
Alignment explanation
Indices: 31823608--31823647 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31823598 ATATTGAATA
*
31823608 ATATATAATATATATTTTATG
1 ATATATAATAT-TATCTTATG
*
31823629 ATATTTAATATTATCTTAT
1 ATATATAATATTATCTTAT
31823648 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATATAATATTATCTTATG
Found at i:31823955 original size:30 final size:30
Alignment explanation
Indices: 31823919--31823988 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
31823909 GTCACCACTA
* * *
31823919 ACCATTTTCCGTTGCAGACGTAACGGATCT
1 ACCATTTTCCGTTACAGACGTAACAGAGCT
** *
31823949 ACCATTTTTTGTTACAGACTTAACAGAGCT
1 ACCATTTTCCGTTACAGACGTAACAGAGCT
31823979 ACCATTTTCC
1 ACCATTTTCC
31823989 ATCCCCTATC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (30 bp):
ACCATTTTCCGTTACAGACGTAACAGAGCT
Found at i:31828873 original size:30 final size:30
Alignment explanation
Indices: 31828822--31828882 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31828812 GTGATAGGGG
* * *
31828822 ATGGAAAATGGCAGTTTCGTTAAGTTTGTA
1 ATGGAAAATGGCAGCTCCGTTAAGTCTGTA
* *
31828852 ATGGAAAATGGTAGCTCCGTTACGTCTGTA
1 ATGGAAAATGGCAGCTCCGTTAAGTCTGTA
31828882 A
1 A
31828883 CGAAAAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (30 bp):
ATGGAAAATGGCAGCTCCGTTAAGTCTGTA
Found at i:31834022 original size:42 final size:42
Alignment explanation
Indices: 31833965--31834068 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
31833955 GTTACACGGT
* * * *
31833965 CTAGACACAAGCCCATTTCCTTGCCCGTGTGGCTCACACGAC
1 CTAGGCACACGCCCATGTCCTTACCCGTGTGGCTCACACGAC
* *
31834007 CTGGGCACACGCCCATGTCCTTACCCGTGTGGCTCACACGGC
1 CTAGGCACACGCCCATGTCCTTACCCGTGTGGCTCACACGAC
*
31834049 CTAGGCACACACCCATGTCC
1 CTAGGCACACGCCCATGTCC
31834069 CTAGTCGTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.19, C:0.40, G:0.21, T:0.19
Consensus pattern (42 bp):
CTAGGCACACGCCCATGTCCTTACCCGTGTGGCTCACACGAC
Found at i:31834078 original size:42 final size:42
Alignment explanation
Indices: 31833988--31834081 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
31833978 CATTTCCTTG
* * *
31833988 CCCGTGTGGCTCACACGACCTGGGCACACGCCCATGTCCTTA
1 CCCGTGTGGCTCACACGACCTAGGCACACACCCATGTCCCTA
*
31834030 CCCGTGTGGCTCACACGGCCTAGGCACACACCCATGTCCCTA
1 CCCGTGTGGCTCACACGACCTAGGCACACACCCATGTCCCTA
**
31834072 GTCGTGTGGC
1 CCCGTGTGGC
31834082 GTCGACAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.19
Consensus pattern (42 bp):
CCCGTGTGGCTCACACGACCTAGGCACACACCCATGTCCCTA
Found at i:31837092 original size:11 final size:11
Alignment explanation
Indices: 31837076--31837118 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
31837066 TCACTTTCAA
31837076 CTCTCTCAATT
1 CTCTCTCAATT
*
31837087 CTCTCTTAATT
1 CTCTCTCAATT
*
31837098 CTCACTCAA--
1 CTCTCTCAATT
31837107 CTCTCTCAATT
1 CTCTCTCAATT
31837118 C
1 C
31837119 AGTCTCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.31
11 18 0.69
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCTCAATT
Found at i:31840792 original size:38 final size:38
Alignment explanation
Indices: 31840749--31840825 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
31840739 CACAAGTCTG
*
31840749 ACTATTAAATGGGTCACAAAACCATTCAAACAATGAGA
1 ACTATTAAATGGGTCACAAAACCATTCAAACAAGGAGA
31840787 ACTATTAAATGGGTCACAAAACCATTCAAACAAGGAGA
1 ACTATTAAATGGGTCACAAAACCATTCAAACAAGGAGA
31840825 A
1 A
31840826 TAGAAGCCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.19
Consensus pattern (38 bp):
ACTATTAAATGGGTCACAAAACCATTCAAACAAGGAGA
Found at i:31848264 original size:92 final size:92
Alignment explanation
Indices: 31848107--31848291 Score: 343
Period size: 92 Copynumber: 2.0 Consensus size: 92
31848097 TCACAACTAG
*
31848107 TCATTAGAATTGGGTGCATCACCTTTCTTTTTCTTTCTTTAATTTAAACTATTAAATCAATAGGT
1 TCATTAGAATTGGGTGCATCACCTTTCTTTTTCTTTCTTTAATTTAAACTATTAAATCAAGAGGT
* *
31848172 TATGGGCAATTTAAAATATATTTTAGT
66 TATCGGCAACTTAAAATATATTTTAGT
31848199 TCATTAGAATTGGGTGCATCACCTTTCTTTTTCTTTCTTTAATTTAAACTATTAAATCAAGAGGT
1 TCATTAGAATTGGGTGCATCACCTTTCTTTTTCTTTCTTTAATTTAAACTATTAAATCAAGAGGT
31848264 TATCGGCAACTTAAAATATATTTTAGT
66 TATCGGCAACTTAAAATATATTTTAGT
31848291 T
1 T
31848292 ACTCTCATAC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (92 bp):
TCATTAGAATTGGGTGCATCACCTTTCTTTTTCTTTCTTTAATTTAAACTATTAAATCAAGAGGT
TATCGGCAACTTAAAATATATTTTAGT
Found at i:31867520 original size:27 final size:27
Alignment explanation
Indices: 31867386--31867567 Score: 120
Period size: 27 Copynumber: 6.7 Consensus size: 27
31867376 AAAATGTGGT
*
31867386 AAGTCTGCAAGGACTATCTT-T-TGCGG
1 AAGTCCGCAAGGACTATCTTATATG-GG
* * * * *
31867412 AAAGTCCACAAGGAATATCTAATGTGAG
1 -AAGTCCGCAAGGACTATCTTATATGGG
* * ** *
31867440 AAGTCCACAAGGACTATCCTATGCGGT
1 AAGTCCGCAAGGACTATCTTATATGGG
* *
31867467 AAGTCCGCAGGGACTAACTTA-AGTGGG
1 AAGTCCGCAAGGACTATCTTATA-TGGG
*
31867494 AAGTTCGCAAGGACTATCTTATATGGG
1 AAGTCCGCAAGGACTATCTTATATGGG
* * * **
31867521 AAGTCTGCAAGAACTATCTAATGGGGG
1 AAGTCCGCAAGGACTATCTTATATGGG
*
31867548 AGGTCCGTCAA-GACTATCTT
1 AAGTCCG-CAAGGACTATCTT
31867568 TAGTAGAAAT
Statistics
Matches: 119, Mismatches: 31, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
27 111 0.93
28 6 0.05
29 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (27 bp):
AAGTCCGCAAGGACTATCTTATATGGG
Found at i:31869514 original size:28 final size:28
Alignment explanation
Indices: 31869482--31869671 Score: 170
Period size: 28 Copynumber: 6.8 Consensus size: 28
31869472 AGTCTGCATT
*
31869482 GACTATCTTTCAAGTAAGAGTCCGCATG
1 GACTATCTTTCAAGTAAGAGTCCACATG
* * * *
31869510 AACTATCTTTCAAGCAAGATTCTGA-ATG
1 GACTATCTTTCAAGTAAGAGTC-CACATG
*
31869538 GACTATTTTTCAAGTAAGAGTCCACATG
1 GACTATCTTTCAAGTAAGAGTCCACATG
* * * * *
31869566 GGCTATCTTTCAAGTAAAATTTCGCATG
1 GACTATCTTTCAAGTAAGAGTCCACATG
* * *
31869594 GACGATCTTTCAAGTAAGAATCTACATG
1 GACTATCTTTCAAGTAAGAGTCCACATG
* *
31869622 GACTAT-TCTTCAAGAAAGAGTTCACATG
1 GACTATCT-TTCAAGTAAGAGTCCACATG
* *
31869650 AACTAT-TCTTCAAGCAAGAGTC
1 GACTATCT-TTCAAGTAAGAGTC
31869672 TGTAGGAACT
Statistics
Matches: 128, Mismatches: 31, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
27 2 0.02
28 126 0.98
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (28 bp):
GACTATCTTTCAAGTAAGAGTCCACATG
Found at i:31869572 original size:56 final size:56
Alignment explanation
Indices: 31869482--31869640 Score: 189
Period size: 56 Copynumber: 2.8 Consensus size: 56
31869472 AGTCTGCATT
* * *
31869482 GACTATCTTTCAAGTAAGAGTCCGCATGAACTATCTTTCAAGCAAGATTCTGAATG
1 GACTATCTTTCAAGTAAGAGTCCACATGGACTATCTTTCAAGAAAGATTCTGAATG
* * *
31869538 GACTATTTTTCAAGTAAGAGTCCACATGGGCTATCTTTCAAGTAAA-ATT-TCGCATG
1 GACTATCTTTCAAGTAAGAGTCCACATGGACTATCTTTCAAG-AAAGATTCT-GAATG
* * *
31869594 GACGATCTTTCAAGTAAGAATCTACATGGACTAT-TCTTCAAGAAAGA
1 GACTATCTTTCAAGTAAGAGTCCACATGGACTATCT-TTCAAGAAAGA
31869641 GTTCACATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
55 5 0.06
56 81 0.92
57 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (56 bp):
GACTATCTTTCAAGTAAGAGTCCACATGGACTATCTTTCAAGAAAGATTCTGAATG
Found at i:31869623 original size:84 final size:84
Alignment explanation
Indices: 31869484--31869649 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 84
31869474 TCTGCATTGA
* * * *
31869484 CTATCTTTCAAGTAAGAGTCCGCATGAACTATCTTTCAAGCAAGATTCTGAATGGACTATTTTTC
1 CTATCTTTCAAGTAAAAGTCCGCATGAACGATCTTTCAAGCAAGAATCTGAATGGACTATTCTTC
*
31869549 AAGTAAGAGTCCACATGGG
66 AAGAAAGAGTCCACATGGG
* * * *
31869568 CTATCTTTCAAGTAAAATTTCGCATGGACGATCTTTCAAGTAAGAATCT-ACATGGACTATTCTT
1 CTATCTTTCAAGTAAAAGTCCGCATGAACGATCTTTCAAGCAAGAATCTGA-ATGGACTATTCTT
*
31869632 CAAGAAAGAGTTCACATG
65 CAAGAAAGAGTCCACATG
31869650 AACTATTCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 1 0.01
84 70 0.99
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (84 bp):
CTATCTTTCAAGTAAAAGTCCGCATGAACGATCTTTCAAGCAAGAATCTGAATGGACTATTCTTC
AAGAAAGAGTCCACATGGG
Found at i:31874112 original size:112 final size:112
Alignment explanation
Indices: 31873935--31874292 Score: 554
Period size: 112 Copynumber: 3.2 Consensus size: 112
31873925 GAAATCAAGT
* * *
31873935 GTAAGAACATGAGGTTGAGACCCATAGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
* *
31874000 CTAGTAAGATGAAGACTAGACTAGCAAATCATGATACATGAATGTGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
* *
31874047 GTAAGACCATGTGGTTGAGACCCATGGCATCATAGTATGATATGAAAACAGTTATGGTGTAGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
* * *
31874112 CTAATAAGATAAAGACTAGACTAGTAGATCACGATACATGAATGTGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
* * * *
31874159 GTAAGACCATGTGGTTCAGACCCACGGCTTCTTAGTATGATATGAGAATAGTTATGGTGTAGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
* *
31874224 CTAGTAAGATGAAGATTAGACTAGCAGATCACGGTACATGAATGTGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
* *
31874271 GTAATACTATGTGGTTGAGACC
1 GTAAGACCATGTGGTTGAGACC
31874293 TATGACAAGA
Statistics
Matches: 222, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 222 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (112 bp):
GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
Found at i:31875863 original size:9 final size:9
Alignment explanation
Indices: 31875849--31875874 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
31875839 TGATGAATTG
31875849 AAAGAGCCA
1 AAAGAGCCA
31875858 AAAGAGCCA
1 AAAGAGCCA
31875867 AAAGAGCC
1 AAAGAGCC
31875875 TGCATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAGAGCCA
Found at i:31879134 original size:37 final size:38
Alignment explanation
Indices: 31879093--31879175 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 38
31879083 TGGGCATACG
* *
31879093 CAAGCTAAGACAGTCCATTTG-ACTTGTCCTCATGTT-T
1 CAAGCTAAGACAGTCCA-CTGAACTTGTCCTCAAGTTCT
31879130 CAAGCTAAGACAGTCCACTGAACTTGTCCTCAAGTTCT
1 CAAGCTAAGACAGTCCACTGAACTTGTCCTCAAGTTCT
*
31879168 CATGCTAA
1 CAAGCTAA
31879176 TGCTATACGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
36 2 0.05
37 31 0.76
38 8 0.20
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (38 bp):
CAAGCTAAGACAGTCCACTGAACTTGTCCTCAAGTTCT
Found at i:31879309 original size:28 final size:28
Alignment explanation
Indices: 31879278--31879355 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
31879268 AAAAGTCCGT
*
31879278 ATGGACTA-TCTTTCAAGTAAGAATTTGC
1 ATGGACTATTC-TTCAAGTAAGAATTCGC
* *
31879306 ATGGACTATTCTTCAAGCAAGAGTTCGC
1 ATGGACTATTCTTCAAGTAAGAATTCGC
* *
31879334 AAGAACTATTCTTCAAGTAAGA
1 ATGGACTATTCTTCAAGTAAGA
31879356 GTCCGCAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 41 0.95
29 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (28 bp):
ATGGACTATTCTTCAAGTAAGAATTCGC
Found at i:31882081 original size:11 final size:9
Alignment explanation
Indices: 31882051--31882085 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
31882041 TACAACTATT
31882051 TATAGCTTA
1 TATAGCTTA
31882060 TATAGCTTA
1 TATAGCTTA
31882069 TATAGCTTA
1 TATAGCTTA
31882078 TATAGCTT
1 TATAGCTT
31882086 TTTATTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATAGCTTA
Found at i:31886944 original size:15 final size:15
Alignment explanation
Indices: 31886924--31886954 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31886914 AAAACAATAT
31886924 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
31886939 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
31886954 A
1 A
31886955 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:31891349 original size:15 final size:15
Alignment explanation
Indices: 31891329--31891359 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31891319 AAAACAATAT
31891329 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
31891344 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
31891359 A
1 A
31891360 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:31892875 original size:132 final size:132
Alignment explanation
Indices: 31892638--31892926 Score: 470
Period size: 132 Copynumber: 2.2 Consensus size: 132
31892628 ACCGGTGAAA
*
31892638 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * *
31892703 ACAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 ACAGTAGTGGAGCAGACCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGAAAGCAAATTTAA
31892768 GC
131 GC
* * * * *
31892770 CACCAAGCATTGTCTCCCTGAGTAGTAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * *
31892835 GCAGTAGTGGAGCAGACCAAAGACGGTAAATCTTATCTTTCCTAGATAGTGGAAAGCAAATTTAA
66 ACAGTAGTGGAGCAGACCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGAAAGCAAATTTAA
31892900 GC
131 GC
31892902 CACCAAGCCTTGTCTCCCTGAGCAG
1 CACCAAGCCTTGTCTCCCTGAGCAG
31892927 ATTTAAGCCA
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 143 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAA
ACAGTAGTGGAGCAGACCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGAAAGCAAATTTAA
GC
Found at i:31892936 original size:33 final size:33
Alignment explanation
Indices: 31892889--31892959 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
31892879 GATAGTGGAA
*
31892889 AGCAAATTTAAGCCACCAAGCCTTGTCTCCCTG
1 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTG
31892922 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTG
1 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTG
31892955 AGCAG
1 AGCAG
31892960 CAGCGGAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (33 bp):
AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTG
Found at i:31893033 original size:44 final size:44
Alignment explanation
Indices: 31892985--31893169 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
31892975 AAAATTGTAG
31892985 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* ** * **
31893029 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCAA
** * * * * * * * * ** * *
31893073 GCCTTGTTTCCCTGAGCAGCAGCGGAGAAGGTTGAAA-ATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGCAA
* *
31893117 ATCTTATCTCCCGAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
31893161 ATCTTATCT
1 ATCTTATCT
31893170 TTCCAAGATA
Statistics
Matches: 93, Mismatches: 40, Indels: 16
0.62 0.27 0.11
Matches are distributed among these distances:
42 4 0.04
43 11 0.12
44 66 0.71
45 10 0.11
46 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
Found at i:31893033 original size:165 final size:165
Alignment explanation
Indices: 31892757--31893091 Score: 589
Period size: 165 Copynumber: 2.0 Consensus size: 165
31892747 GATAGTGGGA
* *
31892757 AGCAGATTTAAGCCACCAAGCATTGTCTCCCTGAGTAGTAGCGGAGTAGGTTGAAAATTGTAGAT
1 AGCAGATTTAAGCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
* *
31892822 CTTATCTCCCTAAGCAGTAGTGGAGCAGACCAAAGACGGTAAATCTTATCTTTCCTAGATAGTGG
66 CTTATCTCCCTAAGCAGTAGTGGAGCAGACCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
31892887 AAAGCAAATTTAAGCCACCAAGCCTTGTCTCCCTG
131 AAAGCAAATTTAAGCCACCAAGCCTTGTCTCCCTG
*
31892922 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
1 AGCAGATTTAAGCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
*
31892987 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
66 CTTATCTCCCTAAGCAGTAGTGGAGCAGACCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
* * *
31893052 GAAGCAGATTTAAGCCACCAAGCCTTGTTTCCCTG
131 AAAGCAAATTTAAGCCACCAAGCCTTGTCTCCCTG
31893087 AGCAG
1 AGCAG
31893092 CAGCGGAGAA
Statistics
Matches: 161, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 161 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (165 bp):
AGCAGATTTAAGCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGACCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
AAAGCAAATTTAAGCCACCAAGCCTTGTCTCCCTG
Found at i:31893162 original size:132 final size:132
Alignment explanation
Indices: 31892922--31893260 Score: 561
Period size: 132 Copynumber: 2.6 Consensus size: 132
31892912 TGTCTCCCTG
31892922 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
1 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
* *
31892987 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
66 CTTATCTCCCGAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
31893052 GA
131 GA
* *
31893054 AGCAGATTTAAGCCACCAAGCCTTGTTTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGAT
1 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
31893119 CTTATCTCCCGAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
66 CTTATCTCCCGAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
31893184 GA
131 GA
* * * ** * * * *
31893186 AGCAGATTTAAGCCACTAAGCCTTATCTCCCTTAGCAGCAGTAGAGTAGGTTGAAGATGGCAAAT
1 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
31893251 CTTATCTCCC
66 CTTATCTCCC
31893261 TGTAGTTGCA
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 192 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (132 bp):
AGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGAT
CTTATCTCCCGAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGG
GA
Found at i:31893172 original size:297 final size:297
Alignment explanation
Indices: 31892638--31893223 Score: 1001
Period size: 297 Copynumber: 2.0 Consensus size: 297
31892628 ACCGGTGAAA
*
31892638 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAA
31892703 ACAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 ACAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * *
31892768 GCCACCAAGCATTGTCTCCCTGAGTAGTAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCT
131 GCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCG
** *
31892833 AAGCAGTAGTGGAGCAGACCAAAGACGGTAAATCTTATCTTTCCTAGATAGTGGAAAGCAAATTT
196 AAGCAGTAGTGGAGCAGACCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGAAAGCAAATTT
*
31892898 AAGCCACCAAGCCTTGTCTCCCTGAGCAGATTTAAGC
261 AAGCCACCAAGCCTTATCTCCCTGAGCAGATTTAAGC
* *
31892935 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAA
*
31893000 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 ACAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* *
31893065 GCCACCAAGCCTTGTTTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCG
131 GCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCG
* * *
31893130 AAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAGACCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGAAAGCAAATTT
* *
31893195 AAGCCACTAAGCCTTATCTCCCTTAGCAG
261 AAGCCACCAAGCCTTATCTCCCTGAGCAG
31893224 CAGTAGAGTA
Statistics
Matches: 270, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
297 270 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (297 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAA
ACAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCG
AAGCAGTAGTGGAGCAGACCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGAAAGCAAATTT
AAGCCACCAAGCCTTATCTCCCTGAGCAGATTTAAGC
Found at i:31893464 original size:44 final size:44
Alignment explanation
Indices: 31893376--31893491 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 44
31893366 GATCGCGTCT
*
31893376 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACA
*
31893420 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAATGAACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAATAAACA
* * * * *
31893464 AATCCTATCTCCCTAAAGATGTAGTGGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA
31893492 ATTGGTTTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
43 3 0.05
44 55 0.90
45 3 0.05
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACA
Found at i:31895072 original size:29 final size:26
Alignment explanation
Indices: 31895023--31895085 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
31895013 AGTCCTTTTT
* *
31895023 ATTTTCTTTATTTTTTTTA-TTAATT
1 ATTTTTTTTATTTTTTTTATTTAATC
31895048 AGTTTTTTTTATTCTTTTTCATATTTAATC
1 A-TTTTTTTTATT-TTTTT--TATTTAATC
31895078 ATTTTTTT
1 ATTTTTTT
31895086 AAAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 1 0.03
26 10 0.32
27 5 0.16
29 9 0.29
30 6 0.19
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (26 bp):
ATTTTTTTTATTTTTTTTATTTAATC
Found at i:31895197 original size:24 final size:27
Alignment explanation
Indices: 31895155--31895224 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
31895145 TTATTTTTAT
*
31895155 TTTATTTT-T-ATTTATATGTAAT-TA
1 TTTATTTTATAATATATATGTAATATA
*
31895179 -TT-TTTTATAATCTATATGT-ATATA
1 TTTATTTTATAATATATATGTAATATA
*
31895203 TTTATTTTATTATATATATGTA
1 TTTATTTTATAATATATATGTA
31895225 TGTATACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 4 0.11
23 5 0.14
24 11 0.30
25 2 0.05
26 15 0.41
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTATTTTATAATATATATGTAATATA
Found at i:31895850 original size:13 final size:13
Alignment explanation
Indices: 31895832--31895858 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31895822 GGAATTCAAC
31895832 ACGTTGTGTCCTA
1 ACGTTGTGTCCTA
31895845 ACGTTGTGTCCTA
1 ACGTTGTGTCCTA
31895858 A
1 A
31895859 AGGAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (13 bp):
ACGTTGTGTCCTA
Found at i:31902376 original size:28 final size:28
Alignment explanation
Indices: 31902336--31902461 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
31902326 TGACTCTCGA
31902336 CACTAAGTGTGCG-GATTTAATTGTAAAG
1 CACTAAGTGTGCGAG-TTTAATTGTAAAG
31902364 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
31902392 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* **
31902420 CACTAAGTGTGCGAGTTTGACTT-TTGAG
1 CACTAAGTGTGCGAGTTT-AATTGTAAAG
31902448 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
31902462 ACTTATTAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
28 86 0.97
29 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:31903224 original size:23 final size:23
Alignment explanation
Indices: 31903197--31903445 Score: 205
Period size: 23 Copynumber: 10.6 Consensus size: 23
31903187 TTATGCTTAA
*
31903197 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
* *
31903220 ATGCTGCCCAAATTGTTGCATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
31903243 ATGCTGTCCAATTTTTATGCT-TAA
1 ATGCTGCCCAATTTGT-TG-TATAT
*
31903267 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
31903290 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* *
31903314 ATGCTGCTCAATTTGGTATATATAT
1 ATGCTGCCCAATTT-GT-TGTATAT
* *
31903339 AGGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
31903362 ATGCTGTCCACTTTTTATGCTA-AA
1 ATGCTGCCCAATTTGT-TG-TATAT
* *
31903386 ATGCTGCTCAATTTGATGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* *
31903409 ACGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
31903432 ATGCTGTCCAATTT
1 ATGCTGCCCAATTT
31903446 TTGGTGTGAA
Statistics
Matches: 171, Mismatches: 46, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
22 3 0.02
23 100 0.58
24 51 0.30
25 17 0.10
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:31903316 original size:47 final size:47
Alignment explanation
Indices: 31903197--31903446 Score: 206
Period size: 47 Copynumber: 5.3 Consensus size: 47
31903187 TTATGCTTAA
* * ** *
31903197 ATGCTGCCCAA-TTTGTTGTATTTATGCTGCCCAAATTGTTGCATAT
1 ATGCTGTCCAATTTTGATGTATAAATGCTGCCCAAATTGTTGTATAT
*
31903243 ATGCTGTCCAATTTTTATGCT-TAAATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTTGATG-TATAAATGCTGCCCAAATTGTTGTATAT
* * * *
31903290 ATGCTGTCCAATTTTGATGTAAAAATGCTGCTCAATTTGGTATATATAT
1 ATGCTGTCCAATTTTGATGTATAAATGCTGCCCAAATT-GT-TGTATAT
* * * * * * ** * *
31903339 AGGCTGCCCAA-ATTGTTGTATATATGCTGTCCACTTTTTATGCTA-AA
1 ATGCTGTCCAATTTTGATGTATAAATGCTGCCCAAATTGT-TG-TATAT
* *
31903386 ATGCTG-CTCAA-TTTGATGTATATACGCTGCCCAAATTGTTGTATAT
1 ATGCTGTC-CAATTTTGATGTATAAATGCTGCCCAAATTGTTGTATAT
31903432 ATGCTGTCCAATTTT
1 ATGCTGTCCAATTTT
31903447 TGGTGTGAAA
Statistics
Matches: 162, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.01
46 24 0.15
47 97 0.60
48 24 0.15
49 15 0.09
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (47 bp):
ATGCTGTCCAATTTTGATGTATAAATGCTGCCCAAATTGTTGTATAT
Found at i:31903368 original size:119 final size:117
Alignment explanation
Indices: 31903195--31903445 Score: 324
Period size: 119 Copynumber: 2.1 Consensus size: 117
31903185 TTTTATGCTT
* * *
31903195 AAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTTTA
1 AAATGCTGCCCAATTTGTTATATATAGGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTTTA
* * * *
31903260 TGCTTAAATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATGTAA
66 TGCTAAAATGCTGCCCAAATTGATGTATATACGCTGCCCAATTTTGATGTAA
* * *
31903312 AAATGCTGCTCAATTTGGTATATATATAGGCTGCCCAAATTGTTGTATATATGCTGTCCACTTTT
1 AAATGCTGCCCAATTT-GT-TATATATAGGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTT
* * * * *
31903377 TATGCTAAAATGCTGCTCAATTTGATGTATATACGCTGCCCAA-ATTGTTGTAT
64 TATGCTAAAATGCTGCCCAAATTGATGTATATACGCTGCCCAATTTTGATGTAA
* *
31903430 ATATGCTGTCCAATTT
1 AAATGCTGCCCAATTT
31903446 TTGGTGTGAA
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
117 15 0.13
118 22 0.19
119 77 0.68
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (117 bp):
AAATGCTGCCCAATTTGTTATATATAGGCTGCCCAAATTGTTGCATATATGCTGTCCAATTTTTA
TGCTAAAATGCTGCCCAAATTGATGTATATACGCTGCCCAATTTTGATGTAA
Found at i:31903423 original size:70 final size:72
Alignment explanation
Indices: 31903269--31903461 Score: 293
Period size: 72 Copynumber: 2.7 Consensus size: 72
31903259 ATGCTTAAAT
*
31903269 GCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTGATGTAAAAATGCTGCTCAATTTGGTATA
1 GCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTATGTAAAAATGCTGCTCAATTTGGTATA
*
31903334 TATATAG
66 TATATAC
*
31903341 GCTGCCCAAATTGTTGTATATATGCTGTCCACTTTTTATGCT-AAAATGCTGCTCAATTT-G-AT
1 GCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTATG-TAAAAATGCTGCTCAATTTGGTAT
*
31903403 GTATATAC
65 ATATATAC
* *
31903411 GCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTGGTGTGAAAATGCT
1 GCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTT-ATGTAAAAATGCT
31903462 ATATAGTTTG
Statistics
Matches: 112, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
70 45 0.40
71 11 0.10
72 55 0.49
73 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (72 bp):
GCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTATGTAAAAATGCTGCTCAATTTGGTATA
TATATAC
Found at i:31909940 original size:28 final size:28
Alignment explanation
Indices: 31909900--31910025 Score: 189
Period size: 28 Copynumber: 4.5 Consensus size: 28
31909890 TGACTTTCGA
*
31909900 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
31909928 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
31909956 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
31909984 CACTAAGTGTGCGAGTTTGATTTTTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
31910012 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
31910026 ACTTATTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 89 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:31910421 original size:2 final size:2
Alignment explanation
Indices: 31910414--31910462 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
31910404 TATGTGACTG
31910414 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
31910456 AA TA TA T
1 TA TA TA T
31910463 GGAATGAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:31921437 original size:88 final size:88
Alignment explanation
Indices: 31921326--31921501 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
31921316 ACATGTTATT
31921326 GTGTATAAATTGTTATGATCTAATTTATTTTTTTGTGATTAATTTTATGTAAAATTTGATACATT
1 GTGTATAAATTGTTATGATCTAATTTATTTTTTTGTGATTAATTTTATGTAAAATTTGATACATT
31921391 TGGGTATCTATATTGCGTTGATG
66 TGGGTATCTATATTGCGTTGATG
31921414 GTGTATAAATTGTTATGATCTAATTTATTTTTTTGTGATTAATTTTATGTAAAATTTGATACATT
1 GTGTATAAATTGTTATGATCTAATTTATTTTTTTGTGATTAATTTTATGTAAAATTTGATACATT
31921479 TGGGTATCTATATTGCGTTGATG
66 TGGGTATCTATATTGCGTTGATG
31921502 TTATTTTTGT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (88 bp):
GTGTATAAATTGTTATGATCTAATTTATTTTTTTGTGATTAATTTTATGTAAAATTTGATACATT
TGGGTATCTATATTGCGTTGATG
Found at i:31923703 original size:85 final size:85
Alignment explanation
Indices: 31923560--31923731 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
31923550 TGTTTAAGTC
*
31923560 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTGGAAAATGAAAATGAATTCATGGCATTGCC
1 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTAGAAAATGAAAATGAATTCATGGCATTGCC
31923625 TTCAATGGAATAAACATTGA
66 TTCAATGGAATAAACATTGA
31923645 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTAGAAAATGAAAATGAATTCATGGCATTGCC
1 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTAGAAAATGAAAATGAATTCATGGCATTGCC
31923710 TTCAATGGAATAAACATTGA
66 TTCAATGGAATAAACATTGA
31923730 AC
1 AC
31923732 CGACAGATCG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (85 bp):
ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTAGAAAATGAAAATGAATTCATGGCATTGCC
TTCAATGGAATAAACATTGA
Found at i:31926306 original size:5 final size:5
Alignment explanation
Indices: 31926296--31926329 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
31926286 ATAATTACCA
31926296 AAATG AAATG AAATG AAATG AAAATG AAATG AAA
1 AAATG AAATG AAATG AAATG -AAATG AAATG AAA
31926330 ATGGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:31926322 original size:11 final size:11
Alignment explanation
Indices: 31926295--31926332 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
31926285 AATAATTACC
31926295 AAAATGAAATG
1 AAAATGAAATG
31926306 -AAATGAAATG
1 AAAATGAAATG
31926316 AAAATGAAATG
1 AAAATGAAATG
31926327 AAAATG
1 AAAATG
31926333 GAGAAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (11 bp):
AAAATGAAATG
Found at i:31926389 original size:57 final size:58
Alignment explanation
Indices: 31926322--31926432 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
31926312 AATGAAAATG
* * *
31926322 AAATGAAAATGGAGAAATAGAAACATTTGGAAATGATTA-TGGTTTTCTCCAAACTGA
1 AAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCTCCAAACTGA
* *
31926379 AAATGAAAATGGAGAAATGGAATCATTTAGAAATGAATAGTAGTTTTCTCCAAA
1 AAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCTCCAAA
31926433 ATCAAAAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 35 0.73
58 13 0.27
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (58 bp):
AAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCTCCAAACTGA
Found at i:31926454 original size:57 final size:57
Alignment explanation
Indices: 31926326--31926454 Score: 134
Period size: 57 Copynumber: 2.3 Consensus size: 57
31926316 AAAATGAAAT
* * * * * * * * *
31926326 GAAAATGGAGAAATAGAAACATTTGGAAATGATTATGGTTTTCTCCAAACTGAAAAT
1 GAAAATAGAAAAATGGAAACATTTAGAAATGAATATAGTTTTCTCCAAAATCAAAAA
* * *
31926383 GAAAATGGAGAAATGGAATCATTTAGAAATGAATAGTAGTTTTCTCCAAAATCAAAAA
1 GAAAATAGAAAAATGGAAACATTTAGAAATGAATA-TAGTTTTCTCCAAAATCAAAAA
31926441 GAAAA-AGAAAAATG
1 GAAAATAGAAAAATG
31926455 AAAATGACCT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
57 38 0.62
58 23 0.38
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.25
Consensus pattern (57 bp):
GAAAATAGAAAAATGGAAACATTTAGAAATGAATATAGTTTTCTCCAAAATCAAAAA
Found at i:31928255 original size:9 final size:9
Alignment explanation
Indices: 31928238--31928274 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
31928228 TGAGTTTTCA
31928238 AATTCGAAT
1 AATTCGAAT
*
31928247 AACTCGAAT
1 AATTCGAAT
31928256 AATTCGAAT
1 AATTCGAAT
31928265 AATTCGAAT
1 AATTCGAAT
31928274 A
1 A
31928275 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:31928522 original size:30 final size:31
Alignment explanation
Indices: 31928488--31928547 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
31928478 AAACCTTTTA
*
31928488 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
31928518 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
31928548 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:31928817 original size:9 final size:9
Alignment explanation
Indices: 31928803--31928831 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
31928793 AATTTCACAT
31928803 TTTATATTA
1 TTTATATTA
31928812 TTTATATTA
1 TTTATATTA
31928821 TTTATATTA
1 TTTATATTA
31928830 TT
1 TT
31928832 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:31930764 original size:163 final size:163
Alignment explanation
Indices: 31930585--31930885 Score: 476
Period size: 163 Copynumber: 1.8 Consensus size: 163
31930575 ATACTTCAAA
* * *
31930585 CATATTCTCAGTTCAAACACTTGCATACTCCAATAGCCACAGATAAACAATTCAACCTAATGTAC
1 CATATTCTCAGTTCAAACACATGCATACTCCAATAGCCACACATAAACAATTCAACCTAATATAC
* * * *
31930650 ATATCATATACACTTCCCAAAATGAACATTTCATATATAGACTATTTTCATCATTTTCAAAAATC
66 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGAATATTTTCAACAATTTCAAAAATC
31930715 AACATTTAAAATATAAGGCATCCCAAAAGCAAC
131 AACATTTAAAATATAAGGCATCCCAAAAGCAAC
* * *
31930748 CATATTCTCGGTTCAAACACATGTATACTCCAATAGCCACACATATACAATTCAACCTAATATAC
1 CATATTCTCAGTTCAAACACATGCATACTCCAATAGCCACACATAAACAATTCAACCTAATATAC
* * * *
31930813 ATATCATATACACTTCCCAAAATAAACATTTCATTTGTAGAATCTTTTCAACAATTTCCAAAATC
66 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGAATATTTTCAACAATTTCAAAAATC
31930878 AACATTTA
131 AACATTTA
31930886 TTCGCATCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
163 124 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (163 bp):
CATATTCTCAGTTCAAACACATGCATACTCCAATAGCCACACATAAACAATTCAACCTAATATAC
ATATCATATACACTTCCCAAAATAAACATTTCATATATAGAATATTTTCAACAATTTCAAAAATC
AACATTTAAAATATAAGGCATCCCAAAAGCAAC
Found at i:31931481 original size:19 final size:19
Alignment explanation
Indices: 31931457--31931504 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
31931447 TTTATAAATA
31931457 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTAAAAATTAT
** *
31931476 TTTGAAGTTTTGTAAGTTAT
1 TTTGAA-TTTTAAAAATTAT
31931496 TTTG-ATTTT
1 TTTGAATTTT
31931505 TTTGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 7 0.28
20 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTGAATTTTAAAAATTAT
Found at i:31932493 original size:25 final size:25
Alignment explanation
Indices: 31932459--31932507 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
31932449 ACAAGACTAA
*
31932459 AATTGCTCACATGAGCTATGAATAT
1 AATTGCTCACATGAGCTATAAATAT
31932484 AATTGCTCACATGAGCTATAAATA
1 AATTGCTCACATGAGCTATAAATA
31932508 AGGACATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (25 bp):
AATTGCTCACATGAGCTATAAATAT
Found at i:31949771 original size:10 final size:10
Alignment explanation
Indices: 31949744--31949781 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
31949734 AACTATCGTA
31949744 AAATGTGACTT
1 AAATGTGA-TT
31949755 AAA-GTGATT
1 AAATGTGATT
31949764 AAATGTGATT
1 AAATGTGATT
31949774 AATATGTG
1 AA-ATGTG
31949782 CTGTAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.20
10 12 0.48
11 8 0.32
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (10 bp):
AAATGTGATT
Found at i:31963147 original size:20 final size:20
Alignment explanation
Indices: 31963104--31963147 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
31963094 AGATATAATT
* *
31963104 AAAAAATTATTTTAAAATTT
1 AAAAAATTATTTTAAAACTC
*
31963124 AAAAAATTATTTTAGAACTC
1 AAAAAATTATTTTAAAACTC
31963144 AAAA
1 AAAA
31963148 TTTTCATGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAATTATTTTAAAACTC
Found at i:31969289 original size:21 final size:24
Alignment explanation
Indices: 31969265--31969309 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31969255 TAAATGGACT
31969265 TTTGTTAA-TTG-T-TTTTATTTG
1 TTTGTTAATTTGTTGTTTTATTTG
31969286 TTTGTTAATTTGTTGTTTTATTTG
1 TTTGTTAATTTGTTGTTTTATTTG
31969310 GGGCGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 3 0.14
23 1 0.05
24 9 0.43
ACGTcount: A:0.13, C:0.00, G:0.16, T:0.71
Consensus pattern (24 bp):
TTTGTTAATTTGTTGTTTTATTTG
Found at i:31969906 original size:100 final size:100
Alignment explanation
Indices: 31969768--31969988 Score: 228
Period size: 100 Copynumber: 2.2 Consensus size: 100
31969758 TATATAGGAT
* * ** * * *
31969768 TTGTAGCTTTATCTTACTCCGCTGCATCTTTA-GAGAGATAAAATCTGCTATTGTAGCTTCAATC
1 TTGTAGCTTCATCTTACCCCAATGCATCTTCATG-GAGATAAAATCTGCTACTATAGCTTCAATC
* * * ** *
31969832 CAATCCAGTTCATCTTTAGGGATATGAGATTTGAGG
65 CAATCCACTGCATCTTTAAGGATACAAGATTAGAGG
* * * * * **
31969868 TTGTAGCTTCATCTTGCCCCAATGCATCTTCATGGAGATGAGATTTGCTACTATAGTTTTGATCC
1 TTGTAGCTTCATCTTACCCCAATGCATCTTCATGGAGATAAAATCTGCTACTATAGCTTCAATCC
**
31969933 TGTCCACTGCATCTTTAAGGATACAAGATTAGAGG
66 AATCCACTGCATCTTTAAGGATACAAGATTAGAGG
31969968 TTGTAGCTTCATCTTACCCCA
1 TTGTAGCTTCATCTTACCCCA
31969989 TTACTAAACT
Statistics
Matches: 97, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
100 96 0.99
101 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (100 bp):
TTGTAGCTTCATCTTACCCCAATGCATCTTCATGGAGATAAAATCTGCTACTATAGCTTCAATCC
AATCCACTGCATCTTTAAGGATACAAGATTAGAGG
Found at i:31971116 original size:2 final size:2
Alignment explanation
Indices: 31971109--31971146 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
31971099 TAACATATTC
31971109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31971147 CAATGACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31972491 original size:25 final size:25
Alignment explanation
Indices: 31972463--31972536 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 25
31972453 ATAACAATTA
31972463 TTATATAATATAATT-T-ACATACATT
1 TTATATAAT-TAATTATAACATACA-T
*
31972488 TTATATAATTTATTATAACATACAT
1 TTATATAATTAATTATAACATACAT
*
31972513 TTATATTAAGTAATATATATACAT
1 TTATA-TAATTAAT-TATA-ACAT
31972537 CATACATCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.10
25 16 0.39
26 13 0.32
27 4 0.10
28 4 0.10
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (25 bp):
TTATATAATTAATTATAACATACAT
Found at i:31983672 original size:6 final size:6
Alignment explanation
Indices: 31983657--31983686 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
31983647 TAAGAAACTT
*
31983657 CCATGA CCATGC CCATGC CCATGC CCATGC
1 CCATGC CCATGC CCATGC CCATGC CCATGC
31983687 TCAAACCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.47, G:0.17, T:0.17
Consensus pattern (6 bp):
CCATGC
Found at i:31988978 original size:30 final size:30
Alignment explanation
Indices: 31988944--31989078 Score: 188
Period size: 30 Copynumber: 4.6 Consensus size: 30
31988934 CAAAAAATAT
* *
31988944 AAATTACATTTTGACTCCCT-AACTTTTTTA
1 AAATTACATTTTAAC-CCCTAAACTTTCTTA
31988974 AAATTACATTTTAA-CCCT-AACTTT-TTA
1 AAATTACATTTTAACCCCTAAACTTTCTTA
31989001 AAATTACATTTTAACCCCTAAACTTTCTTA
1 AAATTACATTTTAACCCCTAAACTTTCTTA
* * *
31989031 AAATTACCTTTTAACCCTTAAACTTTCCTA
1 AAATTACATTTTAACCCCTAAACTTTCTTA
31989061 AAATTACATTTTAACCCC
1 AAATTACATTTTAACCCC
31989079 AAGTTTACCT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
27 17 0.18
28 14 0.15
29 6 0.06
30 59 0.61
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (30 bp):
AAATTACATTTTAACCCCTAAACTTTCTTA
Found at i:31989007 original size:57 final size:60
Alignment explanation
Indices: 31988944--31989078 Score: 197
Period size: 57 Copynumber: 2.3 Consensus size: 60
31988934 CAAAAAATAT
* * *
31988944 AAATTACATTTTGACTCCCT-AACTTTTTTAAAATTACATTTTAACCC-T-AACTTT-TTA
1 AAATTACATTTTAAC-CCCTAAACTTTCTTAAAATTACATTTTAACCCTTAAACTTTCCTA
*
31989001 AAATTACATTTTAACCCCTAAACTTTCTTAAAATTACCTTTTAACCCTTAAACTTTCCTA
1 AAATTACATTTTAACCCCTAAACTTTCTTAAAATTACATTTTAACCCTTAAACTTTCCTA
31989061 AAATTACATTTTAACCCC
1 AAATTACATTTTAACCCC
31989079 AAGTTTACCT
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
56 4 0.06
57 39 0.56
58 1 0.01
59 6 0.09
60 20 0.29
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (60 bp):
AAATTACATTTTAACCCCTAAACTTTCTTAAAATTACATTTTAACCCTTAAACTTTCCTA
Found at i:31989097 original size:29 final size:28
Alignment explanation
Indices: 31988944--31989102 Score: 158
Period size: 30 Copynumber: 5.4 Consensus size: 28
31988934 CAAAAAATAT
* **
31988944 AAATTACATTTTGACTCCCTAACTTTTTTA
1 AAATTACATTTTAAC-CCC-AACTTTCCTA
* *
31988974 AAATTACATTTTAACCCTAACTTT-TTA
1 AAATTACATTTTAACCCCAACTTTCCTA
*
31989001 AAATTACATTTTAACCCCTAAACTTTCTTA
1 AAATTACATTTTAACCCC--AACTTTCCTA
* *
31989031 AAATTACCTTTTAACCCTTAAACTTTCCTA
1 AAATTACATTTTAACCC--CAACTTTCCTA
*
31989061 AAATTACATTTTAACCCCAAGTTTACCTA
1 AAATTACATTTTAACCCCAACTTT-CCTA
31989090 AAATTACACTTTT
1 AAATTACA-TTTT
31989103 GCCCCAAAAT
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
27 20 0.18
28 11 0.10
29 20 0.18
30 62 0.55
ACGTcount: A:0.35, C:0.22, G:0.01, T:0.42
Consensus pattern (28 bp):
AAATTACATTTTAACCCCAACTTTCCTA
Found at i:31989102 original size:60 final size:57
Alignment explanation
Indices: 31988944--31989102 Score: 180
Period size: 57 Copynumber: 2.7 Consensus size: 57
31988934 CAAAAAATAT
* * ** *
31988944 AAATTACATTTTGACTCCCTAACTTTTTTAAAATTACA-TTTTAACCCTAACTTTTTA
1 AAATTACATTTTAAC-CCCAAACTTTCCTAAAATTACACTTTTAACCCTAACTTTCTA
*
31989001 AAATTACATTTTAACCCCTAAACTTTCTTAAAATTAC-CTTTTAACCCTTAAACTTTCCTA
1 AAATTACATTTTAACCCC-AAACTTTCCTAAAATTACACTTTTAACCC-T-AACTTT-CTA
*
31989061 AAATTACATTTTAACCCC-AAGTTTACCTAAAATTACACTTTT
1 AAATTACATTTTAACCCCAAACTTT-CCTAAAATTACACTTTT
31989103 GCCCCAAAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
56 3 0.03
57 39 0.44
58 6 0.07
59 16 0.18
60 25 0.28
ACGTcount: A:0.35, C:0.22, G:0.01, T:0.42
Consensus pattern (57 bp):
AAATTACATTTTAACCCCAAACTTTCCTAAAATTACACTTTTAACCCTAACTTTCTA
Found at i:31989566 original size:22 final size:21
Alignment explanation
Indices: 31989541--31989632 Score: 78
Period size: 21 Copynumber: 4.1 Consensus size: 21
31989531 AAGAAAAGGG
31989541 AAAGAAAAGAAGAAAGAAGAAA
1 AAAGAAAAGAA-AAAGAAGAAA
31989563 AAAGAAAAAAGGAAAAAAGAAGAAA
1 AAAG--AAAA-G-AAAAAGAAGAAA
* * *
31989588 AAAGGAAGGAAAAAGAAAGAAT
1 AAAGAAAAGAAAAAG-AAGAAA
*
31989610 AAAG-AAAGAATAAAAAAGAAA
1 AAAGAAAAGAA-AAAGAAGAAA
31989631 AA
1 AA
31989633 TTTAAAAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
21 18 0.31
22 17 0.29
23 2 0.03
24 4 0.07
25 15 0.26
26 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (21 bp):
AAAGAAAAGAAAAAGAAGAAA
Found at i:31989587 original size:25 final size:26
Alignment explanation
Indices: 31989528--31989632 Score: 97
Period size: 25 Copynumber: 4.0 Consensus size: 26
31989518 CTAGGGTTTT
** *
31989528 AAGAAGAAAAGGGAAAGAAAAGAAGA
1 AAGAAGAAAAAAGAAAGAAAAGAAAA
*
31989554 AAGAAGAAAAAAGAAA-AAAGGAAAA
1 AAGAAGAAAAAAGAAAGAAAAGAAAA
* * *
31989579 AAGAAGAAAAAAGGAAGGAAA-AAGA
1 AAGAAGAAAAAAGAAAGAAAAGAAAA
* *
31989604 AAGAATAAAGAAAGAATAAAAAAGAAAA
1 AAGAAGAAA-AAAGAA-AGAAAAGAAAA
31989632 A
1 A
31989633 TTTAAAAATA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
25 33 0.53
26 21 0.34
27 4 0.06
28 4 0.06
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (26 bp):
AAGAAGAAAAAAGAAAGAAAAGAAAA
Found at i:31989595 original size:11 final size:11
Alignment explanation
Indices: 31989528--31989632 Score: 55
Period size: 11 Copynumber: 9.7 Consensus size: 11
31989518 CTAGGGTTTT
31989528 AAGAAGAAAAGGG
1 AAGAA-AAAA-GG
*
31989541 AAAGAAAAGAAGA
1 -AAGAAAA-AAGG
31989554 AAGAAGAAAA--
1 AAGAA-AAAAGG
31989564 AAGAAAAAA-G
1 AAGAAAAAAGG
31989574 --GAAAAAA-G
1 AAGAAAAAAGG
31989582 AAGAAAAAAGG
1 AAGAAAAAAGG
* *
31989593 AAGGAAAAAGA
1 AAGAAAAAAGG
* *
31989604 AAGAATAAAGA
1 AAGAAAAAAGG
31989615 AAGAATAAAA--
1 AAGAA-AAAAGG
31989625 AAGAAAAA
1 AAGAAAAA
31989633 TTTAAAAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
8 8 0.10
9 7 0.09
10 17 0.22
11 24 0.31
12 10 0.13
13 5 0.06
14 7 0.09
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (11 bp):
AAGAAAAAAGG
Found at i:31989631 original size:7 final size:7
Alignment explanation
Indices: 31989541--31989632 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
31989531 AAGAAAAGGG
31989541 AAAGAAA
1 AAAGAAA
31989548 AGAAGAAA
1 A-AAGAAA
*
31989556 GAAGAAA
1 AAAGAAA
31989563 AAAGAAA
1 AAAGAAA
31989570 AAAGGAAA
1 AAA-GAAA
31989578 AAAGAAGA
1 AAAGAA-A
*
31989586 AAA-AAG
1 AAAGAAA
* *
31989592 GAAGGAA
1 AAAGAAA
31989599 AAAG---
1 AAAGAAA
*
31989603 AAAGAAT
1 AAAGAAA
31989610 AAAGAAA
1 AAAGAAA
* *
31989617 GAATAAA
1 AAAGAAA
31989624 AAAGAAA
1 AAAGAAA
31989631 AA
1 AA
31989633 TTTAAAAATA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
4 4 0.06
6 2 0.03
7 43 0.65
8 17 0.26
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:32001706 original size:76 final size:74
Alignment explanation
Indices: 32001603--32002149 Score: 625
Period size: 75 Copynumber: 7.3 Consensus size: 74
32001593 TTATTTCTTT
* * **
32001603 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTGCA
1 TTTTCAATTTCTTTTTTTC-AAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
32001668 CGCTGAGGTA
65 CGCTGAGGTA
* * *
32001678 TTTTCACTTTCTATTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGAGTCAC
1 TTTTCAATTTCT-TTTTTTCAAA-ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
32001743 ACGCCGAGGTA
64 ACGCTGAGGTA
* * **
32001754 TTTTTCAATTTCTGTTTTTCAAAAATCAACTGATAATCCGAGAGGTGAGTTGAGCCTTAGGTCAC
1 -TTTTCAATTTCTTTTTTTC-AAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
32001819 ACG-TCGAGGTA
64 ACGCT-GAGGTA
* * *
32001830 TTTTTCAATCTCTATTTTTT-TAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGC
1 -TTTTCAATTTCT-TTTTTTCAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
**
32001894 ACATTGAGGTA
64 ACGCTGAGGTA
* * * * *
32001905 TTTTTAA-TT-TTTTTTTCAAAATCAACTCATAATCCGAGAAGTGAGCTGAGCCTCAGGTCATAC
1 TTTTCAATTTCTTTTTTTCAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
*
32001968 ACTGAGGTA
66 GCTGAGGTA
* * * * * *
32001977 TTTTCAATTTCTATTTTTAAAATATCAACTGATAATCCGAGAGGTGAGTTGAGCCTTGGATCTCA
1 TTTTCAATTTCTTTTTTTCAAA-ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
32002042 CGCTGGGGTA
65 CGCTGAGGTA
* * * * *
32002052 TTTTCAATTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCAGATCACG
1 TTTTCAATTTCTTTTTTTCAAA-ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
32002117 CGCCGAGCTA
65 CGCTGAGGTA
* *
32002127 TTTTCGATTTCTATTTTTCAAAA
1 TTTTCAATTTCTTTTTTTCAAAA
32002150 AAATAAATAT
Statistics
Matches: 401, Mismatches: 60, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
71 6 0.01
72 55 0.14
73 3 0.01
74 16 0.04
75 185 0.46
76 117 0.29
77 19 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTTTTTTTCAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
GCTGAGGTA
Found at i:32001975 original size:147 final size:149
Alignment explanation
Indices: 32001602--32002144 Score: 684
Period size: 147 Copynumber: 3.6 Consensus size: 149
32001592 ATTATTTCTT
* *
32001602 TTTTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTGC
1 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGG-T-C
* * *
32001667 ACGCTGAGGTATTTTCACTTTCTATTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTGAG
64 ACACTGAGGTATTTTCAATTTCTATTTTTT-AAAGATCAACTCATAATCCGAGAGGTGAGTTGAG
* *
32001732 CCTCGAGTCACACGCCGAGGTA
128 CCTCGGGTCACACGCTGAGGTA
* *
32001754 TTTTTCAATTTCTGTTTTTCAAAAATCAACTGATAATCCGAGAGGTGAGTTGAGCCTTAGGTCAC
1 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCAC
* *
32001819 ACGTCGAGGTATTTTTCAATCTCTATTTTTTTAA-ATCAACTCATAATCCGAGAGGTGAGTTGAG
66 AC-T-GAGGTA-TTTTCAATTTCTATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAG
* **
32001883 CCTCGGGTCGCACATTGAGGTA
128 CCTCGGGTCACACGCTGAGGTA
* *
32001905 TTTTT-AATTT-T-TTTTTC-AAAATCAACTCATAATCCGAGAAGTGAGCTGAGCCTCAGGTCAT
1 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTC--
* * *
32001966 ACACTGAGGTATTTTCAATTTCTATTTTTAAAATATCAACTGATAATCCGAGAGGTGAGTTGAGC
64 ACACTGAGGTATTTTCAATTTCTATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGC
* * * *
32002031 CTTGGATCTCACGCTGGGGTA
129 CTCGGGTCACACGCTGAGGTA
* * *
32002052 -TTTTCAATTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCA-
* * * *
32002116 GCGCCGAGCTATTTTCGATTTCTATTTTT
65 -CACTGAGGTATTTTCAATTTCTATTTTT
32002145 CAAAAAAATA
Statistics
Matches: 342, Mismatches: 37, Indels: 26
0.84 0.09 0.06
Matches are distributed among these distances:
146 23 0.07
147 94 0.27
148 9 0.03
149 11 0.03
150 70 0.20
151 53 0.15
152 65 0.19
153 17 0.05
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (149 bp):
TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCAC
ACTGAGGTATTTTCAATTTCTATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
CGGGTCACACGCTGAGGTA
Found at i:32002406 original size:16 final size:15
Alignment explanation
Indices: 32002385--32002415 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
32002375 TTTATTTTAT
32002385 TAATTTTAAATAATAA
1 TAATTTTAAA-AATAA
32002401 TAATTTTAAAAATAA
1 TAATTTTAAAAATAA
32002416 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTTTAAAAATAA
Found at i:32002472 original size:28 final size:29
Alignment explanation
Indices: 32002422--32002557 Score: 149
Period size: 28 Copynumber: 4.8 Consensus size: 29
32002412 ATAAAAAATA
* *
32002422 AAAAATACATTTTGACCCT-AACTTT-TT
1 AAAATTACACTTTGACCCTAAACTTTCTT
32002449 AAAATTACA-TTTGACCACTAAACTTT-TCT
1 AAAATTACACTTTGACC-CTAAACTTTCT-T
*
32002478 AAAATTACACTTTGACCCCTAAACTTTCCT
1 AAAATTACACTTTGA-CCCTAAACTTTCTT
* *
32002508 AAAATTACA-TTTAACCCTAAATTTTCTT
1 AAAATTACACTTTGACCCTAAACTTTCTT
32002536 AAAATTACACTTT-AGCCCTAAA
1 AAAATTACACTTTGA-CCCTAAA
32002558 ATTTTTGTAA
Statistics
Matches: 96, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
26 7 0.07
27 10 0.10
28 29 0.30
29 24 0.25
30 24 0.25
31 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTACACTTTGACCCTAAACTTTCTT
Found at i:32002494 original size:30 final size:28
Alignment explanation
Indices: 32002422--32002562 Score: 155
Period size: 30 Copynumber: 4.9 Consensus size: 28
32002412 ATAAAAAATA
*
32002422 AAAAATACATTTTGACCCT-AACTTTT-T
1 AAAATTACA-TTTGACCCTAAACTTTTCT
32002449 AAAATTACATTTGACCACTAAACTTTTCT
1 AAAATTACATTTGACC-CTAAACTTTTCT
*
32002478 AAAATTACACTTTGACCCCTAAACTTTCCT
1 AAAATTACA-TTTGA-CCCTAAACTTTTCT
*
32002508 AAAATTACATTTAACCCTAAA-TTTTCTT
1 AAAATTACATTTGACCCTAAACTTTTC-T
*
32002536 AAAATTACACTTT-AGCCCTAAAATTTT
1 AAAATTACA-TTTGA-CCCTAAACTTTT
32002563 TGTAACCTTT
Statistics
Matches: 101, Mismatches: 4, Indels: 15
0.84 0.03 0.12
Matches are distributed among these distances:
26 7 0.07
27 14 0.14
28 25 0.25
29 24 0.24
30 29 0.29
31 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAATTACATTTGACCCTAAACTTTTCT
Found at i:32002505 original size:29 final size:28
Alignment explanation
Indices: 32002422--32002557 Score: 136
Period size: 29 Copynumber: 4.8 Consensus size: 28
32002412 ATAAAAAATA
* *
32002422 AAAAATACATTTTGA-CCCT-AACTTTTT
1 AAAATTACA-TTTGACCCCTAAACTTTCT
*
32002449 AAAATTACATTTGACCACTAAACTTTTCT
1 AAAATTACATTTGACCCCTAAAC-TTTCT
32002478 AAAATTACACTTTGACCCCTAAACTTTCCT
1 AAAATTACA-TTTGACCCCTAAACTTT-CT
* *
32002508 AAAATTACATTT-AACCCTAAATTTTCTT
1 AAAATTACATTTGACCCCTAAACTTTC-T
*
32002536 AAAATTACACTTT-AGCCCTAAA
1 AAAATTACA-TTTGACCCCTAAA
32002558 ATTTTTGTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.05
27 12 0.13
28 24 0.25
29 30 0.32
30 24 0.25
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTACATTTGACCCCTAAACTTTCT
Found at i:32002539 original size:58 final size:57
Alignment explanation
Indices: 32002422--32002557 Score: 172
Period size: 58 Copynumber: 2.4 Consensus size: 57
32002412 ATAAAAAATA
* * * *
32002422 AAAAATACATTTTGACCCT-AACTTTTTAAAATTACATTTGACCACTAAACTTTTCT
1 AAAATTACACTTTGACCCTAAACTTTCTAAAATTACATTTAACCACTAAACTTTTCT
32002478 AAAATTACACTTTGACCCCTAAACTTTCCTAAAATTACATTTAACC-CTAAA-TTTTCTT
1 AAAATTACACTTTGA-CCCTAAACTTT-CTAAAATTACATTTAACCACTAAACTTTTC-T
32002536 AAAATTACACTTT-AGCCCTAAA
1 AAAATTACACTTTGA-CCCTAAA
32002558 ATTTTTGTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
56 13 0.18
57 17 0.24
58 25 0.35
59 16 0.23
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (57 bp):
AAAATTACACTTTGACCCTAAACTTTCTAAAATTACATTTAACCACTAAACTTTTCT
Found at i:32003089 original size:11 final size:10
Alignment explanation
Indices: 32003064--32003126 Score: 81
Period size: 11 Copynumber: 6.0 Consensus size: 10
32003054 GAAGAAGGAG
*
32003064 GAAAAAATAA
1 GAAAAAAAAA
*
32003074 GAAAAAATAA
1 GAAAAAAAAA
32003084 GAAAAAAGAAA
1 GAAAAAA-AAA
32003095 GAAAAAAGAAA
1 GAAAAAA-AAA
32003106 GAAAGAAAAAA
1 GAAA-AAAAAA
32003117 GAAAAAAAAA
1 GAAAAAAAAA
32003127 TATATAAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
10 23 0.46
11 24 0.48
12 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:32003094 original size:7 final size:7
Alignment explanation
Indices: 32003067--32003123 Score: 62
Period size: 7 Copynumber: 7.9 Consensus size: 7
32003057 GAAGGAGGAA
32003067 AAAATAAG
1 AAAA-AAG
*
32003075 AAAAAAT
1 AAAAAAG
32003082 AAGAAAA-
1 AA-AAAAG
*
32003089 AAGAAAG
1 AAAAAAG
32003096 AAAAAAG
1 AAAAAAG
32003103 AAAGAAAG
1 AAA-AAAG
32003111 AAAAAAG
1 AAAAAAG
32003118 AAAAAA
1 AAAAAA
32003124 AAATATATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
6 3 0.07
7 25 0.58
8 15 0.35
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:32003097 original size:4 final size:4
Alignment explanation
Indices: 32003082--32003120 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
32003072 AAGAAAAAAT
32003082 AAGA AA-A AAGA AAGA AA-A AAGA AAGA AAGA AA-A AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
32003121 AAAAAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 9 0.28
4 23 0.72
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:32018432 original size:17 final size:17
Alignment explanation
Indices: 32018410--32018446 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
32018400 TCCTGGCTTG
32018410 CTTACCTAGCTAGCATA
1 CTTACCTAGCTAGCATA
*
32018427 CTTACCTAGCTGGCATA
1 CTTACCTAGCTAGCATA
32018444 CTT
1 CTT
32018447 CACAAACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (17 bp):
CTTACCTAGCTAGCATA
Found at i:32033001 original size:19 final size:20
Alignment explanation
Indices: 32032964--32033001 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32032954 CTTTCTTTTG
32032964 TCTTTTATTTACTTAAATTT
1 TCTTTTATTTACTTAAATTT
32032984 TCTTTTATTTAC-TAAATT
1 TCTTTTATTTACTTAAATT
32033002 ACTACTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTTTATTTACTTAAATTT
Found at i:32033892 original size:24 final size:24
Alignment explanation
Indices: 32033865--32033924 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
32033855 AATAATCAAG
*
32033865 AATTATTTTGACTTTTTTCTTGAA
1 AATTACTTTGACTTTTTTCTTGAA
*
32033889 AATTAGC-TTGAC-TTTTTCTTGAG
1 AATTA-CTTTGACTTTTTTCTTGAA
32033912 AATTACTTTGACT
1 AATTACTTTGACT
32033925 AAATCTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 20 0.65
24 10 0.32
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.52
Consensus pattern (24 bp):
AATTACTTTGACTTTTTTCTTGAA
Found at i:32035358 original size:40 final size:39
Alignment explanation
Indices: 32035298--32035556 Score: 293
Period size: 40 Copynumber: 6.5 Consensus size: 39
32035288 GTAGATGCAG
* * *
32035298 AACAAGGGCACGCATGTGCATTCAGTGGTACCGAAGTACA
1 AACAGGGGCACGTATGTGCATTCAG-GGTACCAAAGTACA
* * *
32035338 AATAGGGGCACGCATGTGCATTCAGGGATACCAAAGTATA
1 AACAGGGGCACGTATGTGCATTCAGGG-TACCAAAGTACA
* * * *
32035378 AACAAGGGCATGTATGTGCATTCAGGGGTACCGACGTACA
1 AACAGGGGCACGTATGTGCATTCA-GGGTACCAAAGTACA
*
32035418 AACAGGGGCACGTATGTGCATTCAGGGTTACCAAAGTAAA
1 AACAGGGGCACGTATGTGCATTCAGGG-TACCAAAGTACA
* *
32035458 AACAGGGGCACATATGTGCATTCAGGTGTACTAAAGTACA
1 AACAGGGGCACGTATGTGCATTCAGG-GTACCAAAGTACA
* **
32035498 AACAGGGGCACGTATGTACATTCAGGGGTACCGGAGTACA
1 AACAGGGGCACGTATGTGCATTCA-GGGTACCAAAGTACA
* * *
32035538 AAAAGGGGAACATATGTGC
1 AACAGGGGCACGTATGTGC
32035557 TTTTAGGGGA
Statistics
Matches: 186, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
39 5 0.03
40 175 0.94
41 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.19
Consensus pattern (39 bp):
AACAGGGGCACGTATGTGCATTCAGGGTACCAAAGTACA
Found at i:32035435 original size:80 final size:80
Alignment explanation
Indices: 32035298--32035529 Score: 329
Period size: 80 Copynumber: 2.9 Consensus size: 80
32035288 GTAGATGCAG
* * * *
32035298 AACAAGGGCACGCATGTGCATTCAGTGGTACCGAAGTACAAATAGGGGCACGCATGTGCATTCAG
1 AACAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAG
*
32035363 GGATACCAAAGTATA
66 GGATACCAAAGTAAA
* *
32035378 AACAAGGGCATGTATGTGCATTCAGGGGTACCGACGTACAAACAGGGGCACGTATGTGCATTCAG
1 AACAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAG
*
32035443 GGTTACCAAAGTAAA
66 GGATACCAAAGTAAA
* * * ** *
32035458 AACAGGGGCACATATGTGCATTCAGGTGTACTAAAGTACAAACAGGGGCACGTATGTACATTCAG
1 AACAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAG
*
32035523 GGGTACC
66 GGATACC
32035530 GGAGTACAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 135 1.00
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (80 bp):
AACAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAG
GGATACCAAAGTAAA
Found at i:32035520 original size:120 final size:120
Alignment explanation
Indices: 32035298--32035556 Score: 335
Period size: 120 Copynumber: 2.2 Consensus size: 120
32035288 GTAGATGCAG
* * * * * *
32035298 AACAAGGGCACGCATGTGCATTCAGTGGTACCGAAGTACAAATAGGGGCACGCATGTGCATTCAG
1 AACAGGGGCACGTATGTGCATTCAGTGGTACCAAAGTAAAAACAGGGGCACACATGTGCATTCAG
* * *
32035363 GGATACCAAAGTATAAACAAGGGCATGTATGTGCATTCAGGGGTACC-GACGTACA
66 GGATACCAAAGTACAAACAAGGGCACGTATGTACATTCAGGGGTACCGGA-GTACA
*
32035418 AACAGGGGCACGTATGTGCATTCAG-GGTTACCAAAGTAAAAACAGGGGCACATATGTGCATTCA
1 AACAGGGGCACGTATGTGCATTCAGTGG-TACCAAAGTAAAAACAGGGGCACACATGTGCATTCA
* *
32035482 GGTG-TACTAAAGTACAAACAGGGGCACGTATGTACATTCAGGGGTACCGGAGTACA
65 GG-GATACCAAAGTACAAACAAGGGCACGTATGTACATTCAGGGGTACCGGAGTACA
* * *
32035538 AAAAGGGGAACATATGTGC
1 AACAGGGGCACGTATGTGC
32035557 TTTTAGGGGA
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
119 2 0.02
120 116 0.96
121 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.19
Consensus pattern (120 bp):
AACAGGGGCACGTATGTGCATTCAGTGGTACCAAAGTAAAAACAGGGGCACACATGTGCATTCAG
GGATACCAAAGTACAAACAAGGGCACGTATGTACATTCAGGGGTACCGGAGTACA
Found at i:32035523 original size:20 final size:20
Alignment explanation
Indices: 32035383--32035525 Score: 56
Period size: 20 Copynumber: 7.2 Consensus size: 20
32035373 GTATAAACAA
* *
32035383 GGGCATGTATGTGCATTCAG
1 GGGCACGTATGTACATTCAG
* * **
32035403 GGGTACCG-ACGTACAAACAG
1 GGGCA-CGTATGTACATTCAG
*
32035423 GGGCACGTATGTGCATTCAG
1 GGGCACGTATGTACATTCAG
** ** * * **
32035443 GGTTACCAAAGTAAAAACAG
1 GGGCACGTATGTACATTCAG
* *
32035463 GGGCACATATGTGCATTCAG
1 GGGCACGTATGTACATTCAG
* * * **
32035483 GTGTAC-TAAAGTACAAACAG
1 GGGCACGT-ATGTACATTCAG
32035503 GGGCACGTATGTACATTCAG
1 GGGCACGTATGTACATTCAG
32035523 GGG
1 GGG
32035526 TACCGGAGTA
Statistics
Matches: 79, Mismatches: 40, Indels: 8
0.62 0.31 0.06
Matches are distributed among these distances:
19 3 0.04
20 74 0.94
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (20 bp):
GGGCACGTATGTACATTCAG
Found at i:32037003 original size:19 final size:20
Alignment explanation
Indices: 32036966--32037003 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32036956 CTTTCTTTTG
32036966 TCTTTTATTTACTTAAATTT
1 TCTTTTATTTACTTAAATTT
32036986 TCTTTTATTTAC-TAAATT
1 TCTTTTATTTACTTAAATT
32037004 ACTACTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTTTATTTACTTAAATTT
Found at i:32042717 original size:31 final size:33
Alignment explanation
Indices: 32042672--32042737 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
32042662 ATCCCCGAAA
*
32042672 AAAAAGTTACCAAGCCATAGACCAA-AAATAATT
1 AAAAAGTTACCAAGCCA-AAACCAATAAATAATT
*
32042705 AAAAA-TTA-CAAGCCAAAACCAATAAATATTT
1 AAAAAGTTACCAAGCCAAAACCAATAAATAATT
32042736 AA
1 AA
32042738 TAATACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 6 0.20
31 16 0.53
32 3 0.10
33 5 0.17
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.20
Consensus pattern (33 bp):
AAAAAGTTACCAAGCCAAAACCAATAAATAATT
Found at i:32043253 original size:24 final size:23
Alignment explanation
Indices: 32043226--32043276 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
32043216 CGATAACAAC
*
32043226 ATGCAAAAAATTCTGCCAGTAAAA
1 ATGCAAAAAAGT-TGCCAGTAAAA
* *
32043250 ATGCAAACAAGTTGCTAGTAAAA
1 ATGCAAAAAAGTTGCCAGTAAAA
32043273 ATGC
1 ATGC
32043277 GATAAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (23 bp):
ATGCAAAAAAGTTGCCAGTAAAA
Found at i:32043580 original size:41 final size:41
Alignment explanation
Indices: 32043530--32043614 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
32043520 TCTTTCAAAT
32043530 TACCATTGTGTTGGTATCAGTCAATATTATTCAATTTCACA
1 TACCATTGTGTTGGTATCAGTCAATATTATTCAATTTCACA
32043571 TACCATTGTGTTGGTATCAGTCAATATTATTCAATTTCACA
1 TACCATTGTGTTGGTATCAGTCAATATTATTCAATTTCACA
32043612 TAC
1 TAC
32043615 TTTACGAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (41 bp):
TACCATTGTGTTGGTATCAGTCAATATTATTCAATTTCACA
Found at i:32051867 original size:16 final size:16
Alignment explanation
Indices: 32051846--32051877 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32051836 TTCTGTCTGG
32051846 GTTATCGTGGATCGAT
1 GTTATCGTGGATCGAT
32051862 GTTATCGTGGATCGAT
1 GTTATCGTGGATCGAT
32051878 TACCCAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
GTTATCGTGGATCGAT
Found at i:32055913 original size:206 final size:207
Alignment explanation
Indices: 32055554--32055968 Score: 661
Period size: 206 Copynumber: 2.0 Consensus size: 207
32055544 ATAAGCATAG
* *
32055554 TAAAATCCTATACAAGCACCATCAAACTCACAAGTTAGTAAGTTCATACATGATACATATGAGTT
1 TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
* * * *
32055619 CAATTATATCATACGTAGATTTCATATAAACATCATTTAACTCATAAACCATTTCATAGGATCAT
66 CAATTATATAATAAGTACATTTCATATAAACATCATGTAACTCATAAACCATTTCATAGGATCAT
* * * *
32055684 GAACAATTATTCAATTGTATACATGCCTTG-CCATTAACCTTTGCTTGCCCGTTGAACCATCTAG
131 GAACAATTATTCAATTGTATACATGCCTTGACAATTAACCTTTGCGTACCCGCTGAACCATCTAG
*
32055748 GATTACATTTGA
196 GATTACATTGGA
*
32055760 TAAAATCTTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
1 TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
** *
32055825 CAATTATATAATAAGTACATTTCATATGCACATCATGTAACTCATTAACCATTTCATAGGATCAT
66 CAATTATATAATAAGTACATTTCATATAAACATCATGTAACTCATAAACCATTTCATAGGATCAT
* * *
32055890 GAACCATTATTCAATTTTATACATGCCTTGACAATTAACCTTTGCGTACCTGCTGAACCATCTAG
131 GAACAATTATTCAATTGTATACATGCCTTGACAATTAACCTTTGCGTACCCGCTGAACCATCTAG
32055955 GATTACATTGGA
196 GATTACATTGGA
32055967 TA
1 TA
32055969 CTCGGGAATG
Statistics
Matches: 190, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
206 148 0.78
207 42 0.22
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (207 bp):
TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
CAATTATATAATAAGTACATTTCATATAAACATCATGTAACTCATAAACCATTTCATAGGATCAT
GAACAATTATTCAATTGTATACATGCCTTGACAATTAACCTTTGCGTACCCGCTGAACCATCTAG
GATTACATTGGA
Found at i:32057018 original size:20 final size:20
Alignment explanation
Indices: 32056993--32057047 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
32056983 ATCTTTCTTT
32056993 TTTCTTTTATTTACTTAAAA
1 TTTCTTTTATTTACTTAAAA
32057013 TTTCTTTTATTTACTTAAAA
1 TTTCTTTTATTTACTTAAAA
32057033 TTTCTTTTATTTACT
1 TTTCTTTTATTTACT
32057048 AAATTACTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTATTTACTTAAAA
Found at i:32070663 original size:132 final size:132
Alignment explanation
Indices: 32070199--32070666 Score: 634
Period size: 132 Copynumber: 3.5 Consensus size: 132
32070189 TTCGATCTGC
* * * * *
32070199 TCCACTACTGCTTAGGGAGACAGGA-TCTACAATCTTTAACCTATTCCACTGCTGTTCAGGGAGA
1 TCCACTACTGGTCAGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGA
* * * * * *
32070263 TAGGACATACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGATAGGACTTGCAATCTTCAACC
65 TAGGGCTTACAATCTTCGACCTATTCCACTGTTGTTCAGGGAGCTAGGACTTACAATCTTCAGCC
32070328 TAT
130 TAT
* * * * * *
32070331 TCCACTGCTGGTTAGGGAGAAAGGACTTACAATCTTCAACCTATTCCACTACTGGTTAGGGAGAA
1 TCCACTACTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGAT
* * *
32070396 AGAGCTTACCATCTTCGACCTATTCCACTGTTATTCAGGGAGCTAGGACTTACAATCTTC-GACC
66 AGGGCTTACAATCTTCGACCTATTCCACTGTTGTTCAGGGAGCTAGGACTTACAATCTTCAG-CC
32070460 TAT
130 TAT
* * * ** * *
32070463 TCCACTGCTGTTCAGGGAGCTAGGACTTATGATCTTCAGCCTATTCCACTGCTGGGCAGGGAGAT
1 TCCACTACTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGAT
* *
32070528 AGGGCTTACAATCTTCGACCTATTCCATTGCTGTTCAGGGAGCTAGGACTTACAATCTTCAGCCT
66 AGGGCTTACAATCTTCGACCTATTCCACTGTTGTTCAGGGAGCTAGGACTTACAATCTTCAGCCT
32070593 AT
131 AT
*
32070595 TCCACTACTGGTCAGGGAGATAGGGCTTACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGAT
1 TCCACTACTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGAT
32070660 AGGGCTT
66 AGGGCTT
32070667 TGTGATTTCA
Statistics
Matches: 292, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
132 290 0.99
133 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
TCCACTACTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGAT
AGGGCTTACAATCTTCGACCTATTCCACTGTTGTTCAGGGAGCTAGGACTTACAATCTTCAGCCT
AT
Found at i:32070666 original size:44 final size:44
Alignment explanation
Indices: 32070212--32070662 Score: 564
Period size: 44 Copynumber: 10.2 Consensus size: 44
32070202 ACTACTGCTT
* * *
32070212 AGGGAGACAGGA-TCTACAATCTTTAACCTATTCCACTGCTGTTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
32070256 AGGGAGATAGGACATACAATCTTCCACCTATTCCACTGTTGTTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
32070300 AGGGAGATAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTT
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
32070344 AGGGAGAAAGGACTTACAATCTTCAACCTATTCCACTACTGGTT
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * * **
32070388 AGGGAGA-AAGAGCTTACCATCTTCGACCTATTCCACTGTTATTC
1 AGGGAGATAGGA-CTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
32070432 AGGGAGCTAGGACTTACAATCTTCGACCTATTCCACTGCTGTTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* ** * *
32070476 AGGGAGCTAGGACTTATGATCTTCAGCCTATTCCACTGCTGGGC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
32070520 AGGGAGATAGGGCTTACAATCTTCGACCTATTCCATTGCTGTTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
32070564 AGGGAGCTAGGACTTACAATCTTCAGCCTATTCCACTACTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
32070608 AGGGAGATAGGGCTTACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
32070652 AGGGAGATAGG
1 AGGGAGATAGG
32070663 GCTTTGTGAT
Statistics
Matches: 351, Mismatches: 53, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
43 3 0.01
44 345 0.98
45 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:32072881 original size:7 final size:7
Alignment explanation
Indices: 32072869--32072898 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
32072859 TGGCCTCTCC
32072869 TTTTTCT
1 TTTTTCT
32072876 TTTTTCT
1 TTTTTCT
32072883 TTTTT-T
1 TTTTTCT
32072889 TTTTTCT
1 TTTTTCT
32072896 TTT
1 TTT
32072899 CTTTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTCT
Found at i:32072886 original size:13 final size:13
Alignment explanation
Indices: 32072868--32072903 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
32072858 TTGGCCTCTC
32072868 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
*
32072881 CTTTTTTTTTTTT
1 CTTTTTCTTTTTT
32072894 C-TTTTCTTTT
1 CTTTTTCTTTT
32072904 CCTTTTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:32072943 original size:12 final size:13
Alignment explanation
Indices: 32072926--32072986 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
32072916 TTCTCTATTG
32072926 TTTTTATTTTGA-
1 TTTTTATTTTGAT
32072938 TTTTTA--TTGATT
1 TTTTTATTTTGA-T
*
32072950 TTTTTATTTTTAT
1 TTTTTATTTTGAT
*
32072963 TTTTTATTTTTAT
1 TTTTTATTTTGAT
32072976 TTTTTGATTTT
1 TTTTT-ATTTT
32072987 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
10 4 0.09
12 12 0.28
13 19 0.44
14 8 0.19
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTGAT
Found at i:32072959 original size:6 final size:6
Alignment explanation
Indices: 32072926--32072996 Score: 67
Period size: 6 Copynumber: 11.8 Consensus size: 6
32072916 TTCTCTATTG
* *
32072926 TTTTTA TTTTGA TTTTTA TTGATT- TTTTTA TTTTTA TTTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA -TTTTTA TTTTTA
*
32072975 TTTTT- TGATTT- TTTTTA TTTTT
1 TTTTTA T-TTTTA TTTTTA TTTTT
32072997 TATTAAATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 6 0.11
6 40 0.74
7 8 0.15
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:32072990 original size:30 final size:30
Alignment explanation
Indices: 32072926--32073000 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
32072916 TTCTCTATTG
*
32072926 TTTTTA-TTTTGATTTTTATTGATTTTTTTA
1 TTTTTATTTTTTATTTTTATT-ATTTTTTTA
32072956 TTTTTATTTTTTATTTTTATT-TTTTGATTT-
1 TTTTTATTTTTTATTTTTATTATTTT--TTTA
32072986 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
32073001 AAATCTGAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
29 4 0.10
30 21 0.51
31 16 0.39
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (30 bp):
TTTTTATTTTTTATTTTTATTATTTTTTTA
Found at i:32072995 original size:7 final size:7
Alignment explanation
Indices: 32072949--32073000 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
32072939 TTTTATTGAT
32072949 TTTTTTA
1 TTTTTTA
32072956 -TTTTTA
1 TTTTTTA
32072962 TTTTTTA
1 TTTTTTA
32072969 -TTTTTA
1 TTTTTTA
32072975 TTTTTTGA
1 TTTTTT-A
32072983 TTTTTTTTA
1 --TTTTTTA
32072992 TTTTTTA
1 TTTTTTA
32072999 TT
1 TT
32073001 AAATCTGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 12 0.30
7 20 0.50
8 1 0.03
9 1 0.03
10 6 0.15
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:32073000 original size:37 final size:37
Alignment explanation
Indices: 32072926--32072996 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 37
32072916 TTCTCTATTG
32072926 TTTTTATTTTGATTTTTATTGATTTTTTTATTTTTAT
1 TTTTTATTTTGATTTTTATTGATTTTTTTATTTTTAT
*
32072963 TTTTTATTTTTA-TTTT-TTGATTTTTTTTATTTTT
1 TTTTTATTTTGATTTTTATTGA-TTTTTTTATTTTT
32072997 TATTAAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 4 0.12
36 17 0.53
37 11 0.34
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (37 bp):
TTTTTATTTTGATTTTTATTGATTTTTTTATTTTTAT
Done.