Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 331 of 356
Found at i:106504392 original size:47 final size:47
Alignment explanation
Indices: 106504323--106504475 Score: 191
Period size: 47 Copynumber: 3.2 Consensus size: 47
106504313 TTCGGAGAAA
* *
106504323 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* *
106504370 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* * ** * *
106504417 TGTGATATGTGAT-CCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
106504463 TATGTGATATGTG
1 --TGTGATATGTG
106504476 ACTATGTGCA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 26 0.28
47 55 0.60
48 11 0.12
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:106508571 original size:23 final size:23
Alignment explanation
Indices: 106508512--106508571 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
106508502 TGATAAATAC
* * *
106508512 TAAATTTAAATTTATTATTAAGA
1 TAAATATAAATTAAATATTAAGA
* *
106508535 TAAATATGATTTAAATATTAAGA
1 TAAATATAAATTAAATATTAAGA
*
106508558 TAACTATAAATTAA
1 TAAATATAAATTAA
106508572 TTAATTAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (23 bp):
TAAATATAAATTAAATATTAAGA
Found at i:106510111 original size:21 final size:20
Alignment explanation
Indices: 106510085--106510124 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
106510075 TAATTATTAC
106510085 TTTTTGTTGTTGTTTTCACTG
1 TTTTTGTTGTT-TTTTCACTG
106510106 TTTTTGTTGTTTTTTCACT
1 TTTTTGTTGTTTTTTCACT
106510125 ACTTTGGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.05, C:0.10, G:0.15, T:0.70
Consensus pattern (20 bp):
TTTTTGTTGTTTTTTCACTG
Found at i:106516580 original size:9 final size:11
Alignment explanation
Indices: 106516553--106516579 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
106516543 CATAGACATT
106516553 TATATATTAAA
1 TATATATTAAA
106516564 TATATATTAAA
1 TATATATTAAA
106516575 TATAT
1 TATAT
106516580 TTTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATATATTAAA
Found at i:106524361 original size:19 final size:19
Alignment explanation
Indices: 106524325--106524363 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
106524315 TTTTAAATAG
***
106524325 ATACACATGTATTGATAAT
1 ATACACATGTACAAATAAT
106524344 ATACACATGTACAAATAAT
1 ATACACATGTACAAATAAT
106524363 A
1 A
106524364 AATAAGTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.31
Consensus pattern (19 bp):
ATACACATGTACAAATAAT
Found at i:106525729 original size:15 final size:15
Alignment explanation
Indices: 106525706--106525753 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
106525696 TATCAAATTT
106525706 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* *
106525721 ATTTTGATT-AAATTT
1 ATATTGATTGAAA-TC
106525736 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
106525750 ATAT
1 ATAT
106525754 ATTATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.25
15 18 0.64
16 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:106525963 original size:18 final size:19
Alignment explanation
Indices: 106525942--106525982 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
106525932 AATGAAATGA
106525942 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
106525960 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
106525979 GAAA
1 GAAA
106525983 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:106527720 original size:26 final size:26
Alignment explanation
Indices: 106527684--106527791 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
106527674 TGAAATTCCA
106527684 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106527710 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
106527736 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
106527762 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
106527788 ATCA
1 ATCA
106527792 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106533518 original size:26 final size:26
Alignment explanation
Indices: 106533482--106533563 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
106533472 TGAAATTCCA
106533482 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
106533508 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
106533534 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
106533560 ATCA
1 ATCA
106533564 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106544859 original size:21 final size:21
Alignment explanation
Indices: 106544833--106544872 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
106544823 AATTTTATAT
106544833 TTTTATGATATAAAA-AAAATA
1 TTTTAT-ATATAAAATAAAATA
*
106544854 TTTTATATTTAAAATAAAA
1 TTTTATATATAAAATAAAA
106544873 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTTATATATAAAATAAAATA
Found at i:106544864 original size:27 final size:26
Alignment explanation
Indices: 106544824--106544877 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 26
106544814 TATATAATTA
*
106544824 ATTTTATATTTTTATGATATAAAAAAAAT
1 ATTTTATA-TTTTA--AAATAAAAAAAAT
106544853 ATTTTATA-TTTAAAATAAAAAAAAT
1 ATTTTATATTTTAAAATAAAAAAAAT
106544878 TTAAAAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 12 0.50
27 4 0.17
29 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTTTATATTTTAAAATAAAAAAAAT
Found at i:106556569 original size:21 final size:21
Alignment explanation
Indices: 106556544--106556584 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
106556534 CACTAAAATT
106556544 TATTAAGTCTATTTATAAAAC
1 TATTAAGTCTATTTATAAAAC
106556565 TATTAAGTCTATTTATAAAA
1 TATTAAGTCTATTTATAAAA
106556585 TAGTCTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
TATTAAGTCTATTTATAAAAC
Found at i:106562938 original size:23 final size:23
Alignment explanation
Indices: 106562868--106562931 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 23
106562858 GACAGAACAG
* *
106562868 TTTAAAATAAATATTATATAAAACT
1 TTTAAAATAAA-ATAATATGAAA-T
*
106562893 ATTTAAGATAAAATAATATGAAAT
1 -TTTAAAATAAAATAATATGAAAT
106562917 TTTAAAATAATAATA
1 TTTAAAATAA-AATA
106562932 TGTGAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 9 0.27
24 5 0.15
25 9 0.27
26 10 0.30
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (23 bp):
TTTAAAATAAAATAATATGAAAT
Found at i:106563195 original size:3 final size:3
Alignment explanation
Indices: 106563187--106563220 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
106563177 ATTTAAAAAG
106563187 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
106563221 ATATTGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:106568511 original size:21 final size:22
Alignment explanation
Indices: 106568482--106568528 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
106568472 CAGAAGGAGT
*
106568482 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
106568504 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
106568525 GAGT
1 GAGT
106568529 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:106570163 original size:21 final size:22
Alignment explanation
Indices: 106570134--106570180 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
106570124 CAGAAGGAGT
*
106570134 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
106570156 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
106570177 GAGT
1 GAGT
106570181 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:106577916 original size:8 final size:8
Alignment explanation
Indices: 106577905--106577956 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
106577895 AAAATTCAAA
106577905 AAAAATAT
1 AAAAATAT
106577913 AAAAATCATT
1 AAAAAT-A-T
106577923 AAAAATAT
1 AAAAATAT
**
106577931 AAAGTTATT
1 AAAAATA-T
106577940 AAACAATAT
1 AAA-AATAT
106577949 AAAAATAT
1 AAAAATAT
106577957 TTAATAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 17 0.47
9 10 0.28
10 9 0.25
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (8 bp):
AAAAATAT
Found at i:106577957 original size:18 final size:17
Alignment explanation
Indices: 106577905--106577957 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
106577895 AAAATTCAAA
106577905 AAAAATATAAAAATCATT
1 AAAAATATAAAAAT-ATT
**
106577923 AAAAATATAAAGTTATT
1 AAAAATATAAAAATATT
106577940 AAACAATATAAAAATATT
1 AAA-AATATAAAAATATT
106577958 TAATAATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATATAAAAATATT
Found at i:106578526 original size:64 final size:65
Alignment explanation
Indices: 106578404--106578527 Score: 153
Period size: 64 Copynumber: 1.9 Consensus size: 65
106578394 TATTGGTCTA
* * * *
106578404 TTAATAAATTTAACTCTTCAATGTTTACACATTCTATGAATTTAATCTTAAATCTAAAAAAAAAT
1 TTAATAAATCTAACTCTTCAATGTTTACACATTCTATCAATTTAATCCTAAATATAAAAAAAAAT
* * * *
106578469 TTAATAAATCTATCTC-TCAATGTTTACAAGATT-TGTCAATTTAATCCTAATTATAAAAA
1 TTAATAAATCTAACTCTTCAATGTTTAC-ACATTCTATCAATTTAATCCTAAATATAAAAA
106578528 TATTTTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
64 32 0.64
65 18 0.36
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (65 bp):
TTAATAAATCTAACTCTTCAATGTTTACACATTCTATCAATTTAATCCTAAATATAAAAAAAAAT
Found at i:106596819 original size:27 final size:27
Alignment explanation
Indices: 106596752--106596906 Score: 118
Period size: 27 Copynumber: 6.1 Consensus size: 27
106596742 TTTCCAACTA
* * *
106596752 GTAATGGACAAAATTGGAATGGCAATGATG
1 GTAATGGTCAAAATTGGCA-GGC--TAATG
*
106596782 GTAATGTTCAAAATTGGCAGGCTAATG
1 GTAATGGTCAAAATTGGCAGGCTAATG
* *
106596809 GTACTGGTCAAAGTT----GG--AATG
1 GTAATGGTCAAAATTGGCAGGCTAATG
* *
106596830 GTACTGGTCAAAATTGGCAGGCTAATT
1 GTAATGGTCAAAATTGGCAGGCTAATG
*
106596857 TTAATGGTCAAAATT----GG--AATG
1 GTAATGGTCAAAATTGGCAGGCTAATG
106596878 GTAATGGTCAAAATTGGCAGGCTAATG
1 GTAATGGTCAAAATTGGCAGGCTAATG
106596905 GT
1 GT
106596907 CCAAATTGGA
Statistics
Matches: 100, Mismatches: 13, Indels: 27
0.71 0.09 0.19
Matches are distributed among these distances:
21 35 0.35
23 4 0.04
25 4 0.04
27 38 0.38
29 3 0.03
30 16 0.16
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (27 bp):
GTAATGGTCAAAATTGGCAGGCTAATG
Found at i:106596831 original size:21 final size:21
Alignment explanation
Indices: 106596805--106596936 Score: 131
Period size: 21 Copynumber: 6.0 Consensus size: 21
106596795 TTGGCAGGCT
* *
106596805 AATGGTACTGGTCAAAGTTGG
1 AATGGTAATGGTCAAAATTGG
*
106596826 AATGGTACTGGTCAAAATTGGCAGG
1 AATGGTAATGGTCAAAATT----GG
**
106596851 CTAATTTTAATGGTCAAAATTGG
1 --AATGGTAATGGTCAAAATTGG
106596874 AATGGTAATGGTCAAAATTGG
1 AATGGTAATGGTCAAAATTGG
* *
106596895 CA-GGCTAATGGTCCAAATTGG
1 AATGG-TAATGGTCAAAATTGG
106596916 AATGGTAATGGTCAAAATTGG
1 AATGGTAATGGTCAAAATTGG
106596937 GGTGTCTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
20 2 0.02
21 69 0.74
22 2 0.02
23 2 0.02
25 2 0.02
27 16 0.17
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (21 bp):
AATGGTAATGGTCAAAATTGG
Found at i:106596841 original size:48 final size:47
Alignment explanation
Indices: 106596779--106596936 Score: 218
Period size: 48 Copynumber: 3.4 Consensus size: 47
106596769 AATGGCAATG
*
106596779 ATGGTAATGTTCAAAATTGGCAGGCTAATGGTACTGGTCAAAGTTGGA
1 ATGGTAATGGTCAAAATTGGCAGGCTAATGGTACTGGTCAAA-TTGGA
* ** *
106596827 ATGGTACTGGTCAAAATTGGCAGGCTAATTTTAATGGTCAAAATTGGA
1 ATGGTAATGGTCAAAATTGGCAGGCTAATGGTACTGGTC-AAATTGGA
106596875 ATGGTAATGGTCAAAATTGGCAGGCTAATGGT-C----CAAATTGGA
1 ATGGTAATGGTCAAAATTGGCAGGCTAATGGTACTGGTCAAATTGGA
106596917 ATGGTAATGGTCAAAATTGG
1 ATGGTAATGGTCAAAATTGG
106596937 GGTGTCTTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
42 28 0.28
43 1 0.01
48 68 0.68
49 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (47 bp):
ATGGTAATGGTCAAAATTGGCAGGCTAATGGTACTGGTCAAATTGGA
Found at i:106601111 original size:3 final size:3
Alignment explanation
Indices: 106601103--106601138 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
106601093 TCATTGTGTT
*
106601103 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
106601139 CAAAGCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:106602887 original size:12 final size:12
Alignment explanation
Indices: 106602870--106602902 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
106602860 CGGGCCACCC
106602870 ATATTAATTTTT
1 ATATTAATTTTT
106602882 ATATT-ATTTTT
1 ATATTAATTTTT
106602893 ATA-TAATTTT
1 ATATTAATTTT
106602903 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:106602959 original size:24 final size:23
Alignment explanation
Indices: 106602938--106602982 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
106602928 ACTAAAAACA
106602938 TCAAAATAATATTTTTCAAAAAAT
1 TCAAAATAA-ATTTTTCAAAAAAT
*
106602962 TGAAAATAAA-TTTT-AAAAAAT
1 TCAAAATAAATTTTTCAAAAAAT
106602983 AGATATACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 1 0.05
24 8 0.40
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
TCAAAATAAATTTTTCAAAAAAT
Found at i:106602979 original size:21 final size:24
Alignment explanation
Indices: 106602940--106602982 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
106602930 TAAAAACATC
106602940 AAAATAATATTTTTCAAAAAATTG
1 AAAATAATATTTTTCAAAAAATTG
106602964 AAAATAA-A-TTTT-AAAAAAT
1 AAAATAATATTTTTCAAAAAAT
106602983 AGATATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 1 0.05
24 7 0.37
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAATAATATTTTTCAAAAAATTG
Found at i:106603061 original size:30 final size:30
Alignment explanation
Indices: 106603025--106603088 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
106603015 ACTTAACAAG
106603025 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
106603055 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
106603085 CAAA
1 CAAA
106603089 AAAATAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:106603470 original size:21 final size:20
Alignment explanation
Indices: 106603440--106603479 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
106603430 TTTTTTATTT
*
106603440 ACTTTTTTTAAAAATTTTTTG
1 ACTTTATTT-AAAATTTTTTG
*
106603461 ACTTTATTTAATATTTTTT
1 ACTTTATTTAAAATTTTTT
106603480 ACAAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (20 bp):
ACTTTATTTAAAATTTTTTG
Found at i:106603494 original size:22 final size:24
Alignment explanation
Indices: 106603469--106603524 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 24
106603459 TGACTTTATT
106603469 TAATATTTTTTACAAATTT-T-AA
1 TAATATTTTTTACAAATTTATAAA
106603491 TAAT-TTTTTTACAAATTTATAAA
1 TAATATTTTTTACAAATTTATAAA
*
106603514 AAATATTTTTT
1 TAATATTTTTT
106603525 TTTATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 14 0.47
22 5 0.17
23 5 0.17
24 6 0.20
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TAATATTTTTTACAAATTTATAAA
Found at i:106604201 original size:56 final size:56
Alignment explanation
Indices: 106604041--106604203 Score: 290
Period size: 56 Copynumber: 2.9 Consensus size: 56
106604031 TTGAGAATTT
*
106604041 ATGGGTTAGTAATGGTTGATGCAGCAAACTCTTTTCATAAATTAATAAGAATTCTC
1 ATGGGTTAGTAATGGTTGATGCAGCAAACTCTTTTCATAAATTAATAAAAATTCTC
* *
106604097 ATGGGTTAGTAATGGTTAATGCAACAAACTCTTTTCATAAATTAATAAAAATTCTC
1 ATGGGTTAGTAATGGTTGATGCAGCAAACTCTTTTCATAAATTAATAAAAATTCTC
*
106604153 ATGGGTTAGTAATGGTTGATGCAGCCAACTCTTTTCATAAATTAATAAAAA
1 ATGGGTTAGTAATGGTTGATGCAGCAAACTCTTTTCATAAATTAATAAAAA
106604204 AGTAAACTAC
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (56 bp):
ATGGGTTAGTAATGGTTGATGCAGCAAACTCTTTTCATAAATTAATAAAAATTCTC
Found at i:106606528 original size:20 final size:21
Alignment explanation
Indices: 106606478--106606535 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
106606468 AAAAGAGAAA
106606478 GAAAAACTTGGGATTTTATAGG
1 GAAAAACTTGGG-TTTTATAGG
**
106606500 GAATTACTTGGGTTTTATA-G
1 GAAAAACTTGGGTTTTATAGG
*
106606520 GAAAAACTTGAGTTTT
1 GAAAAACTTGGGTTTT
106606536 TACAAGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.45
21 7 0.23
22 10 0.32
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (21 bp):
GAAAAACTTGGGTTTTATAGG
Found at i:106618067 original size:21 final size:20
Alignment explanation
Indices: 106618041--106618080 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
106618031 AATTGTATAT
106618041 AAAAACACATAAAAATAATAA
1 AAAAACAC-TAAAAATAATAA
* *
106618062 AAAAACTCTTAAAATAATA
1 AAAAACACTAAAAATAATA
106618081 TAATATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAACACTAAAAATAATAA
Found at i:106618428 original size:22 final size:24
Alignment explanation
Indices: 106618377--106618432 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
106618367 ATACAATCTT
*
106618377 AGATATGA-TGTGTAAATATTAGA
1 AGATATGATTTTGTAAATATTAGA
*
106618400 AGATATGATTTTG-AAATCTTAG-
1 AGATATGATTTTGTAAATATTAGA
106618422 AGATATGATTT
1 AGATATGATTT
106618433 GTAGATAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 11 0.37
23 16 0.53
24 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (24 bp):
AGATATGATTTTGTAAATATTAGA
Found at i:106620965 original size:22 final size:22
Alignment explanation
Indices: 106620937--106620981 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
106620927 TACAGAAAGC
106620937 TTATAGAGATATACAC-AAGGAA
1 TTATAGAGATATAC-CGAAGGAA
106620959 TTATAGAGATATACCGAAGGAA
1 TTATAGAGATATACCGAAGGAA
106620981 T
1 T
106620982 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (22 bp):
TTATAGAGATATACCGAAGGAA
Found at i:106623983 original size:44 final size:44
Alignment explanation
Indices: 106623930--106624054 Score: 182
Period size: 43 Copynumber: 2.9 Consensus size: 44
106623920 CCCCTACCCC
* * *
106623930 ATAATTTTTTTCTCCGAT-CAATATGGCTCACAAGTTCCCATAAA
1 ATAATTTTTTTCTCCAATGC-ACATGGCACACAAGTTCCCATAAA
* *
106623974 AT-AGTTTTTTCTCCAATGCACATGGCAGACAAGTTCCCATAAA
1 ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCCCATAAA
106624017 ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCC
1 ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCC
106624055 ACATGTTGTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 36 0.50
44 36 0.50
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (44 bp):
ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCCCATAAA
Found at i:106624229 original size:20 final size:20
Alignment explanation
Indices: 106624191--106624229 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
106624181 TTTTTACATA
* *
106624191 TTTATAATTTTAAACAATAT
1 TTTATAATTTAAAAAAATAT
*
106624211 TTTATAGTTTAAAAAAATA
1 TTTATAATTTAAAAAAATA
106624230 AATAAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTATAATTTAAAAAAATAT
Found at i:106624259 original size:19 final size:20
Alignment explanation
Indices: 106624232--106624282 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
106624222 AAAAAATAAA
*
106624232 TAAATATTTTTTTA-ATTTT
1 TAAAGATTTTTTTATATTTT
106624251 TAAAGATTTTTTTTATATTTT
1 TAAAGA-TTTTTTTATATTTT
106624272 TAAAGATTTTT
1 TAAAGATTTTT
106624283 GATAACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.17
20 13 0.45
21 11 0.38
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TAAAGATTTTTTTATATTTT
Found at i:106624264 original size:21 final size:21
Alignment explanation
Indices: 106624238--106624282 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
106624228 TAAATAAATA
106624238 TTTTTTTA-ATTTTTAAAGAT
1 TTTTTTTATATTTTTAAAGAT
106624258 TTTTTTTATATTTTTAAAGAT
1 TTTTTTTATATTTTTAAAGAT
106624279 TTTT
1 TTTT
106624283 GATAACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTTTATATTTTTAAAGAT
Found at i:106638233 original size:24 final size:24
Alignment explanation
Indices: 106638185--106638304 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
106638175 GCTTTATCAT
*
106638185 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
106638210 ATAACTGGGGCAAAAGCTCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
106638234 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
106638258 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
106638282 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
106638305 GCACTTCCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
24 74 0.87
25 11 0.13
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:106638379 original size:20 final size:20
Alignment explanation
Indices: 106638354--106638420 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
106638344 TTATGAATAC
106638354 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
106638374 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
*
106638394 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
106638414 ACCATGT
1 ATCATGT
106638421 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:106638385 original size:11 final size:11
Alignment explanation
Indices: 106638354--106638409 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
106638344 TTATGAATAC
106638354 ATCATGTGCAT
1 ATCATGTGCAT
*
106638365 ATCA--TACAT
1 ATCATGTGCAT
106638374 ATCATGTGCAT
1 ATCATGTGCAT
*
106638385 ATC--GTACAT
1 ATCATGTGCAT
*
106638394 GTCATGTGCAT
1 ATCATGTGCAT
106638405 ATCAT
1 ATCAT
106638410 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:106638489 original size:25 final size:25
Alignment explanation
Indices: 106638457--106638504 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
106638447 ATATATAAAC
* *
106638457 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
106638482 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
106638505 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:106640937 original size:19 final size:18
Alignment explanation
Indices: 106640900--106640943 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
106640890 ATACTTACAG
106640900 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
106640917 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
106640936 TACTAATT
1 TAATAATT
106640944 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:106643670 original size:26 final size:25
Alignment explanation
Indices: 106643641--106643713 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
106643631 TTTCTCAAGG
106643641 GTAAAATCATCAAAATTTTACGTGAT
1 GTAAAAT-ATCAAAATTTTACGTGAT
* * *
106643667 GTAAAATTGTTAAAATTTTACGTGGT
1 GTAAAA-TATCAAAATTTTACGTGAT
106643693 GTAAAATAGTCAAAATTTTAC
1 GTAAAATA-TCAAAATTTTAC
106643714 TAGAGTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.03
26 38 0.95
27 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (25 bp):
GTAAAATATCAAAATTTTACGTGAT
Found at i:106646438 original size:39 final size:39
Alignment explanation
Indices: 106646395--106646549 Score: 238
Period size: 39 Copynumber: 4.0 Consensus size: 39
106646385 CAGCACGTAT
*
106646395 CCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* * *
106646434 CCTGCGGACATGAAGTCCGGATATAATTCTAGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
106646473 CCTGCGGACCTGAAGTCCAGATATAATTCTCGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
106646512 CCTGCGGACCTGAAGTCTGGATATAATTCTCACATATA
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATA
106646550 TATATTCACA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (39 bp):
CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
Found at i:106653880 original size:17 final size:17
Alignment explanation
Indices: 106653858--106653895 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
106653848 ATTAGCCATT
106653858 CCAATGGCTAATCATCA
1 CCAATGGCTAATCATCA
106653875 CCAATGGCTAATCATCA
1 CCAATGGCTAATCATCA
106653892 CCAA
1 CCAA
106653896 GCATTTCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.11, T:0.21
Consensus pattern (17 bp):
CCAATGGCTAATCATCA
Found at i:106654727 original size:39 final size:39
Alignment explanation
Indices: 106654684--106654838 Score: 229
Period size: 39 Copynumber: 4.0 Consensus size: 39
106654674 CAACACGTAT
* *
106654684 CCTGCGGACCTAAAGTCTGGATATAATTCTCGCATATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* * *
106654723 CCTGCGGACATGAAGTCCGGATATAATTCTAGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
106654762 CCTGCGGACCTGAAGTCCAGATATAATTCTCGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
106654801 CCTGCGGACCTGAAGTCTGGATATAATTCTCACATATA
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATA
106654839 TATATTCACA
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 104 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (39 bp):
CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
Found at i:106657843 original size:58 final size:58
Alignment explanation
Indices: 106657761--106657885 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 58
106657751 GTCTTTGTCA
* * * *
106657761 CAATCTCTGAAAGAAAAGCCTTTGTGGTGAGTACTGAATGAAAAGGACGCAC-TTGTGG
1 CAATCTCTAAAAGAAAAGCATTTGTAGTGAGTACTGAATGAAAAGGACGC-CTTTATGG
* *
106657819 CAATCTCTAAAAGGAAAGTATTTGTAGTGAGTACTGAATGAAAAGGACGCCTTTATGG
1 CAATCTCTAAAAGAAAAGCATTTGTAGTGAGTACTGAATGAAAAGGACGCCTTTATGG
*
106657877 AAATCTCTA
1 CAATCTCTA
106657886 GATATGGAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 1 0.02
58 58 0.98
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (58 bp):
CAATCTCTAAAAGAAAAGCATTTGTAGTGAGTACTGAATGAAAAGGACGCCTTTATGG
Found at i:106660638 original size:11 final size:11
Alignment explanation
Indices: 106660622--106660646 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
106660612 TAAAAATATG
106660622 GGTTTTATACA
1 GGTTTTATACA
106660633 GGTTTTATACA
1 GGTTTTATACA
106660644 GGT
1 GGT
106660647 AAAAAATACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (11 bp):
GGTTTTATACA
Found at i:106660957 original size:10 final size:10
Alignment explanation
Indices: 106660944--106660969 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
106660934 ATTTTAAAAA
106660944 ATAAAATATT
1 ATAAAATATT
106660954 ATAAAATATT
1 ATAAAATATT
106660964 ATAAAA
1 ATAAAA
106660970 GTTATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAAATATT
Found at i:106667641 original size:41 final size:41
Alignment explanation
Indices: 106667584--106667769 Score: 282
Period size: 41 Copynumber: 4.5 Consensus size: 41
106667574 GTTATATGAC
* * *
106667584 TTTTAGCAGTGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * *
106667625 TTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * *
106667666 TTTTAGCGGCGTTTTACCAAAAGCACAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
*
106667707 TTTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
106667748 TTTTAGCGGCGTTTTACCAAAA
1 TTTTAGCGGCGTTTTACCAAAA
106667770 AATGCCGCTA
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 130 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
Found at i:106679082 original size:22 final size:22
Alignment explanation
Indices: 106679052--106679104 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
106679042 TTTAATACAA
*
106679052 AGATGATTTGCCAAAGCCTTAAG
1 AGAT-ATTTGCCAAAGCCTCAAG
106679075 AGATATTTGCCAAAGCCTCAAG
1 AGATATTTGCCAAAGCCTCAAG
106679097 AGATATTT
1 AGATATTT
106679105 CCTCTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (22 bp):
AGATATTTGCCAAAGCCTCAAG
Found at i:106688972 original size:18 final size:18
Alignment explanation
Indices: 106688928--106688972 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
106688918 TGTCGTCGAC
106688928 CACACGGCCATGTTCTCG
1 CACACGGCCATGTTCTCG
* *
106688946 CATACGGCCATGTTCTTG
1 CACACGGCCATGTTCTCG
*
106688964 CACATGGCC
1 CACACGGCC
106688973 TACCACACGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.36, G:0.22, T:0.24
Consensus pattern (18 bp):
CACACGGCCATGTTCTCG
Found at i:106691111 original size:42 final size:42
Alignment explanation
Indices: 106691052--106691153 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
106691042 ATGCCATACA
* * * * **
106691052 GCCTGGACACATGCCCATGTCCTTGCTCGTCTGGCTCACACT
1 GCCTGGGCACACGCCCATGTCCTTCCCCGTCAAGCTCACACT
* * *
106691094 GCCTTGGCACACGCCCATGTCCTTCCCCGTGAAGCTCGCACT
1 GCCTGGGCACACGCCCATGTCCTTCCCCGTCAAGCTCACACT
*
106691136 GCCTGGGCACACACCCAT
1 GCCTGGGCACACGCCCAT
106691154 ATCCCTGGCT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.22
Consensus pattern (42 bp):
GCCTGGGCACACGCCCATGTCCTTCCCCGTCAAGCTCACACT
Found at i:106691251 original size:104 final size:104
Alignment explanation
Indices: 106691101--106691334 Score: 301
Period size: 104 Copynumber: 2.2 Consensus size: 104
106691091 ACTGCCTTGG
* * * * *
106691101 CACACGCCCATGTCCTTCCCCGTG-AAGCTCGCACT-GCCTGGGCACACACCCATATCCCTGGCT
1 CACAAGCCCATGTCCTTGCCCGTGTGA-CTCACA-TGGCCTGGGCACACACCCATATCCCTGGCC
*
106691164 GTGTGGTTCTAAAACGTAAACATTGAGTTACACGGCCTAGA
64 GTGTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
* * * *
106691205 CACATGCCTATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACGCCCATGTCCCTGGCCGT
1 CACAAGCCCATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACACCCATATCCCTGGCCGT
* * * *
106691270 GTGGTTCTAAAGCGTAAACAATGAGTTATACGGGCTGGA
66 GTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
*
106691309 CACAAGCCCATGTCCTTGCTCGTGTG
1 CACAAGCCCATGTCCTTGCCCGTGTG
106691335 GCTTACACGG
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
103 1 0.01
104 110 0.98
105 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.24
Consensus pattern (104 bp):
CACAAGCCCATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACACCCATATCCCTGGCCGT
GTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
Found at i:106691360 original size:104 final size:104
Alignment explanation
Indices: 106691101--106691365 Score: 298
Period size: 104 Copynumber: 2.5 Consensus size: 104
106691091 ACTGCCTTGG
* * * * * * * * *
106691101 CACACGCCCATGTCCTTCCCCGTG-AAGCTCGCACTGCCTGGGCACACACCCATATCCCTGGCTG
1 CACAAGCCCATGTCCTTGCCCGTGTGA-CTCACACGGCCTAGGCACACGCCCATGTCCCTGGCCG
*
106691165 TGTGGTTCTAAAACGTAAACATTGAGTTACACGGCCTAGA
65 TGTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
* * * *
106691205 CACATGCCTATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACGCCCATGTCCCTGGCCGT
1 CACAAGCCCATGTCCTTGCCCGTGTGACTCACACGGCCTAGGCACACGCCCATGTCCCTGGCCGT
* * * *
106691270 GTGGTTCTAAAGCGTAAACAATGAGTTATACGGGCTGGA
66 GTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
* * * * * *
106691309 CACAAGCCCATGTCCTTGCTCGTGTGGCTTACACGGTCTAGGCATATGCCCATGTCC
1 CACAAGCCCATGTCCTTGCCCGTGTGACTCACACGGCCTAGGCACACGCCCATGTCC
106691366 TTACCTGTGT
Statistics
Matches: 135, Mismatches: 25, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
104 134 0.99
105 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.24
Consensus pattern (104 bp):
CACAAGCCCATGTCCTTGCCCGTGTGACTCACACGGCCTAGGCACACGCCCATGTCCCTGGCCGT
GTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
Found at i:106704609 original size:23 final size:23
Alignment explanation
Indices: 106704576--106704622 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
106704566 ACTCCAGATT
106704576 AACAAATTTATAAACCCAGAAAAA
1 AACAAATTTATAAACCCA-AAAAA
106704600 AACAAA-TTATAAACCCAAAAAA
1 AACAAATTTATAAACCCAAAAAA
106704622 A
1 A
106704623 TGGTTGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.26
23 11 0.48
24 6 0.26
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (23 bp):
AACAAATTTATAAACCCAAAAAA
Found at i:106717558 original size:42 final size:42
Alignment explanation
Indices: 106717499--106717600 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
106717489 ATGCCATACA
* * * * **
106717499 GCCTGGACACATGCCCATGTCCTTGCTCGTCTGGCTCACACT
1 GCCTGGGCACACGCCCATGTCCTTCCCCGTCAAGCTCACACT
* * *
106717541 GCCTTGGCACACGCCCATGTCCTTCCCCGTGAAGCTCGCACT
1 GCCTGGGCACACGCCCATGTCCTTCCCCGTCAAGCTCACACT
*
106717583 GCCTGGGCACACACCCAT
1 GCCTGGGCACACGCCCAT
106717601 ATCCCTGGCT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.22
Consensus pattern (42 bp):
GCCTGGGCACACGCCCATGTCCTTCCCCGTCAAGCTCACACT
Found at i:106717698 original size:104 final size:103
Alignment explanation
Indices: 106717553--106717780 Score: 289
Period size: 104 Copynumber: 2.2 Consensus size: 103
106717543 CTTGGCACAC
* * * *
106717553 GCCCATGTCCTTCCCCGTG-AAGCTCGCACT-GCCTGGGCACACACCCATATCCCTGGCTGTGTG
1 GCCCATGTCCTTGCCCGTGTGA-CTCACA-TGGCCTGGGCACACACCCATATCCCTGGCCGTGTG
* *
106717616 GTTCTAAAACGTAAACATTGAGTTACACGGCCTAGACACAT
64 GTTCTAAAACGTAAACAATGAGTTACACGGCCTAGACA-AA
* * *
106717657 GCCTATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACGCCCATGTCCCTGGCCGTGTGGT
1 GCCCATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACACCCATATCCCTGGCCGTGTGGT
* * * *
106717722 TCTAAAGCGTAAACAATGAGTTATACGGGCTGGACAAA
66 TCTAAAACGTAAACAATGAGTTACACGGCCTAGACAAA
*
106717760 GCCCATGTCCTTGCTCGTGTG
1 GCCCATGTCCTTGCCCGTGTG
106717781 GCTTACACGG
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
103 21 0.20
104 85 0.79
105 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.24
Consensus pattern (103 bp):
GCCCATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACACCCATATCCCTGGCCGTGTGGT
TCTAAAACGTAAACAATGAGTTACACGGCCTAGACAAA
Found at i:106717822 original size:103 final size:105
Alignment explanation
Indices: 106717548--106717823 Score: 274
Period size: 104 Copynumber: 2.7 Consensus size: 105
106717538 ACTGCCTTGG
* * * * * * * * *
106717548 CACACGCCCATGTCCTTCCCCGTG-AAGCTCGCACTGCCTGGGCACACACCCATATCCCTG-GCT
1 CACAAGCCCATGTCCTTGCCCGTGTGA-CTCACACGGCCTAGGCACACGCCCATGTCCCTGACCT
*
106717611 GTGTGGTTCTAAAACGTAAACATTGAGTTACACGGCCTAGA
65 GTGTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
* * * * *
106717652 CACATGCCTATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACGCCCATGTCCCTGGCC-G
1 CACAAGCCCATGTCCTTGCCCGTGTGACTCACACGGCCTAGGCACACGCCCATGTCCCTGACCTG
* * * *
106717716 TGTGGTTCTAAAGCGTAAACAATGAGTTATACGGGCTGGA
66 TGTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
* * * * * * *
106717756 CA-AAGCCCATGTCCTTGCTCGTGTGGCTTACACGGTCTAGGCATATGCCCATGT-CCTTACCTG
1 CACAAGCCCATGTCCTTGCCCGTGTGACTCACACGGCCTAGGCACACGCCCATGTCCCTGACCTG
106717819 TGTGG
66 TGTGG
106717824 CGTCGACAAT
Statistics
Matches: 142, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
102 5 0.04
103 48 0.34
104 87 0.61
105 2 0.01
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (105 bp):
CACAAGCCCATGTCCTTGCCCGTGTGACTCACACGGCCTAGGCACACGCCCATGTCCCTGACCTG
TGTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
Found at i:106727716 original size:6 final size:6
Alignment explanation
Indices: 106727705--106727765 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
106727695 ATACTTATAT
* * * *
106727705 ATTTAA ATTTAA A-TAAA ATTTAAA ATATTTA ATTTAA ATTTAT A-TCAA
1 ATTTAA ATTTAA ATTTAA ATTT-AA AT-TTAA ATTTAA ATTTAA ATTTAA
106727753 ATTTAA ATTTAA A
1 ATTTAA ATTTAA A
106727766 ATCTAAAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
5 7 0.16
6 27 0.63
7 7 0.16
8 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:106727727 original size:17 final size:17
Alignment explanation
Indices: 106727705--106727765 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
106727695 ATACTTATAT
106727705 ATTTAAATTTAAATAAA
1 ATTTAAATTTAAATAAA
* **
106727722 ATTTAAA---ATATTTA
1 ATTTAAATTTAAATAAA
* *
106727736 ATTTAAATTTATATCAA
1 ATTTAAATTTAAATAAA
106727753 ATTTAAATTTAAA
1 ATTTAAATTTAAA
106727766 ATCTAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 11 0.31
17 24 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTAAATTTAAATAAA
Found at i:106730745 original size:24 final size:23
Alignment explanation
Indices: 106730717--106730765 Score: 89
Period size: 24 Copynumber: 2.1 Consensus size: 23
106730707 ACTCCAGATT
106730717 AACAAATTTATAAACCCAGAAAAA
1 AACAAATTTATAAACCCA-AAAAA
106730741 AACAAATTTATAAACCCAAAAAA
1 AACAAATTTATAAACCCAAAAAA
106730764 AA
1 AA
106730766 TGGTTGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.16
Consensus pattern (23 bp):
AACAAATTTATAAACCCAAAAAA
Found at i:106741077 original size:16 final size:16
Alignment explanation
Indices: 106741052--106741106 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
106741042 TCCTTAATCA
*
106741052 AATATATATTTTATTT
1 AATATTTATTTTATTT
*
106741068 AATATTTATTATATTT
1 AATATTTATTTTATTT
*
106741084 AATACTTATTTTATATT
1 AATATTTATTTTAT-TT
106741101 AA-ATTT
1 AATATTT
106741107 TTTAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 29 0.88
17 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
AATATTTATTTTATTT
Found at i:106747222 original size:24 final size:24
Alignment explanation
Indices: 106747195--106747246 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
106747185 TTGCCAATGA
106747195 AGCTGAATATGTAGCAACTACTGG
1 AGCTGAATATGTAGCAACTACTGG
* *
106747219 AGCTGAATATGTAGCAGCTGCTGG
1 AGCTGAATATGTAGCAACTACTGG
106747243 AGCT
1 AGCT
106747247 ATGAATCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (24 bp):
AGCTGAATATGTAGCAACTACTGG
Found at i:106754085 original size:17 final size:16
Alignment explanation
Indices: 106754067--106754108 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
106754057 TAAATTAATA
106754067 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
*
106754083 AAATAAATAATAAAACT
1 AAATAAA-AATAAAAAT
106754100 AAATAAAAA
1 AAATAAAAA
106754109 AATATCTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:106754089 original size:29 final size:29
Alignment explanation
Indices: 106754057--106754112 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
106754047 TAGCCTATTC
106754057 TAAATTAATAAAA-TAAA-AATAAAAATAAA
1 TAAA-TAATAAAACTAAATAA-AAAAATAAA
106754086 TAAATAATAAAACTAAATAAAAAAATA
1 TAAATAATAAAACTAAATAAAAAAATA
106754113 TCTTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.32
29 15 0.60
30 2 0.08
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (29 bp):
TAAATAATAAAACTAAATAAAAAAATAAA
Found at i:106755548 original size:17 final size:18
Alignment explanation
Indices: 106755523--106755558 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
106755513 ACTATTTTTA
*
106755523 AATATAAATTATAAAAAT
1 AATATAAATAATAAAAAT
106755541 AATA-AAATAATAAAAAT
1 AATATAAATAATAAAAAT
106755558 A
1 A
106755559 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AATATAAATAATAAAAAT
Found at i:106760326 original size:67 final size:67
Alignment explanation
Indices: 106760218--106760352 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
106760208 CATGAAGTAA
106760218 AGATCTTAGCATCGAATTACGACTGCTATTGATACTTCACTGTAATTACGGATAATGAAATGTAC
1 AGATCTTAGCATCGAATTACGACTGCTATTGATACTTCACTGTAATTACGGATAATGAAATGTAC
106760283 TT
66 TT
106760285 AGATCTTAGCATCGAATTACGACTGCTATTGATACTTCACTGTAATTACGGATAATGAAATGTAC
1 AGATCTTAGCATCGAATTACGACTGCTATTGATACTTCACTGTAATTACGGATAATGAAATGTAC
106760350 TT
66 TT
106760352 A
1 A
106760353 CTTTTCACCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (67 bp):
AGATCTTAGCATCGAATTACGACTGCTATTGATACTTCACTGTAATTACGGATAATGAAATGTAC
TT
Found at i:106761791 original size:21 final size:20
Alignment explanation
Indices: 106761724--106761792 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 20
106761714 TTAAAATTAT
106761724 ATTAAAA-A-TAATTTTTTAA
1 ATTAAAATATTAA-TTTTTAA
* * * *
106761743 TTTAAAATATTAAATTATATT
1 ATTAAAATATTAATTTTTA-A
*
106761764 ATAAAAATAGTTAATTTTTAA
1 ATTAAAATA-TTAATTTTTAA
106761785 ATTAAAAT
1 ATTAAAAT
106761793 TAATTATAAG
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 6 0.17
20 5 0.14
21 17 0.47
22 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
ATTAAAATATTAATTTTTAA
Found at i:106761837 original size:16 final size:17
Alignment explanation
Indices: 106761816--106761850 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
106761806 TCAGAAAATT
*
106761816 AAAATAT-AATTATTTA
1 AAAATATAAAATATTTA
106761832 AAAATATAAAATATTTA
1 AAAATATAAAATATTTA
106761849 AA
1 AA
106761851 TATTCTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATATAAAATATTTA
Found at i:106763697 original size:33 final size:34
Alignment explanation
Indices: 106763660--106763728 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
106763650 AGATAGAAGC
*
106763660 ATTGTCACTAATTGATAAATTTATTGT-AGAAAA
1 ATTGTCACTAATTAATAAATTTATTGTAAGAAAA
106763693 ATTGTCACTAATTAATAAATTTATTGTAAGAAAA
1 ATTGTCACTAATTAATAAATTTATTGTAAGAAAA
106763727 AT
1 AT
106763729 AATTTCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 26 0.76
34 8 0.24
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (34 bp):
ATTGTCACTAATTAATAAATTTATTGTAAGAAAA
Found at i:106763958 original size:6 final size:6
Alignment explanation
Indices: 106763947--106763980 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
106763937 TAAAGTTTTC
*
106763947 AATTTA AATTTA AATTTA AATTT- AATTTA GATTT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
106763981 CGATCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:106776091 original size:5 final size:5
Alignment explanation
Indices: 106776074--106776103 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
106776064 AATCGAATGT
106776074 AAATA ACAATA AAATA AAATA AAATA AAAT
1 AAATA A-AATA AAATA AAATA AAATA AAAT
106776104 TGAAGGACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:106778161 original size:12 final size:12
Alignment explanation
Indices: 106778144--106778177 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
106778134 CGGCCCGCCC
106778144 ATATTAATTTTT
1 ATATTAATTTTT
*
106778156 ATATTATTTTTT
1 ATATTAATTTTT
106778168 ATA-TAATTTT
1 ATATTAATTTT
106778178 AAACAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:106778337 original size:30 final size:30
Alignment explanation
Indices: 106778301--106778363 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
106778291 ACTTAACAAG
106778301 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
106778331 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
106778361 CAA
1 CAA
106778364 TAGAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:106791419 original size:27 final size:27
Alignment explanation
Indices: 106791368--106791433 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
106791358 ATTTTCAAAT
*
106791368 AATTATAAAATATAGAAAATTATTTAAA
1 AATTATAAAAAATAGAAAATTATTT-AA
* *
106791396 AATTATAAAAAAT-TAAAATTATTTCA
1 AATTATAAAAAATAGAAAATTATTTAA
*
106791422 AATTATTAAAAA
1 AATTATAAAAAA
106791434 CAATGTACAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.35
27 10 0.29
28 12 0.35
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
AATTATAAAAAATAGAAAATTATTTAA
Found at i:106795605 original size:56 final size:56
Alignment explanation
Indices: 106795417--106795605 Score: 148
Period size: 56 Copynumber: 3.4 Consensus size: 56
106795407 TGTTTCCTAT
* * * * * *
106795417 CAGAGATAGCCACAAAGGCTTTCTTATCAAAGATTCACCGTAGAGGCATTCTTAAA
1 CAGAGATAGCCACAAAGGCTTTCCTATCAGAGACTCACCATAAAGGCATTCTTTAA
* * * * ** * *
106795473 CATAGATAGCCACAAAGGTTTTCCTTTCAGAAACT--CTTTAAACGACATCCTTTAA
1 CAGAGATAGCCACAAAGGCTTTCCTATCAGAGACTCACCATAAA-GGCATTCTTTAA
* * * * * * *
106795528 TAAATATAGTCAAAAAAGCTTTCCTGTCAGAGACTCACCATAAAGGCATTCTTTAA
1 CAGAGATAGCCACAAAGGCTTTCCTATCAGAGACTCACCATAAAGGCATTCTTTAA
**
106795584 CAGAGATAGTTACAAAGGCTTT
1 CAGAGATAGCCACAAAGGCTTT
106795606 TCCTTTTACA
Statistics
Matches: 98, Mismatches: 32, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
54 4 0.04
55 35 0.36
56 54 0.55
57 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (56 bp):
CAGAGATAGCCACAAAGGCTTTCCTATCAGAGACTCACCATAAAGGCATTCTTTAA
Found at i:106797700 original size:10 final size:10
Alignment explanation
Indices: 106797674--106797713 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
106797664 TGTCTCTTAA
*
106797674 ATAATTATTAA
1 ATAATTA-TAC
106797685 ATAATTATAC
1 ATAATTATAC
106797695 ATAATTATAC
1 ATAATTATAC
106797705 ATAATTATA
1 ATAATTATA
106797714 AAAATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 21 0.75
11 7 0.25
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAATTATAC
Found at i:106797710 original size:20 final size:21
Alignment explanation
Indices: 106797674--106797722 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
106797664 TGTCTCTTAA
106797674 ATAATTATTAAATAATTATAC
1 ATAATTATTAAATAATTATAC
*
106797695 ATAATTA-TACATAATTATA-
1 ATAATTATTAAATAATTATAC
*
106797714 AAAATTATT
1 ATAATTATT
106797723 TAGAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTATTAAATAATTATAC
Found at i:106797881 original size:8 final size:9
Alignment explanation
Indices: 106797861--106797892 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
106797851 AATGTGTAAG
106797861 TTTTACAAT
1 TTTTACAAT
106797870 TTTTACAAT
1 TTTTACAAT
*
106797879 TTTTAAAAT
1 TTTTACAAT
106797888 TTTTA
1 TTTTA
106797893 ATACTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTACAAT
Found at i:106797900 original size:10 final size:9
Alignment explanation
Indices: 106797861--106797940 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
106797851 AATGTGTAAG
*
106797861 TTTTACAAT
1 TTTTAAAAT
*
106797870 TTTTACAAT
1 TTTTAAAAT
106797879 TTTTAAAAT
1 TTTTAAAAT
*
106797888 TTTTAATACT
1 TTTTAA-AAT
**
106797898 TTTTGTAAT
1 TTTTAAAAT
* *
106797907 TTTTTATAT
1 TTTTAAAAT
*
106797916 TTATTAATAAA
1 TT-TTAA-AAT
106797927 TTTTAAATAT
1 TTTTAAA-AT
106797937 TTTT
1 TTTT
106797941 CTGTAATTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
9 34 0.62
10 18 0.33
11 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:106797900 original size:19 final size:18
Alignment explanation
Indices: 106797861--106797940 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 18
106797851 AATGTGTAAG
*
106797861 TTTTACAATTTTTACA-AT
1 TTTTAAAATTTTTA-ATAT
106797879 TTTTAAAATTTTTAATACT
1 TTTTAAAATTTTTAATA-T
** *
106797898 TTTTGTAATTTTTTATAT
1 TTTTAAAATTTTTAATAT
*
106797916 TTATTAATAAATTTTAAATAT
1 TT-TT-A-AAATTTTTAATAT
106797937 TTTT
1 TTTT
106797941 CTGTAATTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.02
18 17 0.35
19 17 0.35
20 2 0.04
21 12 0.24
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (18 bp):
TTTTAAAATTTTTAATAT
Found at i:106799440 original size:4 final size:4
Alignment explanation
Indices: 106799431--106799472 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
106799421 ACATGTGGAT
* **
106799431 TTTA TTTA TTTA TTTA TTT- TTAA GGTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
106799473 TATTGATGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
3 2 0.06
4 29 0.94
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:106801016 original size:15 final size:15
Alignment explanation
Indices: 106800981--106801014 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
106800971 ACTCAACTAT
*
106800981 TATTAATTTTTTAAA
1 TATTTATTTTTTAAA
106800996 TATTTATTTTTT-AA
1 TATTTATTTTTTAAA
106801010 TATTT
1 TATTT
106801015 TACCATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATTTTTTAAA
Found at i:106805300 original size:38 final size:39
Alignment explanation
Indices: 106805219--106805316 Score: 153
Period size: 38 Copynumber: 2.5 Consensus size: 39
106805209 CACCGGCTCA
*
106805219 AAGCTTGCTAGGCACTAAGCCTGAATATCACATCGGCACG
1 AAGCCTGCTAGGCACTAAGCCTGAATA-CACATCGGCACG
*
106805259 AAGCCTGCTAGGCACTAAGCCTGAATA-ACATCGGCATG
1 AAGCCTGCTAGGCACTAAGCCTGAATACACATCGGCACG
*
106805297 AAGCCTGCTAGGCATTAAGC
1 AAGCCTGCTAGGCACTAAGC
106805317 TTGCTAGGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 29 0.53
40 26 0.47
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (39 bp):
AAGCCTGCTAGGCACTAAGCCTGAATACACATCGGCACG
Found at i:106805316 original size:16 final size:16
Alignment explanation
Indices: 106805291--106805334 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
106805281 GAATAACATC
*
106805291 GGCATGAAGCCTGCTA
1 GGCATTAAGCCTGCTA
*
106805307 GGCATTAAGCTTGCTA
1 GGCATTAAGCCTGCTA
106805323 GGCATTAAGCCT
1 GGCATTAAGCCT
106805335 AAATAACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (16 bp):
GGCATTAAGCCTGCTA
Found at i:106808058 original size:15 final size:15
Alignment explanation
Indices: 106808020--106808061 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
106808010 TGAAGTAAAT
106808020 GATTGAAATTAAACAA
1 GATTGAAATTAAA-AA
106808036 G--T-AAATTAAAAA
1 GATTGAAATTAAAAA
106808048 GATTGAAATTAAAA
1 GATTGAAATTAAAA
106808062 TCAAGAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 2 0.09
15 9 0.39
16 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (15 bp):
GATTGAAATTAAAAA
Found at i:106810225 original size:24 final size:24
Alignment explanation
Indices: 106810198--106810250 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
106810188 AAACCTAATT
*
106810198 CTAATCAATG-TCAAATATATTATG
1 CTAATCAATGCT-AAATATATTATA
*
106810222 CTAATGAATGCTAAATATATTATA
1 CTAATCAATGCTAAATATATTATA
106810246 CTAAT
1 CTAAT
106810251 AAGTACGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (24 bp):
CTAATCAATGCTAAATATATTATA
Found at i:106810261 original size:24 final size:24
Alignment explanation
Indices: 106810210--106810261 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
106810200 AATCAATGTC
* * *
106810210 AAATATATTATGCTAATGAATGCT
1 AAATATATTATACTAATGAATACG
106810234 AAATATATTATACTAAT-AAGTACG
1 AAATATATTATACTAATGAA-TACG
106810258 AAAT
1 AAAT
106810262 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAATGAATACG
Found at i:106824448 original size:72 final size:72
Alignment explanation
Indices: 106824362--106824504 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
106824352 GGGCTTGCAT
* ** *
106824362 TTTGCTGCTCGCAACTATACACCTTTGACAGGCTCGCTTTTTTGCTTACTGTCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
106824427 CTTCAAC
66 CTTCAAC
* ***
106824434 TTTGCTGCTTGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAGTTGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
106824499 CTTCAA
66 CTTCAA
106824505 TAGGCTCGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (72 bp):
TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
CTTCAAC
Found at i:106826902 original size:7 final size:7
Alignment explanation
Indices: 106826885--106826921 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
106826875 CATAGGAGCT
106826885 TATGTATA
1 TATG-ATA
106826893 TATGATA
1 TATGATA
106826900 TATGATA
1 TATGATA
*
106826907 TATGACA
1 TATGATA
106826914 TATGATA
1 TATGATA
106826921 T
1 T
106826922 GCAAACGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.43
Consensus pattern (7 bp):
TATGATA
Found at i:106832273 original size:26 final size:26
Alignment explanation
Indices: 106832244--106832352 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
106832234 TGACACAAAT
106832244 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
106832270 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106832296 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106832322 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106832348 TGATA
1 TGATA
106832353 GGAATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106834002 original size:27 final size:27
Alignment explanation
Indices: 106833972--106834111 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
106833962 GAGGAAGCGT
* *
106833972 TCTGATGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
106833999 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
106834026 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
106834053 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
106834081 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
106834107 TCTGG
1 TCTGG
106834112 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 81 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:106834049 original size:54 final size:55
Alignment explanation
Indices: 106833972--106834111 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
106833962 GAGGAAGCGT
* * * *
106833972 TCTGATGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
106834026 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
106834081 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
106834112 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:106837065 original size:23 final size:24
Alignment explanation
Indices: 106837039--106837083 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
106837029 TTTATTTTAA
*
106837039 TAATAAATT-TTAAACAATATTCT
1 TAATAAATTATTAAAAAATATTCT
*
106837062 TAATATATTATTAAAAAATATT
1 TAATAAATTATTAAAAAATATT
106837084 TATTTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAAATTATTAAAAAATATTCT
Found at i:106837107 original size:27 final size:28
Alignment explanation
Indices: 106837056--106837109 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
106837046 TTTTAAACAA
*
106837056 TATTCTTAATATATTATTAAAAAATATT
1 TATTCTTAATATATTAATAAAAAATATT
* *
106837084 TATT-TTAATATTTTAATAATAAATAT
1 TATTCTTAATATATTAATAAAAAATAT
106837110 ATTACAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTCTTAATATATTAATAAAAAATATT
Found at i:106837124 original size:79 final size:78
Alignment explanation
Indices: 106836984--106837139 Score: 169
Period size: 80 Copynumber: 2.0 Consensus size: 78
106836974 TATATATTTA
* **
106836984 TTAATATAATTAAAAATATTTTTTATAAACTATTTAATAATCAAATTTATTTTAATAATAAAT-T
1 TTAATATAATTAAAAATATTTTTTATAAACTATTTAATAATCAAATATATTACAATAATAAATAT
106837048 TTAAACAATATTC
66 TTAAACAATATTC
*
106837061 TTAATATATTATTAAAAAATATTTATTT-T-AA-TATTTTAATAAT-AAATATATTACAATTTAT
1 TTAATATA--ATT-AAAAATATTT-TTTATAAACTA-TTTAATAATCAAATATATTACAA-TAAT
* *
106837122 AAATATTTATATAATATT
60 AAATATTTAAACAATATT
106837140 TATATTACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
77 8 0.12
78 12 0.18
79 21 0.32
80 22 0.33
81 3 0.05
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (78 bp):
TTAATATAATTAAAAATATTTTTTATAAACTATTTAATAATCAAATATATTACAATAATAAATAT
TTAAACAATATTC
Found at i:106837136 original size:33 final size:32
Alignment explanation
Indices: 106837090--106837198 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 32
106837080 TATTTATTTT
*
106837090 AATATTTTAATAATAAATATATTACAATTTATA
1 AATATTAT-ATAATAAATATATTACAATTTATA
**
106837123 AATATTTATATAATATTTATATTACAA-TT-T-
1 AATA-TTATATAATAAATATATTACAATTTATA
106837153 -ATA-TA-ATAATAAATTATATTACAATTTATA
1 AATATTATATAATAAA-TATATTACAATTTATA
*
106837183 ATTATTATATAATAAA
1 AATATTATATAATAAA
106837199 AATTTTATAC
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
26 6 0.10
27 12 0.19
28 2 0.03
29 4 0.06
31 3 0.05
32 4 0.06
33 28 0.45
34 3 0.05
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
AATATTATATAATAAATATATTACAATTTATA
Found at i:106837139 original size:11 final size:11
Alignment explanation
Indices: 106837116--106837160 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
106837106 ATATATTACA
106837116 ATTTATA-AAT
1 ATTTATATAAT
106837126 ATTTATATAAT
1 ATTTATATAAT
106837137 ATTTATATTACA-
1 ATTTATA-TA-AT
106837149 ATTTATATAAT
1 ATTTATATAAT
106837160 A
1 A
106837161 ATAAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.26
11 13 0.42
12 9 0.29
13 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTATATAAT
Found at i:106837156 original size:23 final size:25
Alignment explanation
Indices: 106837126--106837182 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 25
106837116 ATTTATAAAT
106837126 ATTTATATAAT-AT-TTATATTACA
1 ATTTATATAATAATATTATATTACA
106837149 ATTTATATAATAATAAATTATATTACA
1 ATTTATATAATAAT--ATTATATTACA
106837176 ATTTATA
1 ATTTATA
106837183 ATTATTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.37
24 2 0.07
27 17 0.57
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTATATAATAATATTATATTACA
Found at i:106837212 original size:21 final size:21
Alignment explanation
Indices: 106837188--106837238 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
106837178 TTATAATTAT
*
106837188 TATATAATAAAAATTTTATAC
1 TATATAATAAAAATTTTATAA
106837209 TATATAATAAAAATTTTATAA
1 TATATAATAAAAATTTTATAA
*
106837230 TATAAAATA
1 TATATAATA
106837239 TGAGTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATAATAAAAATTTTATAA
Found at i:106837269 original size:23 final size:21
Alignment explanation
Indices: 106837175--106837280 Score: 63
Period size: 21 Copynumber: 4.8 Consensus size: 21
106837165 ATTATATTAC
106837175 AATTTATAATTATTATATAATAAA
1 AATTT-TAATTA-TATA-AATAAA
*
106837199 AATTTTATACTATAT-AATAAA
1 AATTTTA-ATTATATAAATAAA
* *
106837220 AATTTT-ATAATATAAAATATGAG
1 AATTTTAATTATAT-AAATA--AA
* *
106837243 TATTTTAATTATATAAATATA
1 AATTTTAATTATATAAATAAA
* *
106837264 AATATTTATTTAAATAA
1 AAT-TTTAATTATATAA
106837281 TTTTTTACTT
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
19 5 0.08
21 18 0.28
22 11 0.17
23 16 0.25
24 14 0.22
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (21 bp):
AATTTTAATTATATAAATAAA
Found at i:106837808 original size:21 final size:21
Alignment explanation
Indices: 106837782--106837821 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
106837772 ATCCAAACAC
106837782 AAAAAAAATTAGT-AATTTTA
1 AAAAAAAATTAGTCAATTTTA
106837802 AAAAAAAATTAGTCAATTTT
1 AAAAAAAATTAGTCAATTTT
106837822 CCATTAGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAAAAATTAGTCAATTTTA
Found at i:106838163 original size:22 final size:22
Alignment explanation
Indices: 106838138--106838207 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
106838128 CATTAACAAC
106838138 AAAATAATAACAAAATAATAGT
1 AAAATAATAACAAAATAATAGT
** * **
106838160 AAAATGGTAGCAAAATAGGGAG-
1 AAAATAATAACAAAATA-ATAGT
* *
106838182 AAAATAATAAAAAAATAATATT
1 AAAATAATAACAAAATAATAGT
106838204 AAAA
1 AAAA
106838208 AACAAAAAAA
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
21 1 0.03
22 31 0.91
23 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (22 bp):
AAAATAATAACAAAATAATAGT
Found at i:106841096 original size:93 final size:92
Alignment explanation
Indices: 106840901--106841183 Score: 401
Period size: 93 Copynumber: 3.1 Consensus size: 92
106840891 TTTAATAAAG
* * * * * * **
106840901 GAAAAAGATTACACATATCTATAATACGCATAATACGCTGACTCATTAAAAATTTTA-C-G-AAA
1 GAAAAAGAATACGCATATCTATAATACACATAATATGTTGCCTCATTAAAAAACTTACCAGAAAA
*
106840963 CCCAATGAGACAAAACCTCAATTAAAA
66 CCCAATGAGACAAAACCTCAATTAAGA
*
106840990 GAAAAAGAGTACGCATATCTATAATACACATAATATGTTGCCTCATTAAAAAACTTACCAAGAAA
1 GAAAAAGAATACGCATATCTATAATACACATAATATGTTGCCTCATTAAAAAACTTACC-AGAAA
* *
106841055 ACCCAATGAGACAAAACCTCAGTTAAGG
65 ACCCAATGAGACAAAACCTCAATTAAGA
*
106841083 GAAAAAGAATACGCATATCTATAATACACATAATATGTTGCCTCATTAAAAACCTTACCAGGAAA
1 GAAAAAGAATACGCATATCTATAATACACATAATATGTTGCCTCATTAAAAAACTTACCA-GAAA
*
106841148 ACTCAATGAGACAAAACCTCAATTAAGA
65 ACCCAATGAGACAAAACCTCAATTAAGA
106841176 GAAAAAGA
1 GAAAAAGA
106841184 GTACAGCGTA
Statistics
Matches: 173, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
89 49 0.28
90 1 0.01
92 2 0.01
93 121 0.70
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (92 bp):
GAAAAAGAATACGCATATCTATAATACACATAATATGTTGCCTCATTAAAAAACTTACCAGAAAA
CCCAATGAGACAAAACCTCAATTAAGA
Found at i:106845843 original size:7 final size:7
Alignment explanation
Indices: 106845833--106845897 Score: 103
Period size: 7 Copynumber: 9.3 Consensus size: 7
106845823 TTGATAACTG
106845833 ATATTAT
1 ATATTAT
*
106845840 ATATTTT
1 ATATTAT
106845847 ATATTAT
1 ATATTAT
106845854 ATATTAT
1 ATATTAT
106845861 ATATTAT
1 ATATTAT
*
106845868 TTATTAT
1 ATATTAT
*
106845875 TTATTAT
1 ATATTAT
106845882 ATATTAT
1 ATATTAT
106845889 ATATTAT
1 ATATTAT
106845896 AT
1 AT
106845898 GTATTAGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATATTAT
Found at i:106849859 original size:5 final size:5
Alignment explanation
Indices: 106849849--106849880 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
106849839 AGATATGTGA
106849849 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
106849881 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:106849869 original size:14 final size:14
Alignment explanation
Indices: 106849850--106849880 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
106849840 GATATGTGAA
106849850 AAATAAAATAAAAT
1 AAATAAAATAAAAT
106849864 AAATAAAATAAAAT
1 AAATAAAATAAAAT
106849878 AAA
1 AAA
106849881 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:106854312 original size:5 final size:5
Alignment explanation
Indices: 106854302--106854333 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
106854292 CAATTTGTGA
106854302 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
106854334 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:106854322 original size:14 final size:14
Alignment explanation
Indices: 106854303--106854333 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
106854293 AATTTGTGAA
106854303 AAATAAAATAAAAT
1 AAATAAAATAAAAT
106854317 AAATAAAATAAAAT
1 AAATAAAATAAAAT
106854331 AAA
1 AAA
106854334 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:106864852 original size:31 final size:30
Alignment explanation
Indices: 106864817--106864874 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
106864807 AATTTGAAAA
106864817 AAACTCATATACCAAAATAAATATTAAAGCC
1 AAACTCATATACCAAAATAAA-ATTAAAGCC
* * * *
106864848 AAACTTATGTATCAAATTAAAATTAAA
1 AAACTCATATACCAAAATAAAATTAAA
106864875 AAAAACTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 6 0.26
31 17 0.74
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (30 bp):
AAACTCATATACCAAAATAAAATTAAAGCC
Found at i:106865443 original size:17 final size:17
Alignment explanation
Indices: 106865421--106865454 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
106865411 TATAAGAGAG
*
106865421 AATGGAAAGGAAAGGAA
1 AATGGAAAGAAAAGGAA
*
106865438 AATGGAGAGAAAAGGAA
1 AATGGAAAGAAAAGGAA
106865455 GGGAAAGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.06
Consensus pattern (17 bp):
AATGGAAAGAAAAGGAA
Found at i:106865468 original size:21 final size:22
Alignment explanation
Indices: 106865426--106865470 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
106865416 GAGAGAATGG
*
106865426 AAAGGAAAGGAAAATGGAGAGA
1 AAAGGAAAGGAAAAGGGAGAGA
* *
106865448 AAAGGAAGGGAAAGGGGGAGAGA
1 AAAGGAAAGGAAA-AGGGAGAGA
106865471 TTTTTCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.02
Consensus pattern (22 bp):
AAAGGAAAGGAAAAGGGAGAGA
Found at i:106873375 original size:14 final size:14
Alignment explanation
Indices: 106873358--106873400 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
106873348 AGTTTTTCAT
106873358 AAAATTAAGAAAATA
1 AAAATTAA-AAAATA
*
106873373 AAAATTAAAAAAGA
1 AAAATTAAAAAATA
*
106873387 AGAAAATAAAAAAT
1 A-AAATTAAAAAAT
106873401 TAAATTCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (14 bp):
AAAATTAAAAAATA
Found at i:106889049 original size:12 final size:12
Alignment explanation
Indices: 106889028--106889070 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
106889018 TGATTTTCTC
*
106889028 AAAATAGAAATG
1 AAAATGGAAATG
**
106889040 AAAATGGAAAAA
1 AAAATGGAAATG
106889052 AAAATGGAAATG
1 AAAATGGAAATG
106889064 ATAAATG
1 A-AAATG
106889071 ATAAATGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:106896280 original size:23 final size:23
Alignment explanation
Indices: 106896254--106896305 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
106896244 AATTAAAAAG
106896254 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
106896277 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
106896300 ATGAAA
1 ATGAAA
106896306 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:106900733 original size:23 final size:23
Alignment explanation
Indices: 106900707--106900758 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
106900697 AATTAAAAAG
106900707 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
106900730 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
106900753 ATGAAA
1 ATGAAA
106900759 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:106902755 original size:22 final size:20
Alignment explanation
Indices: 106902705--106902755 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
106902695 TACATGAAAT
*
106902705 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAACTCTTAATC
106902725 TAAAGAAAATAAACTCAATT-ATC
1 TAAA-AAAAT-AACTC--TTAATC
106902748 TAAAAAAA
1 TAAAAAAA
106902756 GTTTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 9 0.35
23 6 0.23
24 2 0.08
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAAAATAACTCTTAATC
Found at i:106902922 original size:25 final size:24
Alignment explanation
Indices: 106902866--106902924 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
106902856 TTTTTTTGGA
* *
106902866 TAATTATGTTTATTTTCTTTAAATT
1 TAATTAT-TTTATTTTATTTAAATG
* *
106902891 TATTTATTTTATTATTATTTACATG
1 TAATTATTTTATT-TTATTTAAATG
106902916 TAATTATTT
1 TAATTATTT
106902925 GATCGGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (24 bp):
TAATTATTTTATTTTATTTAAATG
Done.