Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 121 of 297
Found at i:42968915 original size:46 final size:46
Alignment explanation
Indices: 42968761--42968938 Score: 200
Period size: 46 Copynumber: 3.9 Consensus size: 46
42968751 NNNNNNNNNN
* * *
42968761 GTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGTCCATG
1 GTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATG
* *
42968807 GTTGAAAGATACCGTGGCAACGTGACATGAAAA--AATAAGACCATG
1 GTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAAGACCATG
** *
42968852 GTTGAAAGATACCATGGCAACATGACAGAAAATGTGTAAGACCATA
1 GTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATG
* * * * * *
42968898 GTTGAAAGACACTATGGCATCATGTCA-AAGATAAATAAGAC
1 GTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGAC
42968939 TGTGGATGGG
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
44 5 0.05
45 46 0.41
46 56 0.50
47 4 0.04
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
GTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATG
Found at i:42968934 original size:91 final size:90
Alignment explanation
Indices: 42968761--42968938 Score: 214
Period size: 91 Copynumber: 2.0 Consensus size: 90
42968751 NNNNNNNNNN
* * * * * *
42968761 GTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGTCCATGGTTGAAAGATACCGTGGCA
1 GTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCA
*
42968826 ACGTGACATGAAAAAATAAGACCATG
66 ACATGACA-GAAAAAATAAGACCATG
** *
42968852 GTTGAAAGATACCATGGCAACATGACAGAAAATGTGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCA
* *
42968917 TCATGTCA-AAGATAAATAAGAC
66 ACATGACAGAA-A-AAATAAGAC
42968939 TGTGGATGGG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
89 2 0.03
90 1 0.01
91 70 0.96
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (90 bp):
GTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCA
ACATGACAGAAAAAATAAGACCATG
Found at i:42977568 original size:30 final size:27
Alignment explanation
Indices: 42977533--42977588 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
42977523 TGCATGTACT
*
42977533 ATATATACATATAATATAGTTATTAAGAAA
1 ATATATACA-AT-ATATA-ATATTAAGAAA
42977563 ATATATACAATATATAATATTAAGAA
1 ATATATACAATATATAATATTAAGAA
42977589 TATACACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 5 0.20
29 2 0.08
30 9 0.36
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (27 bp):
ATATATACAATATATAATATTAAGAAA
Found at i:42978116 original size:3 final size:3
Alignment explanation
Indices: 42978021--42978100 Score: 56
Period size: 3 Copynumber: 27.0 Consensus size: 3
42978011 AATATTATAT
* * ** * * *
42978021 ATA ATA ATA ATA ATA AT- ATG TTA ATA ACC AGA ATA TTA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
42978068 ATA ATA ATA ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
42978101 TTAGGAATGA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
2 3 0.05
3 55 0.93
4 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42984330 original size:17 final size:19
Alignment explanation
Indices: 42984288--42984333 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
42984278 ATATTTTATT
42984288 AATATATTAATAAAAATGG
1 AATATATTAATAAAAATGG
42984307 AATATATTAATAAAAATGG
1 AATATATTAATAAAAATGG
42984326 AATATATT
1 AATATATT
42984334 TTAATTAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (19 bp):
AATATATTAATAAAAATGG
Found at i:42986861 original size:40 final size:40
Alignment explanation
Indices: 42986817--42987034 Score: 375
Period size: 40 Copynumber: 5.5 Consensus size: 40
42986807 GCTACTCGCT
42986817 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
42986857 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * *
42986897 CAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
42986937 CAAATGCCTTCGGG-CTTAGCCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTCACA
42986977 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
42987017 CAAATGCCTTCGGGACTT
1 CAAATGCCTTCGGGACTT
42987035 TATCATCCGA
Statistics
Matches: 168, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 5 0.03
40 158 0.94
41 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:42991639 original size:26 final size:26
Alignment explanation
Indices: 42991603--42991703 Score: 114
Period size: 26 Copynumber: 3.7 Consensus size: 26
42991593 CATTGTTTTT
42991603 AGGGGATTGTTTTTTGTTTTTTGGAGG
1 AGGGG-TTGTTTTTTGTTTTTTGGAGG
42991630 AGGGGTTGTTTTTTTTTTGTTTTTTGGAGG
1 AGGGGTTG----TTTTTTGTTTTTTGGAGG
**
42991660 A-GGGTTGTTTTTTGTTTTTTGGAAT
1 AGGGGTTGTTTTTTGTTTTTTGGAGG
* *
42991685 AAGTGTTGTTTTTTGTTTT
1 AGGGGTTGTTTTTTGTTTT
42991704 GGAAAGGCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
25 17 0.26
26 19 0.29
27 5 0.08
29 6 0.09
30 19 0.29
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (26 bp):
AGGGGTTGTTTTTTGTTTTTTGGAGG
Found at i:42991653 original size:29 final size:29
Alignment explanation
Indices: 42991612--42991677 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 29
42991602 TAGGGGATTG
42991612 TTTTTTGTTTTTTGGAGGAGGGGTTGTTTT
1 TTTTTTGTTTTTTGGAGGA-GGGTTGTTTT
42991642 TTTTTTGTTTTTTGGAGGAGGGTTGTTTT
1 TTTTTTGTTTTTTGGAGGAGGGTTGTTTT
42991671 TTGTTTT
1 TT-TTTT
42991678 TTGGAATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.06, C:0.00, G:0.30, T:0.64
Consensus pattern (29 bp):
TTTTTTGTTTTTTGGAGGAGGGTTGTTTT
Found at i:42991868 original size:25 final size:24
Alignment explanation
Indices: 42991817--42991894 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
42991807 GATTAATCTC
* * *
42991817 CAAAAACTAGCCT-TTCCAAAACA
1 CAAAAACAACCCTATTCCAAAAAA
42991840 -AAAAACAACCCCTATTCCAAAAAA
1 CAAAAACAA-CCCTATTCCAAAAAA
**
42991864 CAAAAAACAACCCTCCTCCAAAAAA
1 C-AAAAACAACCCTATTCCAAAAAA
42991889 CAAAAA
1 CAAAAA
42991895 AAAAAAACCC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 7 0.15
23 3 0.07
24 14 0.30
25 14 0.30
26 8 0.17
ACGTcount: A:0.56, C:0.31, G:0.01, T:0.12
Consensus pattern (24 bp):
CAAAAACAACCCTATTCCAAAAAA
Found at i:42991932 original size:26 final size:26
Alignment explanation
Indices: 42991834--42991930 Score: 126
Period size: 25 Copynumber: 3.7 Consensus size: 26
42991824 TAGCCTTTCC
**
42991834 AAAACAAAAAACAACCCCTATTCCAA
1 AAAACAAAAAACAACCCCTCCTCCAA
42991860 AAAACAAAAAACAA-CCCTCCTCCAA
1 AAAACAAAAAACAACCCCTCCTCCAA
*
42991885 AAAACAAAAAAAAAAAACCCCTCCT-CAA
1 AAAAC---AAAAAACAACCCCTCCTCCAA
42991913 AAAACAAAAAACAACCCC
1 AAAACAAAAAACAACCCC
42991931 CTAAAAACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
25 26 0.41
26 14 0.22
28 16 0.25
29 7 0.11
ACGTcount: A:0.61, C:0.32, G:0.00, T:0.07
Consensus pattern (26 bp):
AAAACAAAAAACAACCCCTCCTCCAA
Found at i:42994531 original size:20 final size:20
Alignment explanation
Indices: 42994506--42994547 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
42994496 TCATTTTGAT
*
42994506 TTACATTAGTACACAAGTGG
1 TTACATCAGTACACAAGTGG
42994526 TTACATCAGTACACAAGTGG
1 TTACATCAGTACACAAGTGG
42994546 TT
1 TT
42994548 CCATATCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (20 bp):
TTACATCAGTACACAAGTGG
Found at i:42998787 original size:28 final size:29
Alignment explanation
Indices: 42998721--42998788 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
42998711 GCGGTGTGAG
**
42998721 AAATCTCCAAAATTGGAAACCCTAAACAA
1 AAATCTCCAAAATTCAAAACCCTAAACAA
* * *
42998750 AAAT-TCCCAAAA-TCAAAACCCTTACCCA
1 AAATCT-CCAAAATTCAAAACCCTAAACAA
42998778 AAATCTCCAAA
1 AAATCTCCAAA
42998789 TTATACCACC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.18
Consensus pattern (29 bp):
AAATCTCCAAAATTCAAAACCCTAAACAA
Found at i:43001468 original size:20 final size:22
Alignment explanation
Indices: 43001443--43001494 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
43001433 TTATTTGAAT
43001443 TATTAA-ATAT-AATTCAAATA
1 TATTAATATATAAATTCAAATA
*
43001463 TATTAATTTATAAATTCAAATA
1 TATTAATATATAAATTCAAATA
43001485 T-TATAATATA
1 TAT-TAATATA
43001495 CAATTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.22
21 4 0.15
22 17 0.63
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTAATATATAAATTCAAATA
Found at i:43001677 original size:36 final size:36
Alignment explanation
Indices: 43001625--43001696 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
43001615 AAATAAATGA
*
43001625 TATTTTATAAACTAAAA-GATAATTATAGTACAAGTT
1 TATTTTATAAACTAAAATG-TAATTATACTACAAGTT
*
43001661 TATTTTATAAATTAAAATGTAATTATACTACAAGTT
1 TATTTTATAAACTAAAATGTAATTATACTACAAGTT
43001697 CTATAATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (36 bp):
TATTTTATAAACTAAAATGTAATTATACTACAAGTT
Found at i:43005641 original size:26 final size:28
Alignment explanation
Indices: 43005604--43005656 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
43005594 AACAATCATT
*
43005604 GCATAGTCATGAATGAAGCAAA-GAAAA
1 GCATAGTCATGAAGGAAGCAAATGAAAA
43005631 GCAT-GTCATGAAGGAAGCAAATGAAA
1 GCATAGTCATGAAGGAAGCAAATGAAA
43005657 GAAAATTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.49, C:0.11, G:0.25, T:0.15
Consensus pattern (28 bp):
GCATAGTCATGAAGGAAGCAAATGAAAA
Found at i:43006829 original size:12 final size:11
Alignment explanation
Indices: 43006801--43006828 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
43006791 TCAAGATTTT
43006801 ATTTTTCTAGA
1 ATTTTTCTAGA
43006812 ATTTTTCTAGA
1 ATTTTTCTAGA
43006823 ATTTTT
1 ATTTTT
43006829 TTATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (11 bp):
ATTTTTCTAGA
Found at i:43007851 original size:159 final size:158
Alignment explanation
Indices: 43007561--43007895 Score: 454
Period size: 159 Copynumber: 2.0 Consensus size: 158
43007551 TTCAGATCTT
* *
43007561 ATTACCTGACTTAGTGGCTGAAAAGTGTTGAGAGATTAGAACTGAAAATGAAGCAGTGAAGTTGA
1 ATTACCTGACTTAGTGGCCGAAAAGTGTTGAGAGATTAGAACTGAAAATGAAGCAATGAAGTTGA
* * * *
43007626 CTTCCTTGACTATCTTACAGAGCTAGCTGCTATAACAGTAGCAGATAATCAAAAGCAAAGAAAAG
66 CTTCCTTGACTATCTTACAAAGCTAGCAGATATAACAG-AACAGATAATCAAAAGCAAAGAAAAG
43007691 CATGTCATGAATTAAGCAAATGAAAGAAA
130 CATGTCATGAATTAAGCAAATGAAAGAAA
*
43007720 ATTACCTGACTTAGTGGCCGAAATGTGTTGAGAGATTAGAACTGAAAATGAAGCAATGAAGTTGA
1 ATTACCTGACTTAGTGGCCGAAAAGTGTTGAGAGATTAGAACTGAAAATGAAGCAATGAAGTTGA
* * *
43007785 CTTCCTTGACTATCTTACAAAGCTAGCAGATAATAAAAACAATCATTGCATAGTCATGAATGAAG
66 CTTCCTTGACTATCTTACAAAGCTAGCAGAT-AT-AACAGAA-CA--G-ATA---ATCAA--AAG
* *
43007850 CAAAGAAAAACATGTCATGAATGAAGCAAATGAAAGAAA
120 CAAAGAAAAGCATGTCATGAATTAAGCAAATGAAAGAAA
43007889 ATTACCT
1 ATTACCT
43007896 TTGACGGGAT
Statistics
Matches: 153, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
159 90 0.59
160 3 0.02
161 5 0.03
163 1 0.01
164 3 0.02
167 4 0.03
169 47 0.31
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (158 bp):
ATTACCTGACTTAGTGGCCGAAAAGTGTTGAGAGATTAGAACTGAAAATGAAGCAATGAAGTTGA
CTTCCTTGACTATCTTACAAAGCTAGCAGATATAACAGAACAGATAATCAAAAGCAAAGAAAAGC
ATGTCATGAATTAAGCAAATGAAAGAAA
Found at i:43011231 original size:3 final size:3
Alignment explanation
Indices: 43011225--43011255 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
43011215 TAACAACAAC
43011225 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
43011256 GGAAAGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:43014034 original size:44 final size:44
Alignment explanation
Indices: 43013930--43014016 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
43013920 ATAGCTAATT
43013930 ACATATAAATGATAAAAAAAATATATGTGATTTATAGTTTGTAA
1 ACATATAAATGATAAAAAAAATATATGTGATTTATAGTTTGTAA
43013974 ACATATAAATGATAAAAAAAATATATGTGATTTATAGTTTGTA
1 ACATATAAATGATAAAAAAAATATATGTGATTTATAGTTTGTA
43014017 CGTATATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.37
Consensus pattern (44 bp):
ACATATAAATGATAAAAAAAATATATGTGATTTATAGTTTGTAA
Found at i:43023038 original size:67 final size:67
Alignment explanation
Indices: 43022967--43023217 Score: 188
Period size: 67 Copynumber: 3.8 Consensus size: 67
43022957 GGAGAGCCAC
43022967 TAAACGATTCATGGAGGGGCTCAACTATCAATTTTTGGAGATATGCCTCATCTCCGTAGAGAGTG
1 TAAACGATTCATGGAGGGGCTCAACTATCAATTTTTGGAGATATGCCTCATCTCCGTAGAGAGTG
43023032 AT
66 AT
* * * * * * *
43023034 TAAAC-AGTTCATGGA-GAGCTCGATTTTCAATTTTTGGTGTTATGCCTCACCTCTACGTAG-G-
1 TAAACGA-TTCATGGAGGGGCTCAACTATCAATTTTTGGAGATATGCCTCA--TCTCCGTAGAGA
*
43023095 GCTG-C
63 G-TGAT
* * * * * * * * * * * * **
43023100 TGAATGATTCATAGAAGGTCCCAACTATCAGTTTTTGGAGTTATGTCTCACCTCTGTGGAGAGCC
1 TAAACGATTCATGGAGGGGCTCAACTATCAATTTTTGGAGATATGCCTCATCTCCGTAGAGAGTG
43023165 AT
66 AT
* ** * *
43023167 TAAACGGTTCATGGAGGGGCTTGACTATCAATTTTTAGAGATATGTCTCAT
1 TAAACGATTCATGGAGGGGCTCAACTATCAATTTTTGGAGATATGCCTCAT
43023218 TTTCGTGAAT
Statistics
Matches: 135, Mismatches: 40, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
65 5 0.04
66 41 0.30
67 81 0.60
68 8 0.06
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (67 bp):
TAAACGATTCATGGAGGGGCTCAACTATCAATTTTTGGAGATATGCCTCATCTCCGTAGAGAGTG
AT
Found at i:43023585 original size:16 final size:16
Alignment explanation
Indices: 43023566--43023603 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43023556 AATTAAAAAT
43023566 TTTATAAATATGTT-AA
1 TTTATAAATAT-TTCAA
*
43023582 TTTATAATTATTTCAA
1 TTTATAAATATTTCAA
43023598 TTTATA
1 TTTATA
43023604 TTTGTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTATAAATATTTCAA
Found at i:43024040 original size:90 final size:90
Alignment explanation
Indices: 43023895--43024155 Score: 280
Period size: 90 Copynumber: 2.9 Consensus size: 90
43023885 TCCTCTAACT
* * * * *
43023895 TTTTAAAAAAAAGTAATTAAACCCTTGCTTTTATTTTGCATTCACTTGGATACTTGAACTTTTAA
1 TTTTCAAAAAAAGCAATTAAACCCTTGCTTTTATTTTGCACTCAATTGGATACTTGAACTTTCAA
*
43023960 AATACATTAAAAAGGCCCTCAAATA
66 AATACATCAAAAAGGCCCTCAAATA
* *
43023985 TTTTCAAAAAAAGCAATTAAGCCAC-TGGTTTTATTTTGCACTCAATTGAGA-ACTTGAACTTTC
1 TTTTCAAAAAAAGCAATTAAACC-CTTGCTTTTATTTTGCACTCAATTG-GATACTTGAACTTTC
*
43024048 AAAATACATCAAAAAGGCCCTCAAATT
64 AAAATACATCAAAAAGGCCCTCAAATA
* * ** * ** * * * *
43024075 TTTTCAAAAAAAGTACTTAGGCCCCTAATTTT-TTTT-CACTTAATTGGGTACTTCAACTGTC-A
1 TTTTCAAAAAAAGCAATTAAACCCTTGCTTTTATTTTGCACTCAATTGGATACTTGAACTTTCAA
*
43024137 GATACATCAAAAAGGCCCT
66 AATACATCAAAAAGGCCCT
43024156 TTGACCGTTA
Statistics
Matches: 148, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
87 20 0.14
88 19 0.13
89 5 0.03
90 101 0.68
91 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (90 bp):
TTTTCAAAAAAAGCAATTAAACCCTTGCTTTTATTTTGCACTCAATTGGATACTTGAACTTTCAA
AATACATCAAAAAGGCCCTCAAATA
Found at i:43024191 original size:21 final size:21
Alignment explanation
Indices: 43024165--43024222 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
43024155 TTTGACCGTT
*
43024165 AACTTTAATAGTTGACTATTA
1 AACTTTAACAGTTGACTATTA
43024186 AACTTTAACAGTTGACTATTA
1 AACTTTAACAGTTGACTATTA
43024207 AACTTTAACAGTTGAC
1 AACTTTAACAGTTGAC
43024223 CATTCAAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
AACTTTAACAGTTGACTATTA
Found at i:43036539 original size:17 final size:17
Alignment explanation
Indices: 43036519--43036552 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43036509 ATAGCATGTT
* *
43036519 TCATATCTTATCTTATC
1 TCATATCATATCATATC
43036536 TCATATCATATCATATC
1 TCATATCATATCATATC
43036553 ATACCTCCAA
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:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (17 bp):
TCATATCATATCATATC
Found at i:43036894 original size:36 final size:36
Alignment explanation
Indices: 43036848--43036927 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
43036838 ATTTTTAAGA
43036848 AACATAACATAGCATATAATTTATATACAACCTACTT
1 AACAT-ACATAGCATATAATTTATATACAACCTACTT
43036885 AACATACATAGCATATAATTTATATACAACCTACTT
1 AACATACATAGCATATAATTTATATACAACCTACTT
43036921 AACATAC
1 AACATAC
43036928 CTCCTAAGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 38 0.88
37 5 0.12
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (36 bp):
AACATACATAGCATATAATTTATATACAACCTACTT
Found at i:43038238 original size:14 final size:15
Alignment explanation
Indices: 43038221--43038250 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43038211 ATCATTTTGA
43038221 TTAAT-ATAAATATT
1 TTAATAATAAATATT
43038235 TTAATAATAAATATT
1 TTAATAATAAATATT
43038250 T
1 T
43038251 AGAAAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATAATAAATATT
Found at i:43040475 original size:13 final size:13
Alignment explanation
Indices: 43040457--43040502 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
43040447 AGGTAAAATG
43040457 TTCAACAGGAGAT
1 TTCAACAGGAGAT
** *
43040470 TTCAACATTATAT
1 TTCAACAGGAGAT
43040483 TTCAACAGGAGAT
1 TTCAACAGGAGAT
43040496 TTCAACA
1 TTCAACA
43040503 TTATATTGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
TTCAACAGGAGAT
Found at i:43040487 original size:26 final size:26
Alignment explanation
Indices: 43040457--43040509 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
43040447 AGGTAAAATG
43040457 TTCAACAGGAGATTTCAACATTATAT
1 TTCAACAGGAGATTTCAACATTATAT
43040483 TTCAACAGGAGATTTCAACATTATAT
1 TTCAACAGGAGATTTCAACATTATAT
43040509 T
1 T
43040510 GCTTCTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (26 bp):
TTCAACAGGAGATTTCAACATTATAT
Found at i:43042248 original size:60 final size:60
Alignment explanation
Indices: 43042181--43043162 Score: 1937
Period size: 60 Copynumber: 16.4 Consensus size: 60
43042171 AAAGATTTTT
*
43042181 TGAAATTGATATCAATAGAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042241 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
*
43042301 TGAAATTGATATCAATAGAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042361 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042421 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042481 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042541 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042601 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042661 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042721 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042781 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042841 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042901 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43042961 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43043021 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
*
43043081 TGAAATTGATATCAATAGAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
1 TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
43043141 TGAAATTGATATCAATAAAAAA
1 TGAAATTGATATCAATAAAAAA
43043163 ATTTTAACAC
Statistics
Matches: 917, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 917 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.40
Consensus pattern (60 bp):
TGAAATTGATATCAATAAAAAATTAATAATTTTTTAATAAGTTATTTTAAAGATAAAATG
Found at i:43046308 original size:3 final size:3
Alignment explanation
Indices: 43046300--43046325 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43046290 GTTGCCCTTG
43046300 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
43046326 TATTGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:43046419 original size:177 final size:176
Alignment explanation
Indices: 43046123--43046493 Score: 654
Period size: 177 Copynumber: 2.1 Consensus size: 176
43046113 TTTACATTTG
* *
43046123 ATTATTATTATTATTGTTATTATTATTTATTGTATTTTGATTATTTATATTATATTAGAATAGTA
1 ATTATTATTATTATTATTATTATTATTTATTGTATTTTGATTATTTATATTAAATTAGAATAGTA
* *
43046188 ATTATGGATTGATTGATTTATCGGTTTATTTACCTATGTATTATTTCTTTACCTTTTTTATTTTA
66 ATTATGGATTGATTGATTTATCGGTTTATTTACCTAGGTATTATTTCTTTACCTTTTTTATTCTA
*
43046253 AAATTTTTATTACTCATTTTCTTATTTGCACATTTTT-GTTGCCCTT
131 AAATTTTTATTACTCATTTTCTTATTTGCACATTTTTGGTGGCCC-T
*
43046299 GTTATTATTATTATTATTATTATTATTTATTGTATTTTGATTATTTATATTAGAATTAGAATAGT
1 ATTATTATTATTATTATTATTATTATTTATTGTATTTTGATTATTTATATTA-AATTAGAATAGT
*
43046364 AATTATGGATTGATTGATTTATTGGTTTATTTACCTAGGTATTATTTCTTTACCTTTTTTATTCT
65 AATTATGGATTGATTGATTTATCGGTTTATTTACCTAGGTATTATTTCTTTACCTTTTTTATTCT
43046429 AAAATTTTTATTACTCATTTTCTTATTTGCACATTTTTGGTGGCCCT
130 AAAATTTTTATTACTCATTTTCTTATTTGCACATTTTTGGTGGCCCT
43046476 ATTATTATTATTATTATT
1 ATTATTATTATTATTATT
43046494 TATTTTTCTT
Statistics
Matches: 185, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
176 50 0.27
177 129 0.70
178 6 0.03
ACGTcount: A:0.26, C:0.08, G:0.09, T:0.58
Consensus pattern (176 bp):
ATTATTATTATTATTATTATTATTATTTATTGTATTTTGATTATTTATATTAAATTAGAATAGTA
ATTATGGATTGATTGATTTATCGGTTTATTTACCTAGGTATTATTTCTTTACCTTTTTTATTCTA
AAATTTTTATTACTCATTTTCTTATTTGCACATTTTTGGTGGCCCT
Found at i:43051977 original size:33 final size:33
Alignment explanation
Indices: 43051940--43052008 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
43051930 CATTTATGAC
43051940 TATTCTCTTACCTATTATAATTTACTATTTTGT
1 TATTCTCTTACCTATTATAATTTACTATTTTGT
* *
43051973 TATTCTCTTATCTATTATAATTTACTCTTTTGT
1 TATTCTCTTACCTATTATAATTTACTATTTTGT
43052006 TAT
1 TAT
43052009 GAATTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.23, C:0.14, G:0.03, T:0.59
Consensus pattern (33 bp):
TATTCTCTTACCTATTATAATTTACTATTTTGT
Found at i:43052059 original size:19 final size:20
Alignment explanation
Indices: 43052033--43052077 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
43052023 TATACAACCC
43052033 ATTA-TTTAATATAAT-TTT
1 ATTATTTTAATATAATATTT
*
43052051 ATTATTTTAATGTAATATTT
1 ATTATTTTAATATAATATTT
43052071 -TTATTTT
1 ATTATTTT
43052078 TTTAGATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTATTTTAATATAATATTT
Found at i:43061642 original size:359 final size:359
Alignment explanation
Indices: 43060983--43061706 Score: 1421
Period size: 359 Copynumber: 2.0 Consensus size: 359
43060973 TTCATTATAA
43060983 ATTAACCAGAGACAATTAGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTA
1 ATTAACCAGAGACAATTAGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTA
*
43061048 TAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAG
66 TAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAG
*
43061113 GTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGAC
131 GTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGAC
43061178 CAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAA
196 CAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAA
43061243 CTGATTTTTGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTG
261 CTGATTTTTGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTG
43061308 TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCT
326 TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCT
*
43061342 ATTAACCAGAGACAATTAGGAGTCATACCATATATTGATAGATTCCTCTCTGAGTCTAGTTTCTA
1 ATTAACCAGAGACAATTAGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTA
43061407 TAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAG
66 TAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAG
43061472 GTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGAC
131 GTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGAC
43061537 CAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAA
196 CAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAA
43061602 CTGATTTTTGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTG
261 CTGATTTTTGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTG
43061667 TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCT
326 TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCT
43061701 ATTAAC
1 ATTAAC
43061707 ATCTCGTGTT
Statistics
Matches: 362, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
359 362 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (359 bp):
ATTAACCAGAGACAATTAGGAGTCATACCATATATGGATAGATTCCTCTCTGAGTCTAGTTTCTA
TAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAGGTCGTAATGCGCAAAG
GTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGAC
CAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGAAA
CTGATTTTTGAGTTGTGAAACTCAAGATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGTG
TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCT
Found at i:43066069 original size:104 final size:104
Alignment explanation
Indices: 43065889--43066112 Score: 360
Period size: 104 Copynumber: 2.2 Consensus size: 104
43065879 TGTATATAAA
** * * *
43065889 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGTTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
43065954 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
43065993 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
43066057 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
43066097 AGGGGTTGATAAGTGC
1 AGGGGTTGCTAAGTGC
43066113 GATATCCACC
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
104 110 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:43066128 original size:72 final size:72
Alignment explanation
Indices: 43066034--43066254 Score: 381
Period size: 72 Copynumber: 3.1 Consensus size: 72
43066024 TTGGTGGTGC
43066034 TAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
1 TAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
43066099 GGGTTGA
66 GGGTTGA
43066106 TAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
1 TAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
43066171 GGGTTGA
66 GGGTTGA
*** * *
43066178 TAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
1 TAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
*
43066242 GGGTTGC
66 GGGTTGA
43066249 TAAGTG
1 TAAGTG
43066255 ATGATTCCCC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 44 0.31
72 99 0.69
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
TAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
GGGTTGA
Found at i:43074928 original size:136 final size:135
Alignment explanation
Indices: 43074684--43074959 Score: 464
Period size: 136 Copynumber: 2.0 Consensus size: 135
43074674 TGCTTCTGGG
43074684 TAGCTCTTTGCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGATCATCCTGTCTTAAAAT
1 TAGCTCTTTGCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGATCATCCTGTCTTAAAAT
* * *
43074749 CTAAAACTGTTGAAAATCAGTAGGGGAAATCATTGCTTCAGATCTTATTACCTTGACTATCTTAC
66 CTAAAACTGTTGAAAATCACTAGGAGAAACCATTGCTTCAGATCTTATTACCTTGACTATCTTAC
43074814 AAAGC
131 AAAGC
* *
43074819 ATAGCTCTTTTCGTATTAATTTGTATCTATAGTAGATTATGTCTGCTGATCATCCTGTCTTAAAA
1 -TAGCTCTTTGCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGATCATCCTGTCTTAAAA
* *
43074884 TCTAAAACTGTTGATAATCACTA-GAGAAGACCATTGCTTTAGATCTTATTACCTTGACTATCTT
65 TCTAAAACTGTTGAAAATCACTAGGAGAA-ACCATTGCTTCAGATCTTATTACCTTGACTATCTT
43074948 ACAAAGC
129 ACAAAGC
43074955 TAGCT
1 TAGCT
43074960 GCTATAACAG
Statistics
Matches: 132, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
135 9 0.07
136 123 0.93
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (135 bp):
TAGCTCTTTGCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGATCATCCTGTCTTAAAAT
CTAAAACTGTTGAAAATCACTAGGAGAAACCATTGCTTCAGATCTTATTACCTTGACTATCTTAC
AAAGC
Found at i:43075273 original size:13 final size:14
Alignment explanation
Indices: 43075255--43075284 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43075245 AATCCATCTT
43075255 TTTTGAC-TTTTTC
1 TTTTGACTTTTTTC
43075268 TTTTGACTTTTTTC
1 TTTTGACTTTTTTC
43075282 TTT
1 TTT
43075285 GCTGTCAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (14 bp):
TTTTGACTTTTTTC
Found at i:43075924 original size:16 final size:16
Alignment explanation
Indices: 43075903--43075934 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43075893 ATATAGAAGT
*
43075903 CAATGAGTTGTATTAG
1 CAATGAGCTGTATTAG
43075919 CAATGAGCTGTATTAG
1 CAATGAGCTGTATTAG
43075935 GGTGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (16 bp):
CAATGAGCTGTATTAG
Found at i:43076679 original size:11 final size:12
Alignment explanation
Indices: 43076662--43076694 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
43076652 CTCAAGATTT
43076662 TATTTTTCTAAA
1 TATTTTTCTAAA
*
43076674 -ATTTTTATAAA
1 TATTTTTCTAAA
43076685 TATTTTTCTA
1 TATTTTTCTA
43076695 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTTTTCTAAA
Found at i:43079699 original size:22 final size:22
Alignment explanation
Indices: 43079656--43079700 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
43079646 TCATATTAGT
* *
43079656 TTTCATATCATGTTATAGCATA
1 TTTCATATCATATCATAGCATA
* *
43079678 TTTCATATCTTATCATATCATA
1 TTTCATATCATATCATAGCATA
43079700 T
1 T
43079701 CATATTATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTCATATCATATCATAGCATA
Found at i:43081130 original size:46 final size:46
Alignment explanation
Indices: 43081080--43081255 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
43081070 TGGTTGAGCA
43081080 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43081126 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43081171 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
43081219 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43081256 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43081236 original size:93 final size:93
Alignment explanation
Indices: 43081077--43081248 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
43081067 GGATGGTTGA
* * * *
43081077 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
43081142 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43081170 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
43081235 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43081249 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43088138 original size:30 final size:30
Alignment explanation
Indices: 43088092--43088151 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43088082 TTCCCGAGCC
43088092 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
43088122 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
43088152 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:43091244 original size:44 final size:44
Alignment explanation
Indices: 43091195--43091279 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
43091185 GAGCGAATGA
*
43091195 ATGTTTTCGGTGTGGTTCTCTGGATCATTTTATTAGAGACTGCC
1 ATGTTTTCGGTGTGGTTCTATGGATCATTTTATTAGAGACTGCC
43091239 ATGTTTTCGGTGTGGTTCTATGGATCATTTTATTAGAGACT
1 ATGTTTTCGGTGTGGTTCTATGGATCATTTTATTAGAGACT
43091280 TCCCGAAGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.45
Consensus pattern (44 bp):
ATGTTTTCGGTGTGGTTCTATGGATCATTTTATTAGAGACTGCC
Found at i:43095712 original size:30 final size:30
Alignment explanation
Indices: 43095666--43095725 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43095656 TTCCCGAGCC
43095666 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
43095696 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
43095726 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:43106829 original size:45 final size:45
Alignment explanation
Indices: 43106779--43106871 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
43106769 CGGAATTGTA
43106779 CAATAAATATGTACATCTGAAAATCCATCGAAATTCCGATAAATT
1 CAATAAATATGTACATCTGAAAATCCATCGAAATTCCGATAAATT
* * *
43106824 CAATAAATGTGTACCTCTGAAAATCCATCGAAATTCTGATAAATT
1 CAATAAATATGTACATCTGAAAATCCATCGAAATTCCGATAAATT
43106869 CAA
1 CAA
43106872 CGGGATAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (45 bp):
CAATAAATATGTACATCTGAAAATCCATCGAAATTCCGATAAATT
Found at i:43121126 original size:36 final size:35
Alignment explanation
Indices: 43120952--43121335 Score: 249
Period size: 36 Copynumber: 10.5 Consensus size: 35
43120942 ATGCCGACCT
*
43120952 TTAAAAAGGGTTGGGATAGACCTAGT-T-AAGACTAACC
1 TTAAAAA-GGTTGGGATAGA-CTTGTCTAAAG-C-AACC
* * * *
43120989 TTTGAAAAAGGTTGTGATAAACCTATCT-AAGACAACC
1 -TT-AAAAAGGTTGGGATAGACTTGTCTAAAG-CAACC
* ** * * *
43121026 TTAAAAAGGTCGATATAGTTCTTG-CTTAAGGCAACTT
1 TTAAAAAGGTTGGGATAG-ACTTGTC-TAAAGCAAC-C
* *
43121063 TTAAAAACAGTTGGGATAGAGC-CGTCTAAAGCAACC
1 TTAAAAA-GGTTGGGATAGA-CTTGTCTAAAGCAACC
* * *
43121099 TTAAAAAGGTTAGGATCGACATTGTCTAAAACAACC
1 TTAAAAAGGTTGGGATAGAC-TTGTCTAAAGCAACC
* *
43121135 TATAAAAAGGTTGGGATAGACCTGTCTAAGGCAACC
1 T-TAAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
* * *
43121171 TTAAACAA-GTTAGGATAAACTATGTCTAAGGCAACC
1 TTAAA-AAGGTTGGGATAGACT-TGTCTAAAGCAACC
* * * *
43121207 TTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACC
1 -TT-AAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
* * * *
43121244 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTT
1 TTAAAAAGGTTGGGATAGA-CTTGTCTAAAGCAAC-C
* *
43121281 TTAAAAAAGGTTGGGATAGACCTGTTTAAAGCAACC
1 TT-AAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
*
43121317 TTAAAAAAGTTGGGATAGA
1 TTAAAAAGGTTGGGATAGA
43121336 TATTATTTAA
Statistics
Matches: 274, Mismatches: 52, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
34 1 0.00
35 67 0.24
36 74 0.27
37 71 0.26
38 56 0.20
39 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
Found at i:43121169 original size:72 final size:73
Alignment explanation
Indices: 43121064--43121375 Score: 314
Period size: 73 Copynumber: 4.3 Consensus size: 73
43121054 AGGCAACTTT
*
43121064 TAAAAACA-GTTGGGATAGAGCC-GTCTAAAGCAACCTTAAAAAGGTTAGGATCGACATTGTCTA
1 TAAAAA-AGGTTGGGATAGA-CCTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACATTGTCTA
43121127 AAACAACCTA
64 AAACAACCTA
* *
43121137 T-AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAACAA-GTTAGGATAAAC-TATGTCTA
1 TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAA-AAGGTTAGGATAGACAT-TGTCTA
** *
43121199 AGGCAACCTT
64 AAACAACCTA
* * * *
43121209 TAAAAAAGGTCGGAATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCA-TGTCTA
1 TAAAAAAGGTTGGGATAGACCT-GTCTAAAGCAACCTTAAAAAGGTTAGGATAGA-CATTGTCTA
*** * *
43121272 AGGTAACTTT
64 AAACAACCTA
* * * * * *
43121282 TAAAAAAGGTTGGGATAGACCTGTTTAAAGCAACCTTAAAAAAGTTGGGATAGATATTATTTAAA
1 TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACATTGTCTAAA
43121347 ACAACCTA
66 ACAACCTA
*
43121355 TAAAAAAAGATTGGGATAGAC
1 T-AAAAAAGGTTGGGATAGAC
43121376 ACGTATAATA
Statistics
Matches: 201, Mismatches: 26, Indels: 23
0.80 0.10 0.09
Matches are distributed among these distances:
71 4 0.02
72 61 0.30
73 115 0.57
74 21 0.10
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (73 bp):
TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACATTGTCTAAA
ACAACCTA
Found at i:43121270 original size:145 final size:145
Alignment explanation
Indices: 43120952--43121329 Score: 396
Period size: 145 Copynumber: 2.6 Consensus size: 145
43120942 ATGCCGACCT
* * * *
43120952 TTAAAAAGGGTTGGGATAGACC-TAGT-TAAGACTAACCTTTGAAAAAGGTTGTGATAAACCTAT
1 TTAAAAA-GGTTGGGATAGACCAT-GTCTAAGAC-AACCTTTAAAAAAGGTTGGGATAGACCTGT
* * * * * * *
43121015 CTAAGACAACCTTAAAAAGGTCGATATAGTTCTTGCTTAAGGCAACTTTTAAAAACAGTTGGGAT
63 CTAAGGCAACCTTAAAAAGTTGGATATAG-ACTTGCTTAAGGCAACCTTTAAAAACAGTCGGAAT
43121080 AGAGCCGTCTAAAGCAACC
127 AGAGCCGTCTAAAGCAACC
* * * *
43121099 TTAAAAAGGTTAGGATCGA-CATTGTCTAAAACAACCTAT-AAAAAGGTTGGGATAGACCTGTCT
1 TTAAAAAGGTTGGGATAGACCA-TGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
43121162 AAGGCAACCTTAAACAAGTTAGGATA-A-ACTATG-TCTAAGGCAACCTTTAAAAA-AGGTCGGA
65 AAGGCAACCTTAAA-AAGTT-GGATATAGACT-TGCT-TAAGGCAACCTTTAAAAACA-GTCGGA
*
43121223 ATAGA-CTCGTCTAAGGCAACC
125 ATAGAGC-CGTCTAAAGCAACC
** * *
43121244 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTTTTAAAAAAGGTTGGGATAGACCTGTTTA
1 TTAAAAAGGTTGGGATAGACCATGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
*
43121309 AAGCAACCTTAAAAAAGTTGG
66 AGGCAACCTT-AAAAAGTTGG
43121330 GATAGATATT
Statistics
Matches: 195, Mismatches: 24, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
144 5 0.03
145 107 0.55
146 63 0.32
147 20 0.10
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (145 bp):
TTAAAAAGGTTGGGATAGACCATGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
AGGCAACCTTAAAAAGTTGGATATAGACTTGCTTAAGGCAACCTTTAAAAACAGTCGGAATAGAG
CCGTCTAAAGCAACC
Found at i:43121345 original size:36 final size:35
Alignment explanation
Indices: 43121063--43121374 Score: 232
Period size: 36 Copynumber: 8.5 Consensus size: 35
43121053 AAGGCAACTT
* *
43121063 TTAAAAACAGTTGGGATAGAGCCGTCTAAAGCAACC
1 TTAAAAA-AGTTGGGATAGAACTGTCTAAAGCAACC
* * * * *
43121099 TTAAAAAGGTTAGGATCGACATTGTCTAAAACAACC
1 TTAAAAAAGTTGGGATAGA-ACTGTCTAAAGCAACC
* * *
43121135 TATAAAAAGGTTGGGATAGACCTGTCTAAGGCAACC
1 T-TAAAAAAGTTGGGATAGAACTGTCTAAAGCAACC
* * *
43121171 TTAAACAAGTTAGGATA-AACTATGTCTAAGGCAACC
1 TTAAAAAAGTTGGGATAGAAC--TGTCTAAAGCAACC
* * *
43121207 TTTAAAAAAGGTCGGAATAG-ACTCGTCTAAGGCAACC
1 -TTAAAAAA-GTTGGGATAGAACT-GTCTAAAGCAACC
* * * * *
43121244 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTT
1 TTAAAAAAGTTGGGATAGAAC-TGTCTAAAGCAAC-C
* *
43121281 TTAAAAAAGGTTGGGATAGACCTGTTTAAAGCAACC
1 TTAAAAAA-GTTGGGATAGAACTGTCTAAAGCAACC
* * * *
43121317 TTAAAAAAGTTGGGATAGATATTATTTAAAACAACC
1 TTAAAAAAGTTGGGATAGA-ACTGTCTAAAGCAACC
43121353 TATAAAAAAAGATTGGGATAGA
1 T-T-AAAAAAG-TTGGGATAGA
43121375 CACGTATAAT
Statistics
Matches: 224, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
34 2 0.01
35 41 0.18
36 88 0.39
37 55 0.25
38 28 0.12
39 10 0.04
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.25
Consensus pattern (35 bp):
TTAAAAAAGTTGGGATAGAACTGTCTAAAGCAACC
Found at i:43122259 original size:99 final size:99
Alignment explanation
Indices: 43122145--43122384 Score: 471
Period size: 99 Copynumber: 2.4 Consensus size: 99
43122135 TTTTTTAAAA
43122145 AAATGTTACTGTATGCAGGTTTTCTCAGTCAGATTAACGAATGGTCTGTTTTGCCTTGTTGTAAA
1 AAATGTTACTGTATGCAGGTTTTCTCAGTCAGATTAACGAATGGTCTGTTTTGCCTTGTTGTAAA
43122210 AATAAAATTTAAGTAACAATTAGAATCTTTTTTT
66 AATAAAATTTAAGTAACAATTAGAATCTTTTTTT
43122244 AAATGTTACTGTATGCAGGTTTTCTCAGTCAGATTAACGAATGGTCTGTTTTGCCTTGTTGTAAA
1 AAATGTTACTGTATGCAGGTTTTCTCAGTCAGATTAACGAATGGTCTGTTTTGCCTTGTTGTAAA
43122309 AATAAAATTTAAGTAACAATTAGAATCTTTTTTT
66 AATAAAATTTAAGTAACAATTAGAATCTTTTTTT
*
43122343 AAATGTTACTGTATGCAGGTTTTCTCAGCCAGATTAACGAAT
1 AAATGTTACTGTATGCAGGTTTTCTCAGTCAGATTAACGAAT
43122385 TGTTAAATGA
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 140 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (99 bp):
AAATGTTACTGTATGCAGGTTTTCTCAGTCAGATTAACGAATGGTCTGTTTTGCCTTGTTGTAAA
AATAAAATTTAAGTAACAATTAGAATCTTTTTTT
Found at i:43124449 original size:47 final size:47
Alignment explanation
Indices: 43124380--43124500 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
43124370 TAAATAATGT
* *
43124380 ATACTTTACCCGGGTAAAGTATGCATTATTAGTGAATCTGCTAATAC
1 ATACTTTATCCGGGTAAAGTATGCATAATTAGTGAATCTGCTAATAC
43124427 ATACTTTATCCGGGTAAAGTATGCATAATTAGTGAATCTGCTAATAC
1 ATACTTTATCCGGGTAAAGTATGCATAATTAGTGAATCTGCTAATAC
*
43124474 ATACTTTATCTGGGTAAAGTATGCATA
1 ATACTTTATCCGGGTAAAGTATGCATA
43124501 CATTCTTAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (47 bp):
ATACTTTATCCGGGTAAAGTATGCATAATTAGTGAATCTGCTAATAC
Found at i:43124975 original size:15 final size:15
Alignment explanation
Indices: 43124943--43125000 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
43124933 CACAAACCCT
* *
43124943 AAATCTCAAGACCATA
1 AAATCTTAA-ACCTTA
43124959 AAATCTTAAACCTTA
1 AAATCTTAAACCTTA
** *
43124974 AAATAATAGACCTTA
1 AAATCTTAAACCTTA
*
43124989 AAATCCTAAACC
1 AAATCTTAAACC
43125001 ACAAACCATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 26 0.76
16 8 0.24
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.24
Consensus pattern (15 bp):
AAATCTTAAACCTTA
Found at i:43125139 original size:22 final size:22
Alignment explanation
Indices: 43125114--43125157 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
43125104 AGATTACTCG
43125114 CAAACCCATAATCACAAAACCC
1 CAAACCCATAATCACAAAACCC
* *
43125136 CAAATCCATAATCATAAAACCC
1 CAAACCCATAATCACAAAACCC
43125158 TAAAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (22 bp):
CAAACCCATAATCACAAAACCC
Found at i:43125167 original size:22 final size:22
Alignment explanation
Indices: 43125119--43125168 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
43125109 ACTCGCAAAC
*
43125119 CCATAATCACAAAACCCCAAAT
1 CCATAATCACAAAACCCAAAAT
*
43125141 CCATAATCATAAAACCCTAAAAT
1 CCATAATCACAAAACCC-AAAAT
43125164 -CATAA
1 CCATAA
43125169 ACCCCAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (22 bp):
CCATAATCACAAAACCCAAAAT
Found at i:43125185 original size:22 final size:22
Alignment explanation
Indices: 43125152--43125194 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
43125142 CATAATCATA
* *
43125152 AAACCCTAAAATCATAAACCCC
1 AAACCCTAAAATAAAAAACCCC
43125174 AAACCCGT-AAATAAAAAACCC
1 AAACCC-TAAAATAAAAAACCC
43125195 TAAAACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.53, C:0.33, G:0.02, T:0.12
Consensus pattern (22 bp):
AAACCCTAAAATAAAAAACCCC
Found at i:43125739 original size:132 final size:132
Alignment explanation
Indices: 43125502--43126003 Score: 941
Period size: 132 Copynumber: 3.8 Consensus size: 132
43125492 CTGACAAGTG
* * *
43125502 TATCCCAACACTTAGGAAAGTGTCGCCCCAAAACTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
43125567 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
66 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
43125632 TC
131 TC
43125634 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
43125699 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
66 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
43125764 TC
131 TC
43125766 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
43125831 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
66 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
43125896 TC
131 TC
* *
43125898 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
1 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
* *
43125963 TTATTCAAGCGTTGCCTTAGGCATACATATACCAACCCTTA
66 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTA
43126004 GGAAAATGTC
Statistics
Matches: 363, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 363 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (132 bp):
TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
TC
Found at i:43126089 original size:91 final size:92
Alignment explanation
Indices: 43125898--43126094 Score: 290
Period size: 91 Copynumber: 2.2 Consensus size: 92
43125888 AAGCGTAGTC
* *
43125898 TATCCCAACACTTAGAAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
1 TATCCCAACCCTTAGAAAAGTGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
43125963 TTATTCAAGCGTTGCCTTAGGCATACA
66 TTATTCAAGCGTTGCCTTAGGCATACA
* * * *
43125990 TATACCAACCCTTAGGAAAA-TGTCACCACAAAAGTGTCGTCTTAGGACTACA-TAAAGGCAACT
1 TATCCCAACCCTTA-GAAAAGTGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACT
* *
43126053 CTTATTTAAGCGTTGCTTTAGGCATACA
65 CTTATTCAAGCGTTGCCTTAGGCATACA
*
43126081 TCTCCCAACCCTTA
1 TATCCCAACCCTTA
43126095 TACATAAAGT
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
91 47 0.50
92 42 0.45
93 5 0.05
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (92 bp):
TATCCCAACCCTTAGAAAAGTGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
TTATTCAAGCGTTGCCTTAGGCATACA
Found at i:43126505 original size:91 final size:92
Alignment explanation
Indices: 43126313--43126509 Score: 297
Period size: 92 Copynumber: 2.2 Consensus size: 92
43126303 AAGCATAGTC
* * *
43126313 TATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
1 TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
43126378 TTATTCAAGCGTTGCCTTAGGCATACA
66 TTATTCAAGCGTTGCCTTAGGCATACA
* * *
43126405 TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACA-TAAAGGCAACTC
1 TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
* *
43126469 TTATTTAAGCGTTGCTTTAGGCATACA
66 TTATTCAAGCGTTGCCTTAGGCATACA
* *
43126496 TCTCCCAACCCTTA
1 TATACCAACCCTTA
43126510 TACATAAAGT
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 47 0.49
92 48 0.51
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (92 bp):
TATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTC
TTATTCAAGCGTTGCCTTAGGCATACA
Found at i:43126627 original size:415 final size:415
Alignment explanation
Indices: 43125857--43126685 Score: 1631
Period size: 415 Copynumber: 2.0 Consensus size: 415
43125847 TTAGGCATAC
* *
43125857 ATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAGTCTATCCCAACACTTAGAAAAGTGTC
1 ATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATACCAACACTTAGAAAAGTGTC
43125922 GCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
66 GCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
43125987 ACATATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACATAAAGGCAAC
131 ACATATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACATAAAGGCAAC
43126052 TCTTATTTAAGCGTTGCTTTAGGCATACATCTCCCAACCCTTATACATAAAGTTGGCTAAATCCC
196 TCTTATTTAAGCGTTGCTTTAGGCATACATCTCCCAACCCTTATACATAAAGTTGGCTAAATCCC
43126117 AGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAGGACTATACTTTTGCCAACTCTTATTAA
261 AGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAGGACTATACTTTTGCCAACTCTTATTAA
43126182 AGCGTTGCTTTAGGCTTGCATATCCCAACACTTATGAAAGAGTTGGCTAAAGCGTATTTTGGCCA
326 AGCGTTGCTTTAGGCTTGCATATCCCAACACTTATGAAAGAGTTGGCTAAAGCGTATTTTGGCCA
43126247 GTCTATCCCAACACTTAGGAAAGTT
391 GTCTATCCCAACACTTAGGAAAGTT
*
43126272 ATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATACCAACACTTAGGAAAGTGTC
1 ATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATACCAACACTTAGAAAAGTGTC
43126337 GCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
66 GCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
43126402 ACATATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACATAAAGGCAAC
131 ACATATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACATAAAGGCAAC
43126467 TCTTATTTAAGCGTTGCTTTAGGCATACATCTCCCAACCCTTATACATAAAGTTGGCTAAATCCC
196 TCTTATTTAAGCGTTGCTTTAGGCATACATCTCCCAACCCTTATACATAAAGTTGGCTAAATCCC
43126532 AGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAGGACTATACTTTTGCCAACTCTTATTAA
261 AGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAGGACTATACTTTTGCCAACTCTTATTAA
43126597 AGCGTTGCTTTAGGCTTGCATATCCCAACACTTATGAAAGAGTTGGCTAAAGCGTATTTTGGCCA
326 AGCGTTGCTTTAGGCTTGCATATCCCAACACTTATGAAAGAGTTGGCTAAAGCGTATTTTGGCCA
43126662 GTCTATCCCAACACTTAGGAAAGT
391 GTCTATCCCAACACTTAGGAAAGT
43126686 GTTGCCAAAT
Statistics
Matches: 411, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
415 411 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (415 bp):
ATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATACCAACACTTAGAAAAGTGTC
GCCACAAAAGTGTCGTCTTAGGACAACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCAT
ACATATACCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACATAAAGGCAAC
TCTTATTTAAGCGTTGCTTTAGGCATACATCTCCCAACCCTTATACATAAAGTTGGCTAAATCCC
AGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAGGACTATACTTTTGCCAACTCTTATTAA
AGCGTTGCTTTAGGCTTGCATATCCCAACACTTATGAAAGAGTTGGCTAAAGCGTATTTTGGCCA
GTCTATCCCAACACTTAGGAAAGTT
Found at i:43126949 original size:10 final size:10
Alignment explanation
Indices: 43126930--43126972 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
43126920 TTATAAAATT
43126930 TAAAAATAAA
1 TAAAAATAAA
*
43126940 TAAAAGTAAA
1 TAAAAATAAA
**
43126950 TAAAAAT-TT
1 TAAAAATAAA
43126959 TAAAAATAAA
1 TAAAAATAAA
43126969 TAAA
1 TAAA
43126973 GTGGGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:43128503 original size:20 final size:20
Alignment explanation
Indices: 43128480--43128526 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
43128470 CTATTCAAAC
*
43128480 AATATTACT-TGAATAGTTAT
1 AATATTA-TATGAATAGCTAT
43128500 AATATTATATGAATAGCTAT
1 AATATTATATGAATAGCTAT
43128520 ATATATT
1 A-ATATT
43128527 TTTAAAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (20 bp):
AATATTATATGAATAGCTAT
Found at i:43133093 original size:16 final size:16
Alignment explanation
Indices: 43133072--43133102 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43133062 AAGAAACGAT
*
43133072 AAATATGTATATATAA
1 AAATATGTACATATAA
43133088 AAATATGTACATATA
1 AAATATGTACATATA
43133103 TATGGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATATGTACATATAA
Found at i:43133663 original size:3 final size:3
Alignment explanation
Indices: 43133617--43133651 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
43133607 AACATAAACA
43133617 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43133652 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:43136163 original size:87 final size:87
Alignment explanation
Indices: 43135230--43136118 Score: 1760
Period size: 87 Copynumber: 10.2 Consensus size: 87
43135220 GACCTACTCT
* *
43135230 GCTGTAACCTCAGAGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135295 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135317 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135382 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135404 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135469 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135491 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135556 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135578 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135643 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135665 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135730 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135752 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135817 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135839 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135904 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43135926 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43135991 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43136013 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
43136078 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
43136100 GCTGTAATCTCAGGGAGAT
1 GCTGTAATCTCAGGGAGAT
43136119 GAGATCTCTG
Statistics
Matches: 800, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 800 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGCTCCTTTATTTTAATCCATTCCACTGTAACTTCAGGGAGATAG
GATAGTGTCTTCGATCTGCTCC
Found at i:43136204 original size:46 final size:45
Alignment explanation
Indices: 43135302--43136382 Score: 275
Period size: 44 Copynumber: 24.8 Consensus size: 45
43135292 TAGGATAGTG
* * * **
43135302 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135347 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135388 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135434 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135475 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135521 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135562 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135608 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135649 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135695 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135736 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135782 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135823 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135869 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135910 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43135956 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * **
43135997 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGCTCCTTTA-
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAT
* *** * *
43136043 T-TTTAATCCATTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * *
43136084 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
43136128 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
43136175 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
43136218 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
43136255 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
43136298 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
43136345 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
43136383 CCTGTATTAT
Statistics
Matches: 721, Mismatches: 218, Indels: 193
0.64 0.19 0.17
Matches are distributed among these distances:
36 2 0.00
37 1 0.00
38 1 0.00
39 22 0.03
40 2 0.00
41 33 0.05
42 10 0.01
43 244 0.34
44 314 0.44
45 11 0.02
46 78 0.11
47 3 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:43145430 original size:42 final size:41
Alignment explanation
Indices: 43145371--43145451 Score: 135
Period size: 42 Copynumber: 2.0 Consensus size: 41
43145361 TTCTAGTTCT
*
43145371 GTTATCCGGACCTTCAACTCCGTCTTCTCGTCTTGGCAANCA
1 GTTATCCGGACCTTCAACTCCGTATTCTCGTCTTGGCAA-CA
*
43145413 GTTATCTGGACCTTCAACTCCGTATTCTCGTCTTGGCAA
1 GTTATCCGGACCTTCAACTCCGTATTCTCGTCTTGGCAA
43145452 TCTAGTAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.33
Consensus pattern (41 bp):
GTTATCCGGACCTTCAACTCCGTATTCTCGTCTTGGCAACA
Found at i:43152399 original size:8 final size:8
Alignment explanation
Indices: 43152386--43152427 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
43152376 TGATATTTTA
43152386 TAATTATT
1 TAATTATT
43152394 TAATTATT
1 TAATTATT
**
43152402 TAATTAGA
1 TAATTATT
43152410 TAATTA-T
1 TAATTATT
*
43152417 TATTTATT
1 TAATTATT
43152425 TAA
1 TAA
43152428 CATTTTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (8 bp):
TAATTATT
Found at i:43152452 original size:8 final size:8
Alignment explanation
Indices: 43152441--43152465 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43152431 TTTAATAATA
43152441 TATTTTAT
1 TATTTTAT
43152449 TATTTTAT
1 TATTTTAT
43152457 TATTTTAT
1 TATTTTAT
43152465 T
1 T
43152466 TAGCCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43154296 original size:46 final size:46
Alignment explanation
Indices: 43154244--43154646 Score: 628
Period size: 46 Copynumber: 8.7 Consensus size: 46
43154234 AGTGTACTCT
43154244 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43154290 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43154336 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43154382 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43154428 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
43154474 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
43154520 GTGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
43154566 GTGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
43154613 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
43154647 CACTATGGAA
Statistics
Matches: 341, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 301 0.88
47 40 0.12
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:43157217 original size:105 final size:105
Alignment explanation
Indices: 43157096--43157304 Score: 267
Period size: 105 Copynumber: 2.0 Consensus size: 105
43157086 TGCATTATGG
*
43157096 GTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACGATATCCT-CAGCTTCAGAGA
1 GTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACGATAT-CTACAGCTTCAGAAA
*
43157160 CCATTCCTTCCTTGCAATGTGCATCAACCAATATACTATAT
65 CCATTCCTTCCTTGCAAAGTGCATCAACCAATATACTATAT
* * * * * * * * *
43157201 GTAACAACATTGGGCTCAATGCCTTGCTTTCTCATTGTGTCAGCGATCTCTATAGCTTTAGAAAT
1 GTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACGATATCTACAGCTTCAGAAAC
* * * *
43157266 CGTTCCTTCCTTGCAAAGTGCATCGATCAATATATTATA
66 CATTCCTTCCTTGCAAAGTGCATCAACCAATATACTATA
43157305 CGTGACAATA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 2 0.02
105 86 0.98
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (105 bp):
GTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACGATATCTACAGCTTCAGAAAC
CATTCCTTCCTTGCAAAGTGCATCAACCAATATACTATAT
Found at i:43171960 original size:32 final size:32
Alignment explanation
Indices: 43171921--43171985 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
43171911 GCTGGCTAAT
43171921 AATTAATTTTGATGACTAAATATATAATTTGA
1 AATTAATTTTGATGACTAAATATATAATTTGA
*
43171953 AATTAATTTTGATGTCTAAATATATAATTTGA
1 AATTAATTTTGATGACTAAATATATAATTTGA
43171985 A
1 A
43171986 GCATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (32 bp):
AATTAATTTTGATGACTAAATATATAATTTGA
Found at i:43175377 original size:54 final size:54
Alignment explanation
Indices: 43175295--43175401 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
43175285 ATAATCGTTC
43175295 ATCTTTCTGTGATATTGCAAGTATTTACAAACAAGAGTTCTAAGACAATTTGCT
1 ATCTTTCTGTGATATTGCAAGTATTTACAAACAAGAGTTCTAAGACAATTTGCT
*
43175349 ATCTTTCTGTGGTATTGCAAGTATTTACAAACAAGAGTTCTAAGACAATTTGC
1 ATCTTTCTGTGATATTGCAAGTATTTACAAACAAGAGTTCTAAGACAATTTGC
43175402 AATACCAACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (54 bp):
ATCTTTCTGTGATATTGCAAGTATTTACAAACAAGAGTTCTAAGACAATTTGCT
Found at i:43177212 original size:15 final size:15
Alignment explanation
Indices: 43177192--43177221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43177182 ACTTTAGGTA
*
43177192 ACTTTAGTTTTTTTT
1 ACTTTACTTTTTTTT
43177207 ACTTTACTTTTTTTT
1 ACTTTACTTTTTTTT
43177222 GTTTTTAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.73
Consensus pattern (15 bp):
ACTTTACTTTTTTTT
Found at i:43191018 original size:18 final size:18
Alignment explanation
Indices: 43190995--43191033 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
43190985 NNNNNNNNNN
*
43190995 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
43191013 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
43191031 GTA
1 GTA
43191034 AACGGTCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:43191595 original size:11 final size:11
Alignment explanation
Indices: 43191579--43191610 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
43191569 AAGTATGGGT
43191579 AGGTATGGGAA
1 AGGTATGGGAA
*
43191590 AGGTATGGGCA
1 AGGTATGGGAA
43191601 AGGTATGGGA
1 AGGTATGGGA
43191611 TATATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:43192747 original size:26 final size:28
Alignment explanation
Indices: 43192710--43192762 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
43192700 AACAATCATT
43192710 GCATAGTCATGAATGAAGCAAA-GAAAA
1 GCATAGTCATGAATGAAGCAAATGAAAA
*
43192737 GCAT-GTCATGAATGAAGGAAATGAAA
1 GCATAGTCATGAATGAAGCAAATGAAA
43192763 GAAAATTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.49, C:0.09, G:0.25, T:0.17
Consensus pattern (28 bp):
GCATAGTCATGAATGAAGCAAATGAAAA
Found at i:43192862 original size:40 final size:40
Alignment explanation
Indices: 43192807--43192888 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
43192797 TGATAGACCT
* * *
43192807 TGGAGATCAAAACAAATTAAAAGCAGTGAAGAAGAAAGAG
1 TGGAGATCAAAACAAAATAAAAACAGTGAAGAAAAAAGAG
*
43192847 TGGAGATGAAAACAAAATAAAAACAGTGAAGAAAAAAGAG
1 TGGAGATCAAAACAAAATAAAAACAGTGAAGAAAAAAGAG
43192887 TG
1 TG
43192889 TTGTGGGTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (40 bp):
TGGAGATCAAAACAAAATAAAAACAGTGAAGAAAAAAGAG
Found at i:43193316 original size:3 final size:3
Alignment explanation
Indices: 43193308--43193332 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43193298 TAACAGCAAC
43193308 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
43193333 GGAAAGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:43193751 original size:15 final size:15
Alignment explanation
Indices: 43193731--43193765 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
43193721 ATAGTCACAA
43193731 TTTCATCACCAATGT
1 TTTCATCACCAATGT
43193746 TTTCATCACCAATGT
1 TTTCATCACCAATGT
43193761 TTTCA
1 TTTCA
43193766 AAAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (15 bp):
TTTCATCACCAATGT
Found at i:43205142 original size:39 final size:39
Alignment explanation
Indices: 43205088--43205164 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
43205078 AGAGCTGGAT
*
43205088 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
43205127 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
43205165 TGATACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:43211896 original size:17 final size:18
Alignment explanation
Indices: 43211865--43211898 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43211855 TTAATAAAGA
*
43211865 TTCAATATAATTAAATAT
1 TTCAATATAAATAAATAT
43211883 TTCAATA-AAATAAATA
1 TTCAATATAAATAAATA
43211899 ATATAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCAATATAAATAAATAT
Found at i:43215940 original size:18 final size:19
Alignment explanation
Indices: 43215904--43216029 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
43215894 AATCATATCT
**
43215904 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
43215923 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
43215941 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
43215958 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
43215976 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
*
43215993 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
43216012 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
43216030 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.01
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43215957 original size:17 final size:18
Alignment explanation
Indices: 43215916--43216029 Score: 160
Period size: 17 Copynumber: 6.3 Consensus size: 18
43215906 TAAGATTATA
43215916 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
43215934 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
43215951 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
* *
43215969 AATCATATCTAAGATT-A
1 TATCATATCTAAGATTGC
43215986 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
43216004 ATATCACATCTAAGATTGC
1 -TATCATATCTAAGATTGC
43216023 ATATCAT
1 -TATCAT
43216030 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
17 31 0.36
18 31 0.36
19 23 0.27
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:43215959 original size:35 final size:35
Alignment explanation
Indices: 43215916--43216021 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
43215906 TAAGATTATA
43215916 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
*
43215951 TATCATATCTAAGATTGCAATCATATCTAAGATTA
1 TATCATATCTAAGATTGCAATCATATCTAAGATTG
*
43215986 TATCATATCTAAGATTGCATATCACATCTAAGATTG
1 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
43216022 CATATCATTG
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 53 0.79
36 14 0.21
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
TATCATATCTAAGATTGCAATCATATCTAAGATTG
Found at i:43216186 original size:21 final size:20
Alignment explanation
Indices: 43216148--43216187 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43216138 TTGGACTTCG
**
43216148 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
43216168 TTTTTATTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
43216188 TCTGGGTCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:43216676 original size:43 final size:42
Alignment explanation
Indices: 43216619--43217220 Score: 304
Period size: 43 Copynumber: 13.8 Consensus size: 42
43216609 AGATCTGCAT
* *
43216619 TCTTCACCCTGCTCCTTGCAAACTCAAGGACGCCATGATGAAA
1 TCTTCAACCTGCTCCTTGCAAACTC-AGGACGCCATGATGATA
* * * *
43216662 TCTTTAACCTGCTCCCTGCAAACTCAGGAACGCCATGCTAATA
1 TCTTCAACCTGCTCCTTGCAAACTCAGG-ACGCCATGATGATA
* * * * ** * *
43216705 TCTTCGACCTGCTTCAC-TGCGAACTCAGGAAGTCAAAATCTGCTT
1 TCTTCAACCTGC-TC-CTTGCAAACTCAGGACGCCATGA--TGATA
* * *
43216750 TCTTCAACCTGCCCCTTGCAAACTCAAGGACGCCATGCTGAAA
1 TCTTCAACCTGCTCCTTGCAAACTC-AGGACGCCATGATGATA
* *
43216793 TCTTCAACCTGCTTCC-TGCAAACTCAGAAACGCCATGCTGATA
1 TCTTCAACCTGC-TCCTTGCAAACTCAG-GACGCCATGATGATA
* * * * * * * *
43216836 TCTTCGATCTGCTTTACTGTG--AACTCAGGAAGTCAAGATCTGCTT
1 TCTTCAACCTGC--TCCT-TGCAAACTCAGGACGCCATGA--TGATA
* *
43216881 TCTTCAACCTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAA
1 TCTTCAACCTGCTCCTTGCAAACTC-AGGACGCCATGATGATA
*
43216924 TCTTCAACCTGCTTCC-TGCAAACTCAGGGACGCCAT-ACTGAAA
1 TCTTCAACCTGC-TCCTTGCAAACTCA-GGACGCCATGA-TGATA
* ** * * * * * * *
43216967 TTTTTGATCTACTTCAC-TGCAAACTCAGGAAGTCAAGATCTGCTT
1 TCTTCAACCTGC-TC-CTTGCAAACTCAGGACGCCATGA--TGATA
* *
43217012 TCTTCAACCTGCTCCTTGCAAACTCAAGGATGCCATGCTGATA
1 TCTTCAACCTGCTCCTTGCAAACTC-AGGACGCCATGATGATA
* * * * * *
43217055 TCTTCAACCTGCTTCTTGCAAATTCAGAAATGTCATGCTGATA
1 TCTTCAACCTGCTCCTTGCAAACTCAG-GACGCCATGATGATA
** * * * * * * * * *
43217098 TCTTTGATCTGCT-TTACTGCGAACTCAGAAAGTCAAGATCTGCTT
1 TCTTCAACCTGCTCCT--TGCAAACTCAGGACGCCATGA--TGATA
* * *
43217143 TCTTCGACCTGCTCCTTGCAAACTCAAGGACGCCATGTTGAAA
1 TCTTCAACCTGCTCCTTGCAAACTC-AGGACGCCATGATGATA
43217186 TCTTCAACCTGCTTCC-TGCAAACTCAGGAACGCCA
1 TCTTCAACCTGC-TCCTTGCAAACTCAGG-ACGCCA
43217221 CGCTGAAGTT
Statistics
Matches: 423, Mismatches: 102, Indels: 68
0.71 0.17 0.11
Matches are distributed among these distances:
42 14 0.03
43 240 0.57
44 85 0.20
45 81 0.19
46 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (42 bp):
TCTTCAACCTGCTCCTTGCAAACTCAGGACGCCATGATGATA
Found at i:43216886 original size:88 final size:87
Alignment explanation
Indices: 43216793--43217215 Score: 269
Period size: 88 Copynumber: 4.9 Consensus size: 87
43216783 CATGCTGAAA
* * *
43216793 TCTTCAACCTGCTTCCTGCAAACTCAGAAACGCCATGCTGATATCTTCGATCTGCTTTACTGTGA
1 TCTTCAACCTGCTTCCTGCAAACTCAGAAACGCCATGCTGATATCTTCAACCTGCTTTACTGCGA
*
43216858 ACTCAGGAAGTCAAGATCTGCTT
66 ACTCAGGAAGTCAAGA-CTGATT
* * *
43216881 TCTTCAACCTGC-TCCTTGCAAACTCA-AGGACGCCATGCTGAAATCTTCAACCTGC-TTCCTGC
1 TCTTCAACCTGCTTCC-TGCAAACTCAGA-AACGCCATGCTGATATCTTCAACCTGCTTTACTGC
* * * *
43216943 AAACTCAGGGACG-CCATACTGAAATT
64 GAACTCA-GGAAGTCAAGACTG--ATT
* * * * * * * * *
43216969 T-TT-GATCTACTTCACTGCAAACTCAGGAA-GTCAAGATCTGCTTTCTTCAACCTGC--TCCTT
1 TCTTCAACCTGCTTC-CTGCAAACTCAGAAACGCCATG--CTGATATCTTCAACCTGCTTTAC-T
* * * * *
43217029 GCAAACTCAAGGATGCCATG-CTGATA
62 GCGAACTC-AGGAAGTCAAGACTGATT
* * * * ** *
43217055 TCTTCAACCTGCTTCTTGCAAATTCAGAAATGTCATGCTGATATCTTTGATCTGCTTTACTGCGA
1 TCTTCAACCTGCTTCCTGCAAACTCAGAAACGCCATGCTGATATCTTCAACCTGCTTTACTGCGA
* *
43217120 ACTCAGAAAGTCAAGATCTGCTT
66 ACTCAGGAAGTCAAGA-CTGATT
* * * * *
43217143 TCTTCGACCTGC-TCCTTGCAAACTCA-AGGACGCCATGTTGAAATCTTCAACCTGC-TTCCTGC
1 TCTTCAACCTGCTTCC-TGCAAACTCAGA-AACGCCATGCTGATATCTTCAACCTGCTTTACTGC
*
43217205 AAACTCAGGAA
64 GAACTCAGGAA
43217216 CGCCACGCTG
Statistics
Matches: 253, Mismatches: 60, Indels: 45
0.71 0.17 0.13
Matches are distributed among these distances:
86 34 0.13
87 76 0.30
88 141 0.56
89 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (87 bp):
TCTTCAACCTGCTTCCTGCAAACTCAGAAACGCCATGCTGATATCTTCAACCTGCTTTACTGCGA
ACTCAGGAAGTCAAGACTGATT
Found at i:43217226 original size:131 final size:131
Alignment explanation
Indices: 43216562--43217226 Score: 999
Period size: 131 Copynumber: 5.1 Consensus size: 131
43216552 GCACAGGGAT
* * * * *
43216562 GCCATGCTGAAAT-TTTCGATCTGCTTCACTACAAACTCAGGAAGTCAAGATCTGCATTCTTCAC
1 GCCATGCTGATATCTTT-GATCTGCTTCACTGCGAACTCAGGAAGTCAAGATCTGCTTTCTTCAA
* * *
43216626 CCTGCTCCTTGCAAACTCAAGGACGCCATGATGAAATCTTTAACCTGCTCCCTGCAAACTCAGGA
65 CCTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGA
43216691 AC
130 AC
* * * *
43216693 GCCATGCTAATATCTTCGACCTGCTTCACTGCGAACTCAGGAAGTCAAAATCTGCTTTCTTCAAC
1 GCCATGCTGATATCTTTGATCTGCTTCACTGCGAACTCAGGAAGTCAAGATCTGCTTTCTTCAAC
* *
43216758 CTGCCCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGAAA
66 CTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGAA
43216823 C
131 C
* * *
43216824 GCCATGCTGATATCTTCGATCTGCTTTACTGTGAACTCAGGAAGTCAAGATCTGCTTTCTTCAAC
1 GCCATGCTGATATCTTTGATCTGCTTCACTGCGAACTCAGGAAGTCAAGATCTGCTTTCTTCAAC
*
43216889 CTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGGA
66 CTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGAA
43216954 C
131 C
* * * * *
43216955 GCCATACTGAAATTTTTGATCTACTTCACTGCAAACTCAGGAAGTCAAGATCTGCTTTCTTCAAC
1 GCCATGCTGATATCTTTGATCTGCTTCACTGCGAACTCAGGAAGTCAAGATCTGCTTTCTTCAAC
* * * * *
43217020 CTGCTCCTTGCAAACTCAAGGATGCCATGCTGATATCTTCAACCTGCTTCTTGCAAATTCAGAAA
66 CTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGAA
*
43217085 T
131 C
* * * *
43217086 GTCATGCTGATATCTTTGATCTGCTTTACTGCGAACTCAGAAAGTCAAGATCTGCTTTCTTCGAC
1 GCCATGCTGATATCTTTGATCTGCTTCACTGCGAACTCAGGAAGTCAAGATCTGCTTTCTTCAAC
*
43217151 CTGCTCCTTGCAAACTCAAGGACGCCATGTTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGAA
66 CTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGAA
43217216 C
131 C
*
43217217 GCCACGCTGA
1 GCCATGCTGA
43217227 AGTTTTCGAT
Statistics
Matches: 478, Mismatches: 55, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
131 476 1.00
132 2 0.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (131 bp):
GCCATGCTGATATCTTTGATCTGCTTCACTGCGAACTCAGGAAGTCAAGATCTGCTTTCTTCAAC
CTGCTCCTTGCAAACTCAAGGACGCCATGCTGAAATCTTCAACCTGCTTCCTGCAAACTCAGGAA
C
Found at i:43218184 original size:8 final size:7
Alignment explanation
Indices: 43218167--43218243 Score: 79
Period size: 7 Copynumber: 11.1 Consensus size: 7
43218157 GGCCTCTCCA
43218167 TTTTCTT
1 TTTTCTT
43218174 TTTTCCTT
1 TTTT-CTT
43218182 TTTTC-T
1 TTTTCTT
*
43218188 TTTTCCT
1 TTTTCTT
43218195 TTTTC-T
1 TTTTCTT
43218201 TTTTCTT
1 TTTTCTT
43218208 TTTCTCTT
1 TTT-TCTT
*
43218216 TATT-TT
1 TTTTCTT
*
43218222 TTTTATT
1 TTTTCTT
*
43218229 TTTTATT
1 TTTTCTT
43218236 TTTTCTT
1 TTTTCTT
43218243 T
1 T
43218244 GAAGGTCACA
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
6 17 0.27
7 32 0.52
8 13 0.21
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:43218210 original size:6 final size:6
Alignment explanation
Indices: 43218167--43218243 Score: 61
Period size: 6 Copynumber: 12.3 Consensus size: 6
43218157 GGCCTCTCCA
* *
43218167 TTTTCTT TTTTCCTT TTTTCT TTTTCCT TTTTCT TTTTCT TTTTCT CTTTAT
1 TTTTC-T TTTT-C-T TTTTCT TTTT-CT TTTTCT TTTTCT TTTTCT TTTTCT
43218219 TTTT-T TTATT-T TTTAT-T TTTTCT TT
1 TTTTCT TT-TTCT TTT-TCT TTTTCT TT
43218244 GAAGGTCACA
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.08
6 39 0.63
7 11 0.18
8 7 0.11
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:43218222 original size:13 final size:11
Alignment explanation
Indices: 43218180--43218239 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 11
43218170 TCTTTTTTCC
43218180 TTTTTTCTTTT
1 TTTTTTCTTTT
43218191 TCCTTTTTCTTTT
1 T--TTTTTCTTTT
43218204 TCTTTTTCTCTTT
1 T-TTTTTCT-TTT
* *
43218217 ATTTTT-TTTA
1 TTTTTTCTTTT
*
43218227 TTTTTTATTTT
1 TTTTTTCTTTT
43218238 TT
1 TT
43218240 CTTTGAAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 7 0.17
11 7 0.17
12 13 0.32
13 14 0.34
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:43226636 original size:17 final size:21
Alignment explanation
Indices: 43226606--43226652 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
43226596 GATTTAGAAT
*
43226606 TAATTTAATGAAT-A-ATT-A
1 TAATTAAATGAATAATATTAA
43226624 TAATTAAAT-AATAATATTAA
1 TAATTAAATGAATAATATTAA
43226644 TAATTAAAT
1 TAATTAAAT
43226653 TTGATCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 9 0.36
19 3 0.12
20 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATTAAATGAATAATATTAA
Found at i:43227218 original size:53 final size:55
Alignment explanation
Indices: 43227117--43227223 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 55
43227107 CAGACATGTC
* *
43227117 AATGGTCGGCACCAGTATTTAAAAAAAATTCAAATTTTTTTGGTGCTGGCCTGTT
1 AATGGTCGGCACCAGTATTTAAAAAAAATTCAAAATTTTTTGATGCTGGCCTGTT
43227172 AATGGTCGGCACCAGTA-TT-AAAAAAATTCAAAATTTTTTGATGCTGGCCTGT
1 AATGGTCGGCACCAGTATTTAAAAAAAATTCAAAATTTTTTGATGCTGGCCTGT
43227224 CAATTGCCTG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 31 0.62
54 2 0.04
55 17 0.34
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (55 bp):
AATGGTCGGCACCAGTATTTAAAAAAAATTCAAAATTTTTTGATGCTGGCCTGTT
Found at i:43227237 original size:53 final size:55
Alignment explanation
Indices: 43227113--43227239 Score: 177
Period size: 53 Copynumber: 2.3 Consensus size: 55
43227103 GGTGCAGACA
* * *
43227113 TGTCAATGGTCGGCACCAGTATTTAAAAAAAATTCAAATTTTTTTGGTGCTGGCC
1 TGTCAATGGCCGGCACCAGTATTTAAAAAAAATTCAAAATTTTTTGATGCTGGCC
* *
43227168 TGTTAATGGTCGGCACCAGTA-TT-AAAAAAATTCAAAATTTTTTGATGCTGGCC
1 TGTCAATGGCCGGCACCAGTATTTAAAAAAAATTCAAAATTTTTTGATGCTGGCC
* *
43227221 TGTCAATTGCCTGCACCAG
1 TGTCAATGGCCGGCACCAG
43227240 AATACGAGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 43 0.66
54 2 0.03
55 20 0.31
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
TGTCAATGGCCGGCACCAGTATTTAAAAAAAATTCAAAATTTTTTGATGCTGGCC
Found at i:43227284 original size:108 final size:106
Alignment explanation
Indices: 43227155--43227623 Score: 469
Period size: 108 Copynumber: 4.3 Consensus size: 106
43227145 TTCAAATTTT
* * * *
43227155 TTTGGTGCTGGCCTGTTAATGGTCGGCACCAGTATTAAAAAAATTCAAAATTTTTTGATGCTGGC
1 TTTGGTACTGGCCTGTCAATGGCCGGCACCAGTATTAAAAAAATTCAAATTTTTTTG-TGCTGGC
43227220 CTGTCAATTGCCTGCACCAGAATACGAGTCTTTTTAAAAAAAA
65 CTGTCAATTGCCTGCACCAGAATACGAGT-TTTTTAAAAAAAA
* * * * ** * *
43227263 TTTGGTGCTAGCCAGTCAATGGTCAACACCAGTATTAAAAAAATTTTAATTTTTTTTTGTGCTGG
1 TTTGGTACTGGCCTGTCAATGGCCGGCACCAGTATTAAAAAAA-TTCAA-ATTTTTTTGTGCTGG
** * *
43227328 CCTGTCAA-TGGTTGGCACCACAATACGAGTTTTTTTTTAAAAAAA
64 CCTGTCAATTGCCT-GCACCAGAATACGAG--TTTTTTAAAAAAAA
* * ** * *
43227373 TTTGGTACTGACCTGTTAATGGCCGGCACCAAGTACAAAAAAAAATCAAATTTTTTTGGTGCTTG
1 TTTGGTACTGGCCTGTCAATGGCCGGCACC-AGTATTAAAAAAATTCAAATTTTTTT-GTGCTGG
* * * * *
43227438 CCTGTCAATGGACGGCACCAAAATACGAGTTTTTTTAAAAAAA
64 CCTGTCAATTGCCTGCACCAGAATACGAGTTTTTTAAAAAAAA
*
43227481 TTCGGTACTGGCCTGTCAATGGCCGGCACCAGTATTAAAAAAAATTCAAATTTTTTTGTTGCTGG
1 TTTGGTACTGGCCTGTCAATGGCCGGCACCAGTATT-AAAAAAATTCAAATTTTTTTG-TGCTGG
* ** *
43227546 CTTGTCAATAACC-GACACTAGAATACGAGTTTTTTAAAAAAAA
64 CCTGTCAATTGCCTG-CACCAGAATACGAGTTTTTTAAAAAAAA
* * * *
43227589 TTAGTGT--TGGCCTGTCAATGCCCGACACCAATATT
1 TTTG-GTACTGGCCTGTCAATGGCCGGCACCAGTATT
43227624 TTAAATTTTT
Statistics
Matches: 300, Mismatches: 49, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
107 31 0.10
108 143 0.48
109 41 0.14
110 72 0.24
111 13 0.04
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (106 bp):
TTTGGTACTGGCCTGTCAATGGCCGGCACCAGTATTAAAAAAATTCAAATTTTTTTGTGCTGGCC
TGTCAATTGCCTGCACCAGAATACGAGTTTTTTAAAAAAAA
Found at i:43227501 original size:218 final size:218
Alignment explanation
Indices: 43227155--43227554 Score: 543
Period size: 218 Copynumber: 1.8 Consensus size: 218
43227145 TTCAAATTTT
* * * ** *
43227155 TTTGGTGCTGGCCTGTTAATGGTCGGCACCAGTATTAAAAAAATTCAAAATTTTTTGATGCTGGC
1 TTTGGTACTGACCTGTTAATGGCCGGCACCAGTACAAAAAAAAATCAAAATTTTTTGATGCTGGC
* * * * * *
43227220 CTGTCAATTGCCTGCACCAGAATACGAGTCTTTTTAAAAAAAATTTGGTGCTAGCCAGTCAATGG
66 CTGTCAATGGACGGCACCAAAATACGAGTCTTTTTAAAAAAAATTCGGTACTAGCCAGTCAATGG
* ** *
43227285 TCAACACCAGTATT-AAAAAAATTTTAATTTTTTTTTGTGCTGGCCTGTCAATGGTTGGCACCAC
131 CCAACACCAGTATTAAAAAAAATTCAAATTTTTTTGT-TGCTGGCCTGTCAATGGTTGGCACCAC
43227349 AATACGAGTTTTTTTTTAAAAAAA
195 AATACGAGTTTTTTTTTAAAAAAA
* * *
43227373 TTTGGTACTGACCTGTTAATGGCCGGCACCAAGTACAAAAAAAAATCAAATTTTTTTGGTGCTTG
1 TTTGGTACTGACCTGTTAATGGCCGGCACC-AGTACAAAAAAAAATCAAAATTTTTTGATGCTGG
* * *
43227438 CCTGTCAATGGACGGCACCAAAATACGAGT-TTTTTTAAAAAAATTCGGTACTGGCCTGTCAATG
65 CCTGTCAATGGACGGCACCAAAATACGAGTCTTTTTAAAAAAAATTCGGTACTAGCCAGTCAATG
** *
43227502 GCCGGCACCAGTATTAAAAAAAATTCAAATTTTTTTGTTGCTGGCTTGTCAAT
130 GCCAACACCAGTATTAAAAAAAATTCAAATTTTTTTGTTGCTGGCCTGTCAAT
43227555 AACCGACACT
Statistics
Matches: 155, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
218 82 0.53
219 73 0.47
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (218 bp):
TTTGGTACTGACCTGTTAATGGCCGGCACCAGTACAAAAAAAAATCAAAATTTTTTGATGCTGGC
CTGTCAATGGACGGCACCAAAATACGAGTCTTTTTAAAAAAAATTCGGTACTAGCCAGTCAATGG
CCAACACCAGTATTAAAAAAAATTCAAATTTTTTTGTTGCTGGCCTGTCAATGGTTGGCACCACA
ATACGAGTTTTTTTTTAAAAAAA
Found at i:43230703 original size:27 final size:26
Alignment explanation
Indices: 43230673--43230816 Score: 102
Period size: 27 Copynumber: 5.6 Consensus size: 26
43230663 AAAGATTGGT
43230673 AATTTAAATGAAATGGCAAAAAAAATA
1 AATTTAAATGAAATGG-AAAAAAAATA
** * *
43230700 AATTGGAATGAAATGG----TACA-A
1 AATTTAAATGAAATGGAAAAAAAATA
* *
43230721 AATTTAAATGAAAATTGAAAGAAAGATA
1 AATTTAAATG-AAATGGAAA-AAAAATA
* * *
43230749 AATTTAAATGAAATGAGGAAAAAATTT
1 AATTTAAATGAAATG-GAAAAAAAATA
* *
43230776 AATTGAAATGAAATGAGAAAAAAATTA
1 AATTTAAATGAAATG-GAAAAAAAATA
43230803 AA-TTAAATGAAATG
1 AATTTAAATGAAATG
43230817 AGAGAAAACT
Statistics
Matches: 91, Mismatches: 18, Indels: 17
0.72 0.14 0.13
Matches are distributed among these distances:
21 9 0.10
22 7 0.08
26 11 0.12
27 50 0.55
28 14 0.15
ACGTcount: A:0.58, C:0.01, G:0.15, T:0.25
Consensus pattern (26 bp):
AATTTAAATGAAATGGAAAAAAAATA
Found at i:43230717 original size:44 final size:44
Alignment explanation
Indices: 43230609--43230702 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
43230599 AATTATAAGG
*
43230609 AATTAAATG-GAAAGATTGGTAATTTAAATGAAATGAGAAAAAA
1 AATTAAATGAAAAAGATTGGTAATTTAAATGAAATGAGAAAAAA
*
43230652 AATTACATGAAAAAGATTGGTAATTTAAATGAAATG-GCAAAAAA
1 AATTAAATGAAAAAGATTGGTAATTTAAATGAAATGAG-AAAAAA
43230696 AA-TAAAT
1 AATTAAAT
43230703 TGGAATGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
43 13 0.28
44 33 0.72
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (44 bp):
AATTAAATGAAAAAGATTGGTAATTTAAATGAAATGAGAAAAAA
Found at i:43230752 original size:49 final size:50
Alignment explanation
Indices: 43230673--43230824 Score: 134
Period size: 49 Copynumber: 3.0 Consensus size: 50
43230663 AAAGATTGGT
* * *
43230673 AATTTAAATG-AAATGGCAAAAAAAATAAATTGGAATGAAATG-GTACAA
1 AATTTAAATGAAAATGGCAAAAAAAATAAATTGAAATGAAATGAGGAAAA
* * *
43230721 AATTTAAATGAAAATTG-AAAGAAAGATAAATTTAAATGAAATGAGGAAAA
1 AATTTAAATGAAAATGGCAAA-AAAAATAAATTGAAATGAAATGAGGAAAA
* *
43230771 AATTTAATTGAAATGAAATGAG-AAAAAAATTAAATT-AAATGAAATGAGAGAAAA
1 AATTTAAATG--A--AAATG-GCAAAAAAAATAAATTGAAATGAAATGAG-GAAAA
43230825 CTTTTAATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
48 13 0.15
49 24 0.28
50 13 0.15
52 1 0.01
53 12 0.14
54 18 0.21
55 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.16, T:0.24
Consensus pattern (50 bp):
AATTTAAATGAAAATGGCAAAAAAAATAAATTGAAATGAAATGAGGAAAA
Found at i:43230801 original size:22 final size:22
Alignment explanation
Indices: 43230694--43230812 Score: 62
Period size: 21 Copynumber: 5.0 Consensus size: 22
43230684 AATGGCAAAA
*
43230694 AAAATAAATTGGAATGAAATG-G
1 AAAA-AAATTGAAATGAAATGAG
* * *
43230716 TACAAAATTTAAATGAAAATTGAAAG
1 AAAAAAATTGAAATG-AAA-TG--AG
*
43230742 AAAGATAAATTTAAATGAAATGAGG
1 AAA-A-AAATTGAAATGAAATGA-G
43230767 AAAAAATTTAATTGAAATGAAATGAG
1 -AAAAA---AATTGAAATGAAATGAG
*
43230793 AAAAAAATT-AAATTAAATGA
1 AAAAAAATTGAAATGAAATGA
43230813 AATGAGAGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
21 19 0.25
22 9 0.12
23 2 0.03
24 2 0.03
25 7 0.09
26 8 0.10
27 19 0.25
28 11 0.14
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (22 bp):
AAAAAAATTGAAATGAAATGAG
Found at i:43230803 original size:26 final size:26
Alignment explanation
Indices: 43230721--43230857 Score: 125
Period size: 26 Copynumber: 5.1 Consensus size: 26
43230711 AATGGTACAA
* *
43230721 AATTTAAATGAAAATTGA-AAGAAAGATA
1 AATTTAAATG-AAA-TGAGAA-AAAAATT
*
43230749 AATTTAAATGAAATGAGGAAAAAATTT
1 AATTTAAATGAAATGA-GAAAAAAATT
*
43230776 AATTGAAATGAAATGAGAAAAAAATT
1 AATTTAAATGAAATGAGAAAAAAATT
* **
43230802 AAATTAAATGAAATGAGAGAAAACTTTT
1 AATTTAAATGAAATGAGA-AAAA-AATT
*
43230830 AATTTAAAT-AGTATGAGAAAAAAATT
1 AATTTAAATGA-AATGAGAAAAAAATT
43230856 AA
1 AA
43230858 ATAGAAAGAT
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
26 32 0.35
27 31 0.34
28 28 0.31
ACGTcount: A:0.58, C:0.01, G:0.14, T:0.27
Consensus pattern (26 bp):
AATTTAAATGAAATGAGAAAAAAATT
Found at i:43230824 original size:27 final size:26
Alignment explanation
Indices: 43230747--43230859 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
43230737 GAAAGAAAGA
*
43230747 TAAATTTAAATGAAATGAGGAAAAAAT
1 TAAA-TTAAATGAAATGAGAAAAAAAT
*
43230774 TTAATTGAAATGAAATGAGAAAAAAAT
1 TAAATT-AAATGAAATGAGAAAAAAAT
**
43230801 TAAATTAAATGAAATGAGAGAAAACTTT
1 TAAATTAAATGAAATGAGA-AAAA-AAT
* *
43230829 TAATTTAAAT-AGTATGAGAAAAAAAT
1 TAAATTAAATGA-AATGAGAAAAAAAT
43230855 TAAAT
1 TAAAT
43230860 AGAAAGATAG
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
26 20 0.28
27 36 0.50
28 16 0.22
ACGTcount: A:0.58, C:0.01, G:0.13, T:0.28
Consensus pattern (26 bp):
TAAATTAAATGAAATGAGAAAAAAAT
Found at i:43230831 original size:54 final size:53
Alignment explanation
Indices: 43230747--43230859 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 53
43230737 GAAAGAAAGA
43230747 TAAATTTAAATGAAATGAGGAAAAAATTTAATTGAAAT-GAAATGAGAAAAAAAT
1 TAAA-TTAAATGAAATGAGGAAAAAATTTAATTGAAATAG-AATGAGAAAAAAAT
** * *
43230801 TAAATTAAATGAAATGAGAGAAAACTTTTAATTTAAATAGTATGAGAAAAAAAT
1 TAAATTAAATGAAATGAG-GAAAAAATTTAATTGAAATAGAATGAGAAAAAAAT
43230855 TAAAT
1 TAAAT
43230860 AGAAAGATAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 14 0.26
54 38 0.72
55 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.13, T:0.28
Consensus pattern (53 bp):
TAAATTAAATGAAATGAGGAAAAAATTTAATTGAAATAGAATGAGAAAAAAAT
Found at i:43230984 original size:22 final size:23
Alignment explanation
Indices: 43230958--43231014 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
43230948 ATTTAAATTT
*
43230958 AAAAATAATATAACT-GAATTGA
1 AAAAAAAATATAACTGGAATTGA
* *
43230980 GAAAAAAATA-AATTGGAATTGA
1 AAAAAAAATATAACTGGAATTGA
43231002 AAAAAAAATATAA
1 AAAAAAAATATAA
43231015 TTTAAATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 24 0.83
23 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.23
Consensus pattern (23 bp):
AAAAAAAATATAACTGGAATTGA
Found at i:43231005 original size:43 final size:45
Alignment explanation
Indices: 43230928--43231023 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 45
43230918 AACATTTAAA
* * * *
43230928 TGAAATGAGGAAAAAATTAAATTTAAATT-TAAAAATAATATAAC
1 TGAAATGAGGAAAAAAATAAATTGAAATTGAAAAAAAAATATAAC
* * *
43230972 TGAATTGA-GAAAAAAATAAATTGGAATTGAAAAAAAAATATAAT
1 TGAAATGAGGAAAAAAATAAATTGAAATTGAAAAAAAAATATAAC
*
43231016 TTAAATGA
1 TGAAATGA
43231024 AATGGAAATG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
43 17 0.40
44 25 0.60
ACGTcount: A:0.59, C:0.01, G:0.11, T:0.28
Consensus pattern (45 bp):
TGAAATGAGGAAAAAAATAAATTGAAATTGAAAAAAAAATATAAC
Found at i:43231024 original size:22 final size:21
Alignment explanation
Indices: 43230924--43231025 Score: 62
Period size: 22 Copynumber: 4.7 Consensus size: 21
43230914 ATAGAACATT
* *
43230924 TAAA-TGAAATGAGGAAAAAAT
1 TAAATTGAAATGA-AAAAAAAA
* ** *
43230945 TAAATTTAAATTTAAAAATAA
1 TAAATTGAAATGAAAAAAAAA
* * *
43230966 TATAACTGAATTGAGAAAAAAA
1 TA-AATTGAAATGAAAAAAAAA
*
43230988 TAAATTGGAATTGAAAAAAAAA
1 TAAATT-GAAATGAAAAAAAAA
*
43231010 TATAATTTAAATGAAA
1 TA-AATTGAAATGAAA
43231026 TGGAAATGGG
Statistics
Matches: 60, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
21 14 0.23
22 42 0.70
23 4 0.07
ACGTcount: A:0.61, C:0.01, G:0.11, T:0.27
Consensus pattern (21 bp):
TAAATTGAAATGAAAAAAAAA
Found at i:43231026 original size:5 final size:5
Alignment explanation
Indices: 43231018--43231096 Score: 59
Period size: 5 Copynumber: 14.6 Consensus size: 5
43231008 AATATAATTT
* * *
43231018 AAATG AAATGG AAATGG GAATG TAAATG AAATT AGAATG AAATG AAGTTG
1 AAATG AAAT-G AAAT-G AAATG -AAATG AAATG A-AATG AAATG AA-ATG
* *
43231068 AAATG AAATA AAATTA AAATG AAATG AAA
1 AAATG AAATG AAA-TG AAATG AAATG AAA
43231097 AAAAAAGTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 34 0.56
6 27 0.44
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (5 bp):
AAATG
Found at i:43231062 original size:16 final size:16
Alignment explanation
Indices: 43231019--43231096 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 16
43231009 ATATAATTTA
**
43231019 AATGAAATGGAAATGGG
1 AATGAAAT-GAAATTAG
43231036 AATGTAAATGAAATTAG
1 AATG-AAATGAAATTAG
*
43231053 AATGAAATGAAGTT-G
1 AATGAAATGAAATTAG
* *
43231068 AAATGAAATAAAATTAA
1 -AATGAAATGAAATTAG
43231085 AATGAAATGAAA
1 AATGAAATGAAA
43231097 AAAAAAGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
15 1 0.02
16 32 0.63
17 14 0.27
18 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (16 bp):
AATGAAATGAAATTAG
Found at i:43231097 original size:11 final size:11
Alignment explanation
Indices: 43231018--43231097 Score: 63
Period size: 11 Copynumber: 7.3 Consensus size: 11
43231008 AATATAATTT
*
43231018 AAATGAAATGG
1 AAATGAAATGA
* *
43231029 AAATGGGAATGT
1 AAAT-GAAATGA
*
43231041 AAATGAAATTA
1 AAATGAAATGA
*
43231052 GAATGAAATGA
1 AAATGAAATGA
**
43231063 AGTTGAAATG-
1 AAATGAAATGA
* *
43231073 AAATAAAATTA
1 AAATGAAATGA
43231084 AAATGAAATGA
1 AAATGAAATGA
43231095 AAA
1 AAA
43231098 AAAAAGTTTG
Statistics
Matches: 51, Mismatches: 16, Indels: 4
0.72 0.23 0.06
Matches are distributed among these distances:
10 6 0.12
11 36 0.71
12 9 0.18
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:43231227 original size:16 final size:17
Alignment explanation
Indices: 43231199--43231243 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
43231189 CAAACTTTTT
43231199 TTTTCATTT-ATTTTC-A
1 TTTT-ATTTCATTTTCAA
43231215 TTTTATTTCA-TTTCAA
1 TTTTATTTCATTTTCAA
*
43231231 CTTTATTTCATTT
1 TTTTATTTCATTT
43231244 CAACTTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 8 0.32
16 15 0.60
17 2 0.08
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATTTCATTTTCAA
Found at i:43231244 original size:16 final size:16
Alignment explanation
Indices: 43231216--43231249 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
43231206 TTATTTTCAT
43231216 TTTATTTCATTTCAAC
1 TTTATTTCATTTCAAC
43231232 TTTATTTCATTTCAAC
1 TTTATTTCATTTCAAC
43231248 TT
1 TT
43231250 CGTTTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTTCATTTCAAC
Found at i:43231255 original size:16 final size:16
Alignment explanation
Indices: 43231219--43231271 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
43231209 TTTTCATTTT
*
43231219 ATTTCATTTCAACTTT
1 ATTTCATTTCAACTTC
43231235 ATTTCATTTCAACTTC
1 ATTTCATTTCAACTTC
* *
43231251 GTTTCA-TTCTAATTTC
1 ATTTCATTTC-AACTTC
43231267 ATTTC
1 ATTTC
43231272 CATTCCCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 3 0.09
16 29 0.91
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTCATTTCAACTTC
Found at i:43231288 original size:6 final size:5
Alignment explanation
Indices: 43231200--43231293 Score: 57
Period size: 5 Copynumber: 17.6 Consensus size: 5
43231190 AAACTTTTTT
*
43231200 TTTCA TTT-A TTTTCA TTTTA TTTCA TTTCAA CTTT-A TTTCA TTTCAA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A -TTTCA TTTCA TTTC-A
* * * *
43231247 CTTCG TTTCA TTCTAA TTTCA TTTCCA TTCCCA TTTCTA TTTCA TTT
1 TTTCA TTTCA TT-TCA TTTCA TTT-CA TT-TCA TTTC-A TTTCA TTT
43231294 AAATTATATT
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
4 4 0.06
5 39 0.57
6 23 0.33
7 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.01, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:43231292 original size:17 final size:16
Alignment explanation
Indices: 43231214--43231292 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
43231204 ATTTATTTTC
* *
43231214 ATTTTATTTCATTTCA
1 ATTTCATTTCATTCCA
*
43231230 ACTTT-ATTTCATTTCA
1 A-TTTCATTTCATTCCA
* * *
43231246 ACTTCGTTTCATTCTA
1 ATTTCATTTCATTCCA
*
43231262 ATTTCATTTCCATTCCC
1 ATTTCATTT-CATTCCA
43231279 ATTTCTATTTCATT
1 ATTTC-ATTTCATT
43231293 TAAATTATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
15 2 0.04
16 28 0.55
17 17 0.33
18 4 0.08
ACGTcount: A:0.22, C:0.22, G:0.01, T:0.56
Consensus pattern (16 bp):
ATTTCATTTCATTCCA
Found at i:43231352 original size:22 final size:21
Alignment explanation
Indices: 43231305--43231380 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 21
43231295 AATTATATTA
43231305 TATATTTTTTTCCATTCTAAT
1 TATATTTTTTTCCATTCTAAT
*
43231326 T-TATTTTTTTCTCAATTC-ATT
1 TATATTTTTTTC-C-ATTCTAAT
* *
43231347 TATATTATTTTT-AATTTTAAT
1 TATATT-TTTTTCCATTCTAAT
* *
43231368 TTTAATTTTTTCC
1 TATATTTTTTTCC
43231381 TCATCTCATT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
20 18 0.43
21 11 0.26
22 8 0.19
23 5 0.12
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (21 bp):
TATATTTTTTTCCATTCTAAT
Found at i:43231368 original size:42 final size:44
Alignment explanation
Indices: 43231305--43231392 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
43231295 AATTATATTA
* *
43231305 TATATTTTTTTCCATTCTAA-TTT-ATTTTTTTCTCAAT-TCATT
1 TATATTTTTTTCAATTCTAATTTTAATTTTTTCCTC-ATCTCATT
*
43231347 TATATTATTTTT-AATTTTAATTTTAATTTTTTCCTCATCTCATT
1 TATATT-TTTTTCAATTCTAATTTTAATTTTTTCCTCATCTCATT
43231391 TA
1 TA
43231393 AATGTTCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
42 12 0.31
43 10 0.26
44 17 0.44
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (44 bp):
TATATTTTTTTCAATTCTAATTTTAATTTTTTCCTCATCTCATT
Found at i:43231508 original size:27 final size:26
Alignment explanation
Indices: 43231459--43231594 Score: 141
Period size: 27 Copynumber: 5.1 Consensus size: 26
43231449 ATCTTTCCAT
*
43231459 TTAATTTTTTTCTCA-TACTATTTAAA
1 TTAATTTTTTTCTCATTTC-ATTTAAA
** * *
43231485 TTAAAAGTTTCTCTCATTTCATTTAAT
1 TT-AATTTTTTTCTCATTTCATTTAAA
*
43231512 TTAATTTTTTTCTCATTTCATTTTAA
1 TTAATTTTTTTCTCATTTCATTTAAA
43231538 TTAATTTTTTTCCTCATTTCATTTAAA
1 TTAATTTTTTT-CTCATTTCATTTAAA
*
43231565 TTTATTTTTCTT-TCAATTTTCATTTAAA
1 TTAATTTTT-TTCTC-A-TTTCATTTAAA
43231593 TT
1 TT
43231595 TTGTACCATT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
26 34 0.37
27 41 0.45
28 17 0.18
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.60
Consensus pattern (26 bp):
TTAATTTTTTTCTCATTTCATTTAAA
Found at i:43231540 original size:53 final size:54
Alignment explanation
Indices: 43231457--43231573 Score: 143
Period size: 53 Copynumber: 2.2 Consensus size: 54
43231447 CTATCTTTCC
43231457 ATTTAATTTTTTTCTCATACTATTTAAATTAAAAGTTTCT-CTCATTTCATTT-A
1 ATTTAATTTTTTTCTCATACTATTTAAATT-AAAGTTTCTCCTCATTTCATTTAA
* * ** *
43231510 ATTTAATTTTTTTCTCAT-TTCATTTTAATTAATTTTTTTCCTCATTTCATTTAA
1 ATTTAATTTTTTTCTCATACT-ATTTAAATTAAAGTTTCTCCTCATTTCATTTAA
43231564 ATTT-ATTTTT
1 ATTTAATTTTT
43231574 CTTTCAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
52 7 0.12
53 44 0.79
54 5 0.09
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.61
Consensus pattern (54 bp):
ATTTAATTTTTTTCTCATACTATTTAAATTAAAGTTTCTCCTCATTTCATTTAA
Done.