Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 146 of 313
Found at i:46681766 original size:27 final size:27
Alignment explanation
Indices: 46681736--46681799 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
46681726 AGAAGGCCAC
*
46681736 CATTGATGCCTC-CTTATGAGGCACATT
1 CATTGACGCCTCTC-TATGAGGCACATT
* *
46681763 CATTGGCGCCTCTCTATGAGGCATATT
1 CATTGACGCCTCTCTATGAGGCACATT
*
46681790 CATTGGCGCC
1 CATTGACGCC
46681800 AACTTGATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (27 bp):
CATTGACGCCTCTCTATGAGGCACATT
Found at i:46683481 original size:25 final size:25
Alignment explanation
Indices: 46683453--46683620 Score: 87
Period size: 25 Copynumber: 6.8 Consensus size: 25
46683443 TGTTATATGA
46683453 CTCTCATGAGCTTCCCGATATTTGG
1 CTCTCATGAGCTTCCCGATATTTGG
*
46683478 CTCTCATGACCTTCCC-A-ATTAATGG
1 CTCTCATGAGCTTCCCGATATT--TGG
* * * *
46683503 CTTTCTTGAGATTCCTG-T-TTATGG
1 CTCTCATGAGCTTCCCGATATT-TGG
* *
46683527 CTCGT-ATGAGCTTCCCAATAATTGG
1 CTC-TCATGAGCTTCCCGATATTTGG
* * * *
46683552 CT-TGCAAGAGCTTCCTGTTATATGG
1 CTCT-CATGAGCTTCCCGATATTTGG
* * **
46683577 CTCACATGAGCTTCCCGTTACATGG
1 CTCTCATGAGCTTCCCGATATTTGG
** *
46683602 CTCAAAAGAGCTTCCCGAT
1 CTCTCATGAGCTTCCCGAT
46683621 TACATACTCG
Statistics
Matches: 108, Mismatches: 25, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
23 4 0.04
24 15 0.14
25 88 0.81
26 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATTTGG
Found at i:46683553 original size:49 final size:49
Alignment explanation
Indices: 46683475--46683592 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
46683465 TCCCGATATT
* * **
46683475 TGGCTCTCATGACCTTCCCAATTAATGGCTTTCTTGAGATTCCTGTT-TA
1 TGGCTCT-ATGAGCTTCCCAATTAATGGCTTGCAAGAGATTCCTGTTATA
*
46683524 TGGCTCGTATGAGCTTCCCAA-TAATTGGCTTGCAAGAGCTTCCTGTTATA
1 TGGCTC-TATGAGCTTCCCAATTAA-TGGCTTGCAAGAGATTCCTGTTATA
*
46683574 TGGCTCACATGAGCTTCCC
1 TGGCTC-TATGAGCTTCCC
46683593 GTTACATGGC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
48 3 0.05
49 36 0.61
50 20 0.34
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (49 bp):
TGGCTCTATGAGCTTCCCAATTAATGGCTTGCAAGAGATTCCTGTTATA
Found at i:46683611 original size:50 final size:49
Alignment explanation
Indices: 46683514--46683616 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 49
46683504 TTTCTTGAGA
** ***
46683514 TTCCTGTTTATGGCTCGTATGAGCTTCCCAATAATTGGCTTGCAAGAGC
1 TTCCTGTTTATGGCTCACATGAGCTTCCCAATAATTGGCTCAAAAGAGC
**
46683563 TTCCTGTTATATGGCTCACATGAGCTTCCCGTTACA-TGGCTCAAAAGAGC
1 TTCCTGTT-TATGGCTCACATGAGCTTCCCAATA-ATTGGCTCAAAAGAGC
46683613 TTCC
1 TTCC
46683617 CGATTACATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 8 0.18
50 36 0.80
51 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (49 bp):
TTCCTGTTTATGGCTCACATGAGCTTCCCAATAATTGGCTCAAAAGAGC
Found at i:46693791 original size:35 final size:35
Alignment explanation
Indices: 46693745--46693816 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
46693735 GTTGTATTTG
46693745 GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
1 GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
**
46693780 GTTGCAAGATGGCTTGTGTAACGGTCTGGTTTTCA
1 GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
46693815 GT
1 GT
46693817 GGTGTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (35 bp):
GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
Found at i:46694272 original size:17 final size:17
Alignment explanation
Indices: 46694252--46694286 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46694242 AATTTTAATT
**
46694252 ATAATAAAGTAAATAAA
1 ATAATAAAACAAATAAA
46694269 ATAATAAAACAAATAAA
1 ATAATAAAACAAATAAA
46694286 A
1 A
46694287 GGAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAATAAAACAAATAAA
Found at i:46700891 original size:19 final size:18
Alignment explanation
Indices: 46700867--46700939 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 18
46700857 TTTTTCTTCT
46700867 CTTCAACAGAAAGCAAAAA
1 CTTCAACAGAAA-CAAAAA
**
46700886 CTTCAACTCAAACAAAAGA
1 CTTCAACAGAAACAAAA-A
* *
46700905 CTTAAATAGAAACACAAAA
1 CTTCAACAGAAACA-AAAA
* * *
46700924 CATCAATAGAAGCAAA
1 CTTCAACAGAAACAAA
46700940 TTTTTGGTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 7 0.16
19 33 0.77
20 3 0.07
ACGTcount: A:0.58, C:0.21, G:0.08, T:0.14
Consensus pattern (18 bp):
CTTCAACAGAAACAAAAA
Found at i:46710811 original size:33 final size:33
Alignment explanation
Indices: 46710769--46710834 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
46710759 AGAATTGTTT
46710769 TATAAAATTGTTTATTTTACACGTACGTGCAAA
1 TATAAAATTGTTTATTTTACACGTACGTGCAAA
46710802 TATAAAATTGTTTATTTTACACGTACGTGCAAA
1 TATAAAATTGTTTATTTTACACGTACGTGCAAA
46710835 CTCACCGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
TATAAAATTGTTTATTTTACACGTACGTGCAAA
Found at i:46712773 original size:3 final size:3
Alignment explanation
Indices: 46712761--46712840 Score: 69
Period size: 3 Copynumber: 27.3 Consensus size: 3
46712751 ATTTTTTAGC
* * * *
46712761 TAT T-T TAT TAT TAT TAT TAT TA- TGT TAT TAT CAT TA- TAC CAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
46712807 TAT TAT TA- TAT TATT TAT TAT CAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T
46712841 TCTATATTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 7 0.11
3 49 0.79
4 6 0.10
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:46712851 original size:21 final size:19
Alignment explanation
Indices: 46712764--46712851 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 19
46712754 TTTTAGCTAT
46712764 TTTATTATT-ATTATTATTA
1 TTTATTATTCATTA-TATTA
**
46712783 TGTTATTA-TCATTATACCA
1 T-TTATTATTCATTATATTA
46712802 -TTATTTATT-ATTATATTA
1 TTTA-TTATTCATTATATTA
46712820 TTTATTA-TCATTATTATTA
1 TTTATTATTCATTA-TATTA
*
46712839 TTTCTATATTCAT
1 TTTAT-TATTCAT
46712852 ACACACGCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
17 4 0.07
18 17 0.31
19 18 0.33
20 12 0.22
21 4 0.07
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTATTATTCATTATATTA
Found at i:46712890 original size:22 final size:23
Alignment explanation
Indices: 46712864--46713066 Score: 242
Period size: 22 Copynumber: 8.8 Consensus size: 23
46712854 ACACGCATTG
46712864 TTTTTTATAATATATATATGCA-
1 TTTTTTATAATATATATATGCAT
*
46712886 TTTTTTAT-ATAGTATACATGCAT
1 TTTTTTATAATA-TATATATGCAT
46712909 TGTTTTTATAATATATATATGCA-
1 T-TTTTTATAATATATATATGCAT
*
46712932 TTTTTTAT-ATAGTATACATGCAT
1 TTTTTTATAATA-TATATATGCAT
46712955 TGTTTTTATAATATATATATGCA-
1 T-TTTTTATAATATATATATGCAT
*
46712978 TTTTTTAT-ATAGTATACATGCAT
1 TTTTTTATAATA-TATATATGCAT
46713001 TGTTTTTATAATATATATATGCA-
1 T-TTTTTATAATATATATATGCAT
*
46713024 TTTTTTAT-ATAGTATACATGCAT
1 TTTTTTATAATA-TATATATGCAT
46713047 TGTTTTTATAATATATATAT
1 T-TTTTTATAATATATATAT
46713067 ATATGCATTT
Statistics
Matches: 157, Mismatches: 8, Indels: 30
0.81 0.04 0.15
Matches are distributed among these distances:
21 12 0.08
22 65 0.41
23 7 0.04
24 61 0.39
25 12 0.08
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (23 bp):
TTTTTTATAATATATATATGCAT
Found at i:46712896 original size:24 final size:24
Alignment explanation
Indices: 46712858--46713094 Score: 226
Period size: 24 Copynumber: 10.0 Consensus size: 24
46712848 TCATACACAC
*
46712858 GCATTGTTTTTTATAATATATATAT
1 GCATT-TTTTATATAATATATATAT
* *
46712883 GCATTTTTTATAT-A-GTATACAT
1 GCATTTTTTATATAATATATATAT
46712905 GCATTGTTTT-TATAATATATATAT
1 GCATT-TTTTATATAATATATATAT
* *
46712929 GCATTTTTTATAT-A-GTATACAT
1 GCATTTTTTATATAATATATATAT
46712951 GCATTGTTTT-TATAATATATATAT
1 GCATT-TTTTATATAATATATATAT
* *
46712975 GCATTTTTTATAT-A-GTATACAT
1 GCATTTTTTATATAATATATATAT
46712997 GCATTGTTTT-TATAATATATATAT
1 GCATT-TTTTATATAATATATATAT
* *
46713021 GCATTTTTTATAT-A-GTATACAT
1 GCATTTTTTATATAATATATATAT
46713043 GCATTGTTTTTATAATATATATATATAT
1 GCA-T-TTTTTAT-ATA-ATATATATAT
* *
46713071 GCATTTTTTATATAGTATACATAT
1 GCATTTTTTATATAATATATATAT
46713095 ACCAATATAT
Statistics
Matches: 175, Mismatches: 19, Indels: 37
0.76 0.08 0.16
Matches are distributed among these distances:
22 51 0.29
23 32 0.18
24 64 0.37
25 10 0.06
26 7 0.04
27 2 0.01
28 9 0.05
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
GCATTTTTTATATAATATATATAT
Found at i:46712921 original size:46 final size:46
Alignment explanation
Indices: 46712858--46713092 Score: 425
Period size: 46 Copynumber: 5.0 Consensus size: 46
46712848 TCATACACAC
46712858 GCATTGTTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
1 GCATTG-TTTTTATAATATATATATGCATTTTTTATATAGTATACAT
46712905 GCATTGTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
1 GCATTGTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
46712951 GCATTGTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
1 GCATTGTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
46712997 GCATTGTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
1 GCATTGTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
46713043 GCATTGTTTTTATAATATATATATATATGCATTTTTTATATAGTATACAT
1 GCATTG-TTTT-T-ATA-ATATATATATGCATTTTTTATATAGTATACAT
46713093 ATACCAATAT
Statistics
Matches: 184, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
46 138 0.75
47 10 0.05
48 1 0.01
49 3 0.02
50 32 0.17
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (46 bp):
GCATTGTTTTTATAATATATATATGCATTTTTTATATAGTATACAT
Found at i:46713072 original size:28 final size:28
Alignment explanation
Indices: 46713029--46713096 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
46713019 ATGCATTTTT
46713029 TATATAGTATACATGCATTGTTTT-TATAA
1 TATATA-TATACATGCATT-TTTTATATAA
* *
46713058 TATATATATATATGCATTTTTTATATAG
1 TATATATATACATGCATTTTTTATATAA
*
46713086 TATACATATAC
1 TATATATATAC
46713097 CAATATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.12
28 24 0.71
29 6 0.18
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (28 bp):
TATATATATACATGCATTTTTTATATAA
Found at i:46713518 original size:33 final size:33
Alignment explanation
Indices: 46713481--46713543 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
46713471 ATGACTTACC
* * **
46713481 AATATATATACTTATACACTTTTTTATTTTGTA
1 AATATATACACATATACACACTTTTATTTTGTA
46713514 AATATATACACATATACACACTTTTATTTT
1 AATATATACACATATACACACTTTTATTTT
46713544 TTTTTTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.49
Consensus pattern (33 bp):
AATATATACACATATACACACTTTTATTTTGTA
Found at i:46713749 original size:15 final size:15
Alignment explanation
Indices: 46713729--46713765 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
46713719 CAAATTTTCT
**
46713729 TATATATTGTACTTA
1 TATATATTGTAAATA
46713744 TATATATTGTAAATA
1 TATATATTGTAAATA
46713759 TATATAT
1 TATATAT
46713766 AATTCATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATATTGTAAATA
Found at i:46716174 original size:11 final size:10
Alignment explanation
Indices: 46716157--46716185 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46716147 TCAAAGAATA
46716157 TAAAAAAATT
1 TAAAAAAATT
46716167 TAAAAAAATT
1 TAAAAAAATT
46716177 TAAAAAAAT
1 TAAAAAAAT
46716186 CTATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:46717001 original size:38 final size:39
Alignment explanation
Indices: 46716956--46717035 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
46716946 TCCCTGTTAA
46716956 TTTCGCTTCCTACTTCAACCTCGTTCAACTCCTC-TTTC
1 TTTCGCTTCCTACTTCAACCTCGTTCAACTCCTCTTTTC
* * * *
46716994 TTTCGCTTCTTGCTTTAACCTCTTTCAACTCCTCTTTTC
1 TTTCGCTTCCTACTTCAACCTCGTTCAACTCCTCTTTTC
46717033 TTT
1 TTT
46717036 TCTTTTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 30 0.81
39 7 0.19
ACGTcount: A:0.11, C:0.35, G:0.05, T:0.49
Consensus pattern (39 bp):
TTTCGCTTCCTACTTCAACCTCGTTCAACTCCTCTTTTC
Found at i:46717374 original size:22 final size:19
Alignment explanation
Indices: 46717327--46717365 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
46717317 TGGAAGGCTG
46717327 AAAGAAAGGAAACAAAATC
1 AAAGAAAGGAAACAAAATC
46717346 AAAGAAAGAAGAAACAAAAT
1 AAAGAAAG--GAAACAAAAT
46717366 ATAAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.72, C:0.08, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAGAAAGGAAACAAAATC
Found at i:46717980 original size:29 final size:30
Alignment explanation
Indices: 46717923--46717980 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
46717913 GGCTCGGGTG
* * *
46717923 ACTGATTTGTCACTTTCATAAAGTTTAGTA
1 ACTGAGTTGTAACTTTCATAAAGTGTAGTA
*
46717953 ACTGAGTTGTAACTTT-TTAAAGTGTAGT
1 ACTGAGTTGTAACTTTCATAAAGTGTAGT
46717981 GACTATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (30 bp):
ACTGAGTTGTAACTTTCATAAAGTGTAGTA
Found at i:46718163 original size:20 final size:18
Alignment explanation
Indices: 46718121--46718171 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
46718111 ATAAAATATA
*
46718121 AAAATTCAAAAAAATTAT
1 AAAATTCAAAAAAACTAT
46718139 AAAATTCATAAAAGAACTAT
1 AAAATTCA-AAAA-AACTAT
*
46718159 TAAATT-AAAAAAA
1 AAAATTCAAAAAAA
46718172 AAAAATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 5 0.17
20 10 0.34
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAATTCAAAAAAACTAT
Found at i:46718658 original size:3 final size:3
Alignment explanation
Indices: 46718645--46719476 Score: 1657
Period size: 3 Copynumber: 277.7 Consensus size: 3
46718635 CAATAATGTA
46718645 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46718692 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46718740 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46718788 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46718836 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46718884 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46718932 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46718980 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719028 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719076 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719124 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719172 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719220 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719268 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719316 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719364 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719412 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46719460 AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
46719477 ATTGTTTATG
Statistics
Matches: 828, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
2 2 0.00
3 826 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46732581 original size:91 final size:89
Alignment explanation
Indices: 46732486--46732671 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 89
46732476 TTAGTGTTTT
** * *
46732486 GTGTTTTGTGATTTTTTAGTAATGTAAAATATTAAAAAAATATTTTTATAGTTATTTCGTTAGTA
1 GTGTTTTGTGATTTAATAGTAATGTAAAATATT--AAAAATAATGTTATAGTTATTTCGTTAGTA
46732551 ATTTATAATTAGTTTACAAATTGTTA
64 ATTTATAATTAGTTTACAAATTGTTA
* * ***** *
46732577 GTGTTTTGTGATTTAATAGTAATGTAAATTCTTTTTTTTAATGTTATAGTTATTTTGTTAGTAAT
1 GTGTTTTGTGATTTAATAGTAATGTAAAATATTAAAAATAATGTTATAGTTATTTCGTTAGTAAT
* *
46732642 TTATGATTAGTTTATAAATTGTTA
66 TTATAATTAGTTTACAAATTGTTA
46732666 GTGTTT
1 GTGTTT
46732672 AGTTTATGGT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 52 0.64
91 29 0.36
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (89 bp):
GTGTTTTGTGATTTAATAGTAATGTAAAATATTAAAAATAATGTTATAGTTATTTCGTTAGTAAT
TTATAATTAGTTTACAAATTGTTA
Found at i:46732822 original size:16 final size:16
Alignment explanation
Indices: 46732794--46732830 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46732784 GTGTTTTGTG
46732794 ATTTTTTATTAATGTA
1 ATTTTTTATTAATGTA
46732810 ACTTTTTTA-TAATGTA
1 A-TTTTTTATTAATGTA
46732826 ATTTT
1 ATTTT
46732831 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTTTATTAATGTA
Found at i:46732828 original size:106 final size:102
Alignment explanation
Indices: 46732574--46732832 Score: 319
Period size: 106 Copynumber: 2.5 Consensus size: 102
46732564 TTACAAATTG
** * *
46732574 TTAGTGTTTTGTGATTTAATAGTAATGTAAATTCTTTT-T--TTTAATGTTATAGTTATTTTGTT
1 TTAGTGTTTTGTGATTTTTTAGTAATGT-AATT-TTTTATAATATAATTTTATAGTTATTTTGTT
*
46732636 AGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGT
64 AGTAATTAATGATTAGTTTATAAATTGTTAGTGTTTAGT
* * * *
46732675 TTA-TGGTTTTGTGATTTTTTAGTAATTTAATTTTTAAAAATAATAATTTTATAGTTTTTTTTGT
1 TTAGT-GTTTTGTGATTTTTTAGTAATGTAATTTTTTATAAT-ATAATTTTATAG-TTATTTTGT
46732739 TAGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGT
63 TAGTAATTAATGATTA-GTT-TATAAATTGTTAGTGTTTAGT
* *
46732781 TTAGTGTTTTGTGATTTTTTATTAATGTAACTTTTTTATAATGTAATTTTAT
1 TTAGTGTTTTGTGATTTTTTAGTAATGTAA-TTTTTTATAATATAATTTTAT
46732833 TTTTATTTGA
Statistics
Matches: 134, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
99 3 0.02
100 5 0.04
101 23 0.17
102 1 0.01
103 10 0.07
104 23 0.17
105 3 0.02
106 56 0.42
107 10 0.07
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (102 bp):
TTAGTGTTTTGTGATTTTTTAGTAATGTAATTTTTTATAATATAATTTTATAGTTATTTTGTTAG
TAATTAATGATTAGTTTATAAATTGTTAGTGTTTAGT
Found at i:46735165 original size:12 final size:12
Alignment explanation
Indices: 46735145--46735183 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46735135 TTATAATTCT
* *
46735145 TATATACATATA
1 TATACACATACA
46735157 TATACACATACA
1 TATACACATACA
*
46735169 CATACACATACA
1 TATACACATACA
46735181 TAT
1 TAT
46735184 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (12 bp):
TATACACATACA
Found at i:46735222 original size:26 final size:28
Alignment explanation
Indices: 46735193--46735256 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
46735183 TTTTTATAAA
46735193 TTATATATATATGAAT-ATATACGT-AC
1 TTATATATATATGAATCATATACGTAAC
* * *
46735219 TTATATAT-TTTTATTCATATACGTAAC
1 TTATATATATATGAATCATATACGTAAC
46735246 -TATATATATAT
1 TTATATATATAT
46735257 TTACGTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 4 0.13
26 23 0.74
27 4 0.13
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (28 bp):
TTATATATATATGAATCATATACGTAAC
Found at i:46736032 original size:9 final size:8
Alignment explanation
Indices: 46736011--46736035 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46736001 ATGTAGATTA
46736011 CTTTTTGT
1 CTTTTTGT
46736019 CTTTTTGT
1 CTTTTTGT
46736027 CTTTTTGT
1 CTTTTTGT
46736035 C
1 C
46736036 AAAAATCAAG
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:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (8 bp):
CTTTTTGT
Found at i:46740178 original size:3 final size:3
Alignment explanation
Indices: 46740170--46740203 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46740160 AGCTCACAAA
46740170 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
46740204 GTTTGCCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46740458 original size:13 final size:12
Alignment explanation
Indices: 46740424--46740464 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
46740414 AATTAGGAAC
46740424 GAAAAGAAAAAA
1 GAAAAGAAAAAA
46740436 GAAAAGAAAAGAA
1 GAAAAGAAAA-AA
*
46740449 GAACA-AAAAAA
1 GAAAAGAAAAAA
46740460 GAAAA
1 GAAAA
46740465 AAGAGAGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 6 0.23
12 14 0.54
13 6 0.23
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:46741870 original size:44 final size:43
Alignment explanation
Indices: 46741822--46742171 Score: 249
Period size: 45 Copynumber: 7.9 Consensus size: 43
46741812 AAAGCAAATC
*
46741822 GAAGACACTAGCCTTGTCTTCCTGTACTGACAGCGAAGCAGACT
1 GAAGACAC-AGCCTTGCCTTCCTGTACTGACAGCGAAGCAGACT
* * * * *
46741866 GAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTA-AAT
1 GAAGACA-CAG-CCTTGCCTTCCTGTACTGACAGCGAAGCAGACT
* *
46741910 CGAAGACATCAGCCTTGCATTCCTGTACTGACAGCGGAGCAGACT
1 -GAAGACA-CAGCCTTGCCTTCCTGTACTGACAGCGAAGCAGACT
* * * * * *
46741955 AAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGTAG-GT
1 GAAGACA-CAG-CCTTGCCTTCCTGTACTGACAGCGAAGCAGACT
* * *
46741999 CGAAGACACCAGCCTTGCATTCCTGTACTGACAG-TAGGGCAGACT
1 -GAAGACA-CAGCCTTGCCTTCCTGTACTGACAGCGA-AGCAGACT
* * * *
46742044 GAAGATAACAGATCTTGCCTTCCTGCACTGATAGCGAAGCAGA-T
1 GAAGA-CACAG-CCTTGCCTTCCTGTACTGACAGCGAAGCAGACT
* *** *
46742088 CAAAGACACCAAAATTGCCTTCCTGTACTGACAGCGGAGCAGACT
1 -GAAGACA-CAGCCTTGCCTTCCTGTACTGACAGCGAAGCAGACT
* ** * *
46742133 GAAGATAGCAAATCTTGCCTTCCTGTACTGGCAGTGAAG
1 GAAGACA-C-AGCCTTGCCTTCCTGTACTGACAGCGAAG
46742172 TAGATCGGAA
Statistics
Matches: 235, Mismatches: 56, Indels: 29
0.73 0.17 0.09
Matches are distributed among these distances:
43 1 0.00
44 107 0.46
45 126 0.54
46 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (43 bp):
GAAGACACAGCCTTGCCTTCCTGTACTGACAGCGAAGCAGACT
Found at i:46741910 original size:89 final size:89
Alignment explanation
Indices: 46741783--46742192 Score: 470
Period size: 89 Copynumber: 4.6 Consensus size: 89
46741773 GACTAAAAAC
* * ** * *
46741783 AGCAGATCTTGCCTTTTTGTACTAACAGTAAAGCAAATCGAAGACACTAGCCTTGTC-TTCCTGT
1 AGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGACACTAGCCTTG-CATTCCTGT
46741847 ACTGACAGCGAAGCAGACTGAAGAT
65 ACTGACAGCGAAGCAGACTGAAGAT
*
46741872 AGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAAATCGAAGACA-TCAGCCTTGCATTCCTGT
1 AGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGACACT-AGCCTTGCATTCCTGT
* *
46741936 ACTGACAGCGGAGCAGACTAAAGAT
65 ACTGACAGCGAAGCAGACTGAAGAT
* *
46741961 AGCAGATCTTGCC-TTCTTGTACTGACAGCGAAGTAGGTCGAAGACACCAGCCTTGCATTCCTGT
1 AGCAGATCTTGCCTTTC-TGTACTGACAGCGAAGTAGATCGAAGACACTAGCCTTGCATTCCTGT
* *
46742025 ACTGACAG-TAGGGCAGACTGAAGAT
65 ACTGACAGCGA-AGCAGACTGAAGAT
* * * * * * * *** *
46742050 AACAGATCTTGCCTTCCTGCACTGATAGCGAAGCAGATCAAAGACACCAAAATTGCCTTCCTGTA
1 AGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGACACTAGCCTTGCATTCCTGTA
*
46742115 CTGACAGCGGAGCAGACTGAAGAT
66 CTGACAGCGAAGCAGACTGAAGAT
* * * * *
46742139 AGCAAATCTTGCCTTCCTGTACTGGCAGTGAAGTAGATCGGAAG-CAATAGCCTT
1 AGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATC-GAAGACACTAGCCTT
46742193 ATCTCCTTGA
Statistics
Matches: 272, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
88 5 0.02
89 262 0.96
90 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (89 bp):
AGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGACACTAGCCTTGCATTCCTGTA
CTGACAGCGAAGCAGACTGAAGAT
Found at i:46742082 original size:178 final size:178
Alignment explanation
Indices: 46741762--46742178 Score: 532
Period size: 178 Copynumber: 2.3 Consensus size: 178
46741752 CCTTGAAATT
* * * * * * * * *
46741762 ACAGTGGAGTAGACTAAAAACAGCAGATCTTGCCTTTTTGTACTAACAGTAAAGCAAATCGAAGA
1 ACAGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGA
* * * * *
46741827 CACTAGCCTTGTCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGT
66 CACCAGCCTTGTCTTCCTGTACTGACAGAGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTGC
* * * ***
46741892 ACTGACAGCGAAGTAAATCGAAGACATCAGCCTTGCATTCCTGTACTG
131 ACTGACAGCGAAGCAAATCAAAGACACCAAAATTGCATTCCTGTACTG
* *
46741940 ACAGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGTAGGTCGAAGA
1 ACAGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGA
*
46742005 CACCAGCCTTG-CATTCCTGTACTGACAGTAG-GGCAGACTGAAGATAACAGATCTTGCCTTCCT
66 CACCAGCCTTGTC-TTCCTGTACTGACAG-AGAAGCAGACTGAAGATAACAGATCTTGCCTTCCT
* * *
46742068 GCACTGATAGCGAAGCAGATCAAAGACACCAAAATTGCCTTCCTGTACTG
129 GCACTGACAGCGAAGCAAATCAAAGACACCAAAATTGCATTCCTGTACTG
* * * *
46742118 ACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGGCAGTGAAGTAGATCG
1 ACAGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCG
46742179 GAAGCAATAG
Statistics
Matches: 205, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
177 1 0.00
178 203 0.99
179 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (178 bp):
ACAGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGA
CACCAGCCTTGTCTTCCTGTACTGACAGAGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTGC
ACTGACAGCGAAGCAAATCAAAGACACCAAAATTGCATTCCTGTACTG
Found at i:46742447 original size:50 final size:50
Alignment explanation
Indices: 46742395--46742658 Score: 190
Period size: 50 Copynumber: 5.3 Consensus size: 50
46742385 CCGCAACAGT
* * *
46742395 GAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAATGGT
1 GAATCTTACTTCCTTGGCGGTGCAATGGAAAAGATTGAAGCTACAATGGC
* ** * ** * ** *
46742445 GAATCTTGCTTCCCCGACATTACAATTAAAAAGATTGAAG-TCGCAATGGC
1 GAATCTTACTTCCTTGGCGGTGCAATGGAAAAGATTGAAGCT-ACAATGGC
* * * ***
46742495 GAATCTTACTTCTTTGGTGGTGCAATGGAATAGATTGAAGCTACAACAAC
1 GAATCTTACTTCCTTGGCGGTGCAATGGAAAAGATTGAAGCTACAATGGC
* **** * * * *
46742545 GAATCTTGCTTCCCCAAC-ATTCTAATTGAAAAGATTGAAGCCACAATGGC
1 GAATCTTACTTCCTTGGCGGTGC-AATGGAAAAGATTGAAGCTACAATGGC
* * * * * *
46742595 GAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAACCTACAATAGT
1 GAATCTTACTTCCTTGGCGGTGCAATGGAAAAGATTGAAGCTACAATGGC
46742645 GAATCTTACTTCCT
1 GAATCTTACTTCCT
46742659 CGACATTGTA
Statistics
Matches: 151, Mismatches: 59, Indels: 8
0.69 0.27 0.04
Matches are distributed among these distances:
49 3 0.02
50 146 0.97
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (50 bp):
GAATCTTACTTCCTTGGCGGTGCAATGGAAAAGATTGAAGCTACAATGGC
Found at i:46742550 original size:100 final size:100
Alignment explanation
Indices: 46742377--46742665 Score: 391
Period size: 100 Copynumber: 2.9 Consensus size: 100
46742367 ACAGTGAAAC
** *
46742377 GATTGAAGCCGCAACAGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAT
1 GATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAT
*
46742442 GGTGAATCTTGCTTCCCCGACATTAC-AATTAAAAA
66 AGTGAATCTTGCTTCCCCGACATT-CTAATTAAAAA
* * * * * *
46742477 GATTGAAGTCGCAATGGCGAATCTTACTTCTTTGGTGGTGCAATGGAATAGATTGAAGCTACAAC
1 GATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAT
** * *
46742542 AACGAATCTTGCTTCCCCAACATTCTAATTGAAAA
66 AGTGAATCTTGCTTCCCCGACATTCTAATTAAAAA
* * *
46742577 GATTGAAGCCACAATGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAACCTACAAT
1 GATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAT
* *
46742642 AGTGAATCTTACTTCCTCGACATT
66 AGTGAATCTTGCTTCCCCGACATT
46742666 GTAGTTAATC
Statistics
Matches: 160, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
99 1 0.01
100 159 0.99
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (100 bp):
GATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAAT
AGTGAATCTTGCTTCCCCGACATTCTAATTAAAAA
Found at i:46743101 original size:26 final size:26
Alignment explanation
Indices: 46743072--46743126 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
46743062 ACCAGGCAAA
46743072 ATTGACCTTTCAAAGGTCTTTGCTCC
1 ATTGACCTTTCAAAGGTCTTTGCTCC
46743098 ATTGACCTTTCAAAGGTCTTTGCTCC
1 ATTGACCTTTCAAAGGTCTTTGCTCC
46743124 ATT
1 ATT
46743127 CTCGTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (26 bp):
ATTGACCTTTCAAAGGTCTTTGCTCC
Found at i:46745237 original size:72 final size:72
Alignment explanation
Indices: 46745110--46745245 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
46745100 TTTGAAAAAT
* * *
46745110 GGATCATGCCCAATAAGTTAGGACACAATCTTTTCTTAATTCCTGAGATCGTTTAAAACTTGAAA
1 GGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAAACTTGAAA
46745175 ATAAAGG
66 ATAAAGG
* * ** * * *
46745182 GGATCATGCCTAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGATATCATTTAATACTTGAA
1 GGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAAACTTGAA
46745246 TTTGAAAAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (72 bp):
GGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCATTTAAAACTTGAAA
ATAAAGG
Found at i:46746357 original size:17 final size:17
Alignment explanation
Indices: 46746337--46746428 Score: 67
Period size: 17 Copynumber: 5.0 Consensus size: 17
46746327 AAGAATCTTA
*
46746337 GAAATACGAAAATTTTT
1 GAAACACGAAAATTTTT
*
46746354 GAAAACACGAAAATCTTT
1 G-AAACACGAAAATTTTT
* * *
46746372 AAAATATGAGAAAATTTCTTTT
1 GAAACA--CGAAAA--T-TTTT
46746394 GAAAACACGAAAATTTTT
1 G-AAACACGAAAATTTTT
*
46746412 GAAACACGAGAATTTTT
1 GAAACACGAAAATTTTT
46746429 AAGTTTTTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
17 20 0.34
18 19 0.33
19 6 0.10
21 6 0.10
22 3 0.05
23 4 0.07
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
GAAACACGAAAATTTTT
Found at i:46746654 original size:32 final size:33
Alignment explanation
Indices: 46746578--46746647 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
46746568 AATAAAATTA
* **
46746578 AATACGACTATAAAAAAATGCTTTAAAAAAACCT
1 AATACGA-AATAAAAAAATGCTTTAAAAAAACAG
46746612 AATACGAAATAAAAAAATGC-TT-AAAAAACAAG
1 AATACGAAATAAAAAAATGCTTTAAAAAAAC-AG
46746644 AATA
1 AATA
46746648 TTAAATATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 7 0.22
32 6 0.19
33 12 0.38
34 7 0.22
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.20
Consensus pattern (33 bp):
AATACGAAATAAAAAAATGCTTTAAAAAAACAG
Found at i:46746783 original size:17 final size:16
Alignment explanation
Indices: 46746761--46746817 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 16
46746751 CGACTCGGGC
46746761 TTTTTCCTTATTTTCTT
1 TTTTTCCTT-TTTTCTT
46746778 TTTTTCCTTTTTTTTTCTT
1 TTTTTCC---TTTTTTCTT
46746797 TTTTT-CTTTTTTCTCT
1 TTTTTCCTTTTTTCT-T
46746813 TTTTT
1 TTTTT
46746818 TTTTGGCCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.22
16 6 0.17
17 7 0.19
18 1 0.03
19 12 0.33
20 2 0.06
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCCTTTTTTCTT
Found at i:46746787 original size:9 final size:9
Alignment explanation
Indices: 46746761--46746818 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 9
46746751 CGACTCGGGC
46746761 TTTTTCCTT
1 TTTTTCCTT
*
46746770 ATTTT-CTT
1 TTTTTCCTT
46746778 TTTTTCCTTT
1 TTTTTCC-TT
*
46746788 TTTTTTCTT
1 TTTTTCCTT
46746797 TTTTT-C-T
1 TTTTTCCTT
46746804 TTTTTCTCTT
1 TTTTTC-CTT
46746814 TTTTT
1 TTTTT
46746819 TTTGGCCTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
7 6 0.15
8 8 0.20
9 13 0.32
10 14 0.34
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:46746801 original size:27 final size:28
Alignment explanation
Indices: 46746761--46746821 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
46746751 CGACTCGGGC
*
46746761 TTTTTCCTTATTTTCTTTTTT-TCCTTT
1 TTTTTTCTTATTTTCTTTTTTCTCCTTT
* *
46746788 TTTTTTCTTTTTTTCTTTTTTCTCTTTT
1 TTTTTTCTTATTTTCTTTTTTCTCCTTT
46746816 TTTTTT
1 TTTTTT
46746822 GGCCTGTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (28 bp):
TTTTTTCTTATTTTCTTTTTTCTCCTTT
Found at i:46746818 original size:17 final size:17
Alignment explanation
Indices: 46746761--46746817 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
46746751 CGACTCGGGC
46746761 TTTTTCCTTATTTTCT-T
1 TTTTTCCTT-TTTTCTCT
*
46746778 TTTTTCCTTTTTTTTTCT
1 TTTTTCC-TTTTTTCTCT
*
46746796 TTTTTTCTTTTTTCTCT
1 TTTTTCCTTTTTTCTCT
46746813 TTTTT
1 TTTTT
46746818 TTTTGGCCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 26 0.74
18 9 0.26
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCCTTTTTTCTCT
Found at i:46747142 original size:7 final size:7
Alignment explanation
Indices: 46747132--46747170 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
46747122 TTTTTTCTAT
46747132 TTTTTTC
1 TTTTTTC
46747139 TTTTTTTC
1 -TTTTTTC
46747147 TTTTTTC
1 TTTTTTC
46747154 TTTCTTTC
1 TTT-TTTC
*
46747162 TTTCTTC
1 TTTTTTC
46747169 TT
1 TT
46747171 CTTCTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:46747142 original size:8 final size:8
Alignment explanation
Indices: 46747131--46747164 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
46747121 ATTTTTTCTA
46747131 TTTTTTTC
1 TTTTTTTC
46747139 TTTTTTTC
1 TTTTTTTC
46747147 -TTTTTTC
1 TTTTTTTC
*
46747154 TTTCTTTC
1 TTTTTTTC
46747162 TTT
1 TTT
46747165 CTTCTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:46747150 original size:15 final size:15
Alignment explanation
Indices: 46747132--46747170 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
46747122 TTTTTTCTAT
*
46747132 TTTTTTCTTTTTTTC
1 TTTTTTCTTTCTTTC
46747147 TTTTTTCTTTCTTTC
1 TTTTTTCTTTCTTTC
*
46747162 TTTCTTCTT
1 TTTTTTCTT
46747171 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTCTTTC
Found at i:46747159 original size:4 final size:4
Alignment explanation
Indices: 46747135--46747167 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
46747125 TTTCTATTTT
*
46747135 TTTC TTTT TTTC TTT- TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
46747168 CTTCTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (4 bp):
TTTC
Found at i:46748411 original size:155 final size:155
Alignment explanation
Indices: 46747828--46748592 Score: 1101
Period size: 155 Copynumber: 4.9 Consensus size: 155
46747818 TGGCGTGTGG
* * * * * *
46747828 CCCGAGGCTCAACTCACCTCTAGCATTATGAGTTAATTTTTGAAAAATATAAATTTCAAAG--AT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAAT
* * * *
46747891 ACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGA-TTTTAAAAAACAGA
66 ACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGA
*
46747955 AATTT-AAAGAAATACCTCGGCATGTG
130 AATTTAAAAGAAATACCTCGGCATG-A
* ***
46747981 TCC-AGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAACAGAAATTTAAAAGAAA
1 CCCGA-GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAA
* **
46748045 TACCTCGGCATGCGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAACAGA
65 TACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGA
46748110 AATTTAAAAGAAATACCTCGGCATG-
130 AATTTAAAAGAAATACCTCGGCATGA
* *
46748135 CGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAAATTTAAAAGA
1 C--CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGA
46748200 AATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACA
63 AATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACA
*
46748265 GAAATTTAATAGAAATACCTCGGCATGA
128 GAAATTTAAAAGAAATACCTCGGCATGA
*
46748293 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAAT
* * * *
46748358 ACCTCGGCATGTGACTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
66 ACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAA
*
46748423 ATTTAAAAGAAATACCTCAGCATGA
131 ATTTAAAAGAAATACCTCGGCATGA
* * **
46748448 CCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAACAGAAATTTAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAAT
* * * * *
46748513 ACATTGGCATGTGTCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAA
66 ACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAA
*
46748578 ATATAAAAGAAATAC
131 ATTTAAAAGAAATAC
46748593 AATATGAGTT
Statistics
Matches: 555, Mismatches: 47, Indels: 18
0.90 0.08 0.03
Matches are distributed among these distances:
152 1 0.00
153 49 0.09
154 33 0.06
155 274 0.49
156 87 0.16
157 110 0.20
158 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (155 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAAT
ACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAA
ATTTAAAAGAAATACCTCGGCATGA
Found at i:46748593 original size:78 final size:78
Alignment explanation
Indices: 46747810--46748592 Score: 1085
Period size: 78 Copynumber: 10.1 Consensus size: 78
46747800 CAAAAATTGA
* * * * * * *
46747810 AAATACCTTGGCGTGTGGCCCGAGGCTCAACTCACCTCTAGCATTATGAGTTAATTTTTGAAAAA
1 AAATACCTCGGCATGT-GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAA
* * *
46747875 TATAAATTTCAAAG
65 CAGAAATTTAAAAG
* * * *
46747889 --ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGA-TTTTAAAAAA
1 AAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAA
46747951 CAGAAATTT-AAAG
65 CAGAAATTTAAAAG
**
46747964 AAATACCTCGGCATGTGTCC-AGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAA
1 AAATACCTCGGCATGTGTCCGA-GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAA
46748028 CAGAAATTTAAAAG
65 CAGAAATTTAAAAG
* **
46748042 AAATACCTCGGCATGCGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAAC
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
46748107 AGAAATTTAAAAG
66 AGAAATTTAAAAG
* *
46748120 AAATACCTCGGCATGCGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAAAA
* *
46748185 TAAAAATTTAAAAG
65 CAGAAATTTAAAAG
46748199 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
*
46748264 AGAAATTTAATAG
66 AGAAATTTAAAAG
** *
46748277 AAATACCTCGGCATG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
*
46748341 AGAAATATAAAAG
66 AGAAATTTAAAAG
* * * *
46748354 AAATACCTCGGCATGTGACTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
46748419 AGAAATTTAAAAG
66 AGAAATTTAAAAG
* ** * * *
46748432 AAATACCTCAGCATG-ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAAC
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
46748496 AGAAATTTAAAAG
66 AGAAATTTAAAAG
* * * * *
46748509 AAATACATTGGCATGTGTCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAAC
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
*
46748574 AGAAATATAAAAG
66 AGAAATTTAAAAG
46748587 AAATAC
1 AAATAC
46748593 AATATGAGTT
Statistics
Matches: 639, Mismatches: 55, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
75 5 0.01
76 48 0.08
77 213 0.33
78 300 0.47
79 73 0.11
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (78 bp):
AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAC
AGAAATTTAAAAG
Found at i:46748611 original size:43 final size:43
Alignment explanation
Indices: 46748550--46748635 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
46748540 CACCTCTCGT
*
46748550 AATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAATAC
1 AATATGAGTTGATTTTTGAAAAACAAAAATATAAAAGAAATAC
*
46748593 AATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATAC
1 AATATGAGTTGATTTTTGAAAAACAAAAATATAAAAGAAATAC
46748636 CTCGGCATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (43 bp):
AATATGAGTTGATTTTTGAAAAACAAAAATATAAAAGAAATAC
Found at i:46748699 original size:120 final size:121
Alignment explanation
Indices: 46748474--46748699 Score: 328
Period size: 120 Copynumber: 1.9 Consensus size: 121
46748464 CCTCTCGTAT
* * * *
46748474 TATGAGTTGATTTTAAAAAAACAGAAATTTAAAAGAAATACATTGGCATGTGTCTGAGGCTCAAC
1 TATGAGTTGATTTTAAAAAAACAAAAATTTAAAAGAAATACATCGGCATGTGCCCGAGGCTCAAC
** ***
46748539 TCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAATACAA
66 TCACCTCTCACAATATGAGTTGATTTAAAAAAAACAGAAATATAAAAGAAATACAA
** *
46748595 TATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCATG-GCCCGAGGCTCAAC
1 TATGAGTTGATTTTAAAAAAACAAAAATTTAAAAGAAATACATCGGCATGTGCCCGAGGCTCAAC
*
46748659 TCACCTCTCACATTATGAGTTGATTTAAAAAAAACAGAAAT
66 TCACCTCTCACAATATGAGTTGATTTAAAAAAAACAGAAAT
46748700 TGAAAAATAT
Statistics
Matches: 92, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
120 47 0.51
121 45 0.49
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (121 bp):
TATGAGTTGATTTTAAAAAAACAAAAATTTAAAAGAAATACATCGGCATGTGCCCGAGGCTCAAC
TCACCTCTCACAATATGAGTTGATTTAAAAAAAACAGAAATATAAAAGAAATACAA
Found at i:46755583 original size:18 final size:18
Alignment explanation
Indices: 46755560--46755706 Score: 54
Period size: 18 Copynumber: 7.9 Consensus size: 18
46755550 CACAGGAATT
46755560 TTTTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
*
46755578 TTTTTTTTGGAAATACAAG-AA
1 --TTTTTT-GAAA-ACACGAAA
* * *
46755599 -TCTTAG-AAATACGAAA
1 TTTTTTGAAAACACGAAA
*
46755615 ATTTTTGAAAACACGATAA
1 TTTTTTGAAAACACGA-AA
* *
46755634 -TCTTT-AAAATACGAGAAA
1 TTTTTTGAAAACAC--GAAA
** *
46755652 TTTTTTTTAAACATGAAGA
1 TTTTTTGAAAACACGAA-A
46755671 TTGTTTTTTGAAAACACGAAA
1 ---TTTTTTGAAAACACGAAA
*
46755692 ATTTTTG-AAACACGA
1 TTTTTTGAAAACACGA
46755707 GAAAGAGAAG
Statistics
Matches: 95, Mismatches: 18, Indels: 31
0.66 0.12 0.22
Matches are distributed among these distances:
15 3 0.03
16 4 0.04
17 19 0.20
18 25 0.26
19 9 0.09
20 10 0.11
21 7 0.07
22 18 0.19
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (18 bp):
TTTTTTGAAAACACGAAA
Found at i:46755583 original size:19 final size:20
Alignment explanation
Indices: 46755544--46755584 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
46755534 CGTGATCCGA
* *
46755544 TTGAAACACAGGAATTTTTT
1 TTGAAACACACGAAATTTTT
46755564 TTGAAA-ACACGAAATTTTT
1 TTGAAACACACGAAATTTTT
46755583 TT
1 TT
46755585 TGGAAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (20 bp):
TTGAAACACACGAAATTTTT
Found at i:46755590 original size:21 final size:21
Alignment explanation
Indices: 46755547--46755586 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
46755537 GATCCGATTG
*
46755547 AAACACAGGAATTTTTTTTGA
1 AAACACAGAAATTTTTTTTGA
46755568 AAACAC-GAAATTTTTTTTG
1 AAACACAGAAATTTTTTTTG
46755587 GAAATACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
AAACACAGAAATTTTTTTTGA
Found at i:46755624 original size:17 final size:17
Alignment explanation
Indices: 46755581--46755656 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 17
46755571 CACGAAATTT
46755581 TTTTTGGAAATAC-AAGAA
1 TTTTT-GAAATACGAA-AA
* *
46755599 TCTTAGAAATACGAAAA
1 TTTTTGAAATACGAAAA
* *
46755616 TTTTTGAAAACACGATAA
1 TTTTTG-AAATACGAAAA
* *
46755634 TCTTTAAAATACGAGAAA
1 TTTTTGAAATACGA-AAA
46755652 TTTTT
1 TTTTT
46755657 TTTAAACATG
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
17 20 0.45
18 24 0.55
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTTTGAAATACGAAAA
Found at i:46762071 original size:20 final size:20
Alignment explanation
Indices: 46762046--46762084 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46762036 TTTTCTGCTT
46762046 TGTTTT-TTTCCCTTTTTTGC
1 TGTTTTGTTT-CCTTTTTTGC
*
46762066 TGTTTTGTTTTCTTTTTTG
1 TGTTTTGTTTCCTTTTTTG
46762085 GGGGGGCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.00, C:0.13, G:0.13, T:0.74
Consensus pattern (20 bp):
TGTTTTGTTTCCTTTTTTGC
Found at i:46762157 original size:19 final size:16
Alignment explanation
Indices: 46762118--46762168 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
46762108 ATGCTGTTGC
46762118 GGGTCGGGTCGGATCT
1 GGGTCGGGTCGGATCT
46762134 GGGTCGGGTCGCGATTCGT
1 GGGTCGGGTCG-GA-TC-T
46762153 GGGTCGGGTCGG-TCT
1 GGGTCGGGTCGGATCT
46762168 G
1 G
46762169 ACCCGACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.06
16 13 0.41
17 2 0.06
18 3 0.09
19 12 0.38
ACGTcount: A:0.04, C:0.20, G:0.51, T:0.25
Consensus pattern (16 bp):
GGGTCGGGTCGGATCT
Found at i:46762205 original size:4 final size:4
Alignment explanation
Indices: 46762196--46762251 Score: 78
Period size: 4 Copynumber: 13.8 Consensus size: 4
46762186 AATTTTTTCC
*
46762196 CTTT CTTT CTTT CTTT CTTT -TTT CTTTT CTTTT CTTT CTTT CTTT TTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT C-TTT C-TTT CTTT CTTT CTTT CTTT
46762245 CTTT CTT
1 CTTT CTT
46762252 CTTCTTCTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 3 0.06
4 36 0.75
5 9 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
CTTT
Found at i:46762216 original size:25 final size:24
Alignment explanation
Indices: 46762188--46762251 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 24
46762178 TTTTCAATAA
46762188 TTTTTTCCCTTTCTTTCTTTCTTTC
1 TTTTTT-CCTTTCTTTCTTTCTTTC
*
46762213 TTTTTTCTTTTCTTTTCTTTCTTTC
1 TTTTTTCCTTTC-TTTCTTTCTTTC
*
46762238 TTTTTTTCTTTCTT
1 TTTTTTCCTTTCTT
46762252 CTTCTTCTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.20
25 28 0.80
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTTCCTTTCTTTCTTTCTTTC
Found at i:46762235 original size:9 final size:9
Alignment explanation
Indices: 46762197--46762293 Score: 73
Period size: 9 Copynumber: 10.7 Consensus size: 9
46762187 ATTTTTTCCC
46762197 TTTCTTTC-
1 TTTCTTTCT
46762205 TTTCTTTCTTT
1 TTTCTTTC--T
46762216 TTTCTTTTCT
1 TTTC-TTTCT
46762226 TTTCTTTC-
1 TTTCTTTCT
46762234 TTTCTTT-T
1 TTTCTTTCT
46762242 TTTCTTTCT
1 TTTCTTTCT
46762251 TCTTC-TTCT
1 T-TTCTTTCT
46762260 TCTTC-TTCT
1 T-TTCTTTCT
46762269 TCTTC-TTCT
1 T-TTCTTTCT
46762278 TCTTC-TTCT
1 T-TTCTTTCT
46762287 TCTTCTT
1 T-TTCTT
46762294 CTTCTTCAAG
Statistics
Matches: 81, Mismatches: 0, Indels: 14
0.85 0.00 0.15
Matches are distributed among these distances:
8 22 0.27
9 42 0.52
10 9 0.11
11 4 0.05
12 4 0.05
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:46762237 original size:37 final size:41
Alignment explanation
Indices: 46762196--46762300 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 41
46762186 AATTTTTTCC
46762196 CTTTCTTTCTTTCTTTCTT-TT-TTCTT-TTCTT-TTCTTT
1 CTTTCTTTCTTTCTTTCTTCTTCTTCTTCTTCTTCTTCTTT
*
46762233 CTTTCTTTTTTTCTTTCTTCTTCTTCTTCTTCTTCTTC-TT
1 CTTTCTTTCTTTCTTTCTTCTTCTTCTTCTTCTTCTTCTTT
46762273 C-TTC-TTC-TTC-TTCTTCTTCTTCTTCTTC
1 CTTTCTTTCTTTCTTTCTTCTTCTTCTTCTTC
46762301 AAGCCCTAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
36 18 0.29
37 21 0.34
38 4 0.06
39 8 0.13
40 8 0.13
41 3 0.05
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (41 bp):
CTTTCTTTCTTTCTTTCTTCTTCTTCTTCTTCTTCTTCTTT
Found at i:46762253 original size:3 final size:3
Alignment explanation
Indices: 46762217--46762300 Score: 111
Period size: 3 Copynumber: 28.0 Consensus size: 3
46762207 TCTTTCTTTT
*
46762217 TTC TT- TTC TT- TTC TTTC TTTC TT- TTT TTC TTTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC -TTC TTC TTC TTC TTC
46762262 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
46762301 AAGCCCTAGG
Statistics
Matches: 75, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
2 6 0.08
3 59 0.79
4 10 0.13
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:46762340 original size:15 final size:16
Alignment explanation
Indices: 46762311--46762354 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
46762301 AAGCCCTAGG
*
46762311 TGCTGCCGCCGTCGCT
1 TGCTACCGCCGTCGCT
*
46762327 TGC-ACCGTCGTCGCT
1 TGCTACCGCCGTCGCT
46762342 TGCTACCGCCGTC
1 TGCTACCGCCGTC
46762355 TTCTCCTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.05, C:0.43, G:0.27, T:0.25
Consensus pattern (16 bp):
TGCTACCGCCGTCGCT
Found at i:46762692 original size:30 final size:29
Alignment explanation
Indices: 46762649--46762792 Score: 189
Period size: 30 Copynumber: 4.9 Consensus size: 29
46762639 TAATTTTGAG
*
46762649 AAAATTTAAGGGTCATAATGTAATTTCAA
1 AAAATTTAAGGGTCAAAATGTAATTTCAA
*
46762678 AAAATTTTATGGGTCAAAATGTAATTTCAA
1 AAAA-TTTAAGGGTCAAAATGTAATTTCAA
* * * *
46762708 AAAATTTAGGGGTCAAAATATAATTTTAGG
1 AAAATTTAAGGGTCAAAATGTAATTTCA-A
*
46762738 AAAATTTAAGGGTCAAAATGCAATTTCAA
1 AAAATTTAAGGGTCAAAATGTAATTTCAA
* *
46762767 AAAGTTTAAGGGCCAAAATGTAATTT
1 AAAATTTAAGGGTCAAAATGTAATTT
46762793 TTTATTTTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 48 0.48
30 51 0.52
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (29 bp):
AAAATTTAAGGGTCAAAATGTAATTTCAA
Found at i:46762721 original size:59 final size:59
Alignment explanation
Indices: 46762649--46762792 Score: 191
Period size: 59 Copynumber: 2.4 Consensus size: 59
46762639 TAATTTTGAG
* * *
46762649 AAAATTTAAGGGTCATAATGTAATTTCA-AAAAATTTTATGGGTCAAAATGTAATTTCAA
1 AAAATTTAAGGGTCAAAATGTAATTTCAGAAAAA-TTTAAGGGTCAAAATGCAATTTCAA
* * * *
46762708 AAAATTTAGGGGTCAAAATATAATTTTAGGAAAATTTAAGGGTCAAAATGCAATTTCAA
1 AAAATTTAAGGGTCAAAATGTAATTTCAGAAAAATTTAAGGGTCAAAATGCAATTTCAA
* *
46762767 AAAGTTTAAGGGCCAAAATGTAATTT
1 AAAATTTAAGGGTCAAAATGTAATTT
46762793 TTTATTTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 69 0.95
60 4 0.05
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (59 bp):
AAAATTTAAGGGTCAAAATGTAATTTCAGAAAAATTTAAGGGTCAAAATGCAATTTCAA
Found at i:46764619 original size:44 final size:43
Alignment explanation
Indices: 46764545--46764652 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
46764535 TGCTATCTGC
* * * *
46764545 AACTTCAGAGAGATAAGATCTTTGGTTTTAAT-TCGCTCCATTGA
1 AACTTCAGGGAGATAAGAT-TTTGGCTTTAATCT-ACTCCACTGA
* *
46764589 AACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGT
1 AACTTCAGGGAGATAAGATT-TTGGCTTTAATCTACTCCACTGA
46764633 AACTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
46764653 CTCAATCTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 53 0.96
45 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (43 bp):
AACTTCAGGGAGATAAGATTTTGGCTTTAATCTACTCCACTGA
Found at i:46764686 original size:44 final size:44
Alignment explanation
Indices: 46764638--46764737 Score: 173
Period size: 44 Copynumber: 2.3 Consensus size: 44
46764628 ACTGTAACTT
* *
46764638 CAGGGAGATAAGATTCTCAATCTTCAACCTATTCCCCTGCTGAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTGCTGAC
*
46764682 CAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTGCTGAC
46764726 CAGGGAGATAAG
1 CAGGGAGATAAG
46764738 GCTGGATGCG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (44 bp):
CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTGCTGAC
Found at i:46764897 original size:88 final size:87
Alignment explanation
Indices: 46764788--46765233 Score: 423
Period size: 88 Copynumber: 5.1 Consensus size: 87
46764778 ATATGTAATC
* * * * *
46764788 TTTAACCTGCTCCACTACCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCACTGTCAGT
1 TTTAACCTGCTCCACTGCAACC-AGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGGC
* *
46764853 ACAAGAAGGCAAGATCTGCTATC
65 ACAGGAAGGCAAGATCTGCTATT
* * * * * * *
46764876 TTTAACCTGTTCTC-CTGCCACCAAGGGAGGCAAGGTTAGTGTCTTCAATCTACTCCGCT-ACTG
1 TTTAACCTGCTC-CACTGCAACC-AGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGG
** * ** *
46764939 CTTAGGGAGATAAGATCT-ATAATT
64 CACAGGAAGGCAAGATCTGCT-ATT
* * * * * ** * * *
46764963 TTCAACCTACTCCACAGCTACTCAAGGAGATAAGGCTGGAGTCTTCGATCTACTTTGCTGTCGGC
1 TTTAACCTGCTCCACTGCAAC-CAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGGC
*
46765028 GCAGGAAGGCAAGATCTGCTATT
65 ACAGGAAGGCAAGATCTGCTATT
** *
46765051 TTTAACCTGCTCTGCTGCAACCTAGGGAGGCAAGGCT-GATGTCTTCGATCTGCTTCGCTGTCGG
1 TTTAACCTGCTCCACTGCAACC-AGGGAGGCAAGGCTAG-TGTCTTCGATCTACTTCGCTGTCGG
* *
46765115 CGCAGGAAGGTAAGATCTGCTATT
64 CACAGGAAGGCAAGATCTGCTATT
* * * *
46765139 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGCGTCTTCGATCTGCTTCGCTGTCGGC
1 TTTAACCTGCTCCACTGCAA-CCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGGC
*
46765204 ACAGGAAGGCAAGATCTGTTATT
65 ACAGGAAGGCAAGATCTGCTATT
46765227 TTTAACC
1 TTTAACC
46765234 GATCTACTCT
Statistics
Matches: 290, Mismatches: 58, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
86 2 0.01
87 58 0.20
88 225 0.78
89 5 0.02
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (87 bp):
TTTAACCTGCTCCACTGCAACCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGGCA
CAGGAAGGCAAGATCTGCTATT
Found at i:46765049 original size:175 final size:173
Alignment explanation
Indices: 46764748--46765233 Score: 526
Period size: 175 Copynumber: 2.8 Consensus size: 173
46764738 GCTGGATGCG
* * * *
46764748 ATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATCTTTAACCTGCTCCACTA-CCACCGA
1 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAAT-TTTAACCTGCTCCAC-AGCAACC-A
* * * * * * *
46764812 GGGAGGCAAGGCTAGTGTCTTCGATCTACTTCACTGTCAGTACAAGAAGGCAAGATCTGCTATCT
63 GGGAGGCAAGGCTGGAGTCTTCGATCTACTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTT
* * *
46764877 TTAACCTGTTCTCCTGCCACCAAGGGAGGCAAGG-TTAGTGTCTTCA
128 TTAACCTGCTCTCCTGCAACCAAGGGAGGCAAGGCTGA-TGTCTTCA
* * * *
46764923 ATCTACTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTTCAACCTACTCCACAGCTACTCAA
1 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTT-AACCTGCTCCACAGCAAC-CAG
** * *
46764988 GGAGATAAGGCTGGAGTCTTCGATCTACTTTGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTT
64 GGAGGCAAGGCTGGAGTCTTCGATCTACTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTTT
* * *
46765053 TAACCTGCTCTGCTGCAACCTAGGGAGGCAAGGCTGATGTCTTCG
129 TAACCTGCTCTCCTGCAACCAAGGGAGGCAAGGCTGATGTCTTCA
* * * ** * * * * * *
46765098 ATCTGCTTCGCTGTCGGCGCAGGAAGGTAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
1 ATCTGCTCCGCT-ACTGCTTAGGGAGATAAGATCT-ATAATTTTAACCTGCTCCACAGCAA-CCA
* * *
46765163 GGGAGGCAAGGCTGGCGTCTTCGATCTGCTTCGCTGTCGGCACAGGAAGGCAAGATCTGTTATTT
63 GGGAGGCAAGGCTGGAGTCTTCGATCTACTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTT
46765228 TTAACC
128 TTAACC
46765234 GATCTACTCT
Statistics
Matches: 258, Mismatches: 46, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
174 4 0.02
175 150 0.58
176 97 0.38
177 7 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (173 bp):
ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTTAACCTGCTCCACAGCAACCAGGG
AGGCAAGGCTGGAGTCTTCGATCTACTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTTTTA
ACCTGCTCTCCTGCAACCAAGGGAGGCAAGGCTGATGTCTTCA
Found at i:46765084 original size:44 final size:43
Alignment explanation
Indices: 46765029--46765172 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 43
46765019 GCTGTCGGCG
*
46765029 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAC
1 CAGGGAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAC
* * * * ** * **
46765072 CTAGGGAGGCAAG-GCTGATGTCTTCGATCTGCT-TCGCTGTCGGC
1 C-AGGGAGGCAAGATCTGCTATTTTTAACCTGCTCT-GCTG-CAAC
* * *
46765116 GCAGGAAGGTAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 -CAGGGAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAA-C
46765161 CAGGGAGGCAAG
1 CAGGGAGGCAAG
46765173 GCTGGCGTCT
Statistics
Matches: 70, Mismatches: 24, Indels: 13
0.65 0.22 0.12
Matches are distributed among these distances:
42 1 0.01
43 18 0.26
44 32 0.46
45 19 0.27
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (43 bp):
CAGGGAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAC
Found at i:46765198 original size:43 final size:43
Alignment explanation
Indices: 46765064--46765198 Score: 101
Period size: 44 Copynumber: 3.1 Consensus size: 43
46765054 AACCTGCTCT
* **
46765064 GCTGCAACCTAGGGAGGCAAGGCTGATGTCTTCGATCTGCTTC
1 GCTGCAACCCAGGGAGGCAAGGCTGGCGTCTTCGATCTGCTTC
** * * * * * * ** * *
46765107 GCTGTCGGCGCAGGAAGGTAAGATCT-GCTATTTTTAACCTGCTCC
1 GCTG-CAACCCAGGGAGGCAAG-GCTGGC-GTCTTCGATCTGCTTC
46765152 GCTGCAACCCAGGGAGGCAAGGCTGGCGTCTTCGATCTGCTTC
1 GCTGCAACCCAGGGAGGCAAGGCTGGCGTCTTCGATCTGCTTC
46765195 GCTG
1 GCTG
46765199 TCGGCACAGG
Statistics
Matches: 61, Mismatches: 27, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 20 0.33
44 25 0.41
45 16 0.26
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.25
Consensus pattern (43 bp):
GCTGCAACCCAGGGAGGCAAGGCTGGCGTCTTCGATCTGCTTC
Found at i:46780288 original size:13 final size:13
Alignment explanation
Indices: 46780270--46780296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46780260 AAAGAGATTT
46780270 GTTTTCTAGTGAA
1 GTTTTCTAGTGAA
46780283 GTTTTCTAGTGAA
1 GTTTTCTAGTGAA
46780296 G
1 G
46780297 AATTGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (13 bp):
GTTTTCTAGTGAA
Found at i:46780346 original size:19 final size:19
Alignment explanation
Indices: 46780322--46780366 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46780312 AATGTCTCTT
*
46780322 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
46780341 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
46780360 TATGCAT
1 TTTGCAT
46780367 AAAAAGCGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:46780570 original size:31 final size:31
Alignment explanation
Indices: 46780532--46780593 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
46780522 ACCGACTTCA
46780532 GCTACAAGTGCAAGAGCGGTTGGACAAGATG
1 GCTACAAGTGCAAGAGCGGTTGGACAAGATG
*
46780563 GCTACAAGTGCATGAGCGGTTGGACAAGATG
1 GCTACAAGTGCAAGAGCGGTTGGACAAGATG
46780594 CAACAGGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.35, T:0.18
Consensus pattern (31 bp):
GCTACAAGTGCAAGAGCGGTTGGACAAGATG
Found at i:46784313 original size:89 final size:89
Alignment explanation
Indices: 46784151--46784953 Score: 1203
Period size: 89 Copynumber: 9.0 Consensus size: 89
46784141 GAGCAAGTTG
* * * * *
46784151 AAAGATAATAGATCTTGCCTTCCCATACTGGCGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
46784216 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * * *
46784240 AAAAATACCATATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAACAGATCTTATCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
46784305 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
46784329 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAAAGATCTTGACT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
46784394 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * *
46784418 AAAAATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAAAGATCTTGACT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
46784483 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * *
46784507 AAAAATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAAAGATCTTGACT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
46784572 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * * *
46784596 AAAGATAACAGATCTTGACTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAACAAATCTTGTTT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
* * *
46784661 TCATGTACTGGCATGAAGTGGTTC
66 TCATGTACTGGCGTGAAGTAGATC
*
46784685 AAAGATAACAGATCTTGTCTTCCGATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
46784750 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
** * * * *
46784774 AAAGATAACAGATCTTACCTTCCCATACTGGCGGCGAAGCAGATCTAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
*
46784839 TCATGTACTGGCATGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * * * *
46784863 AAATATACCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAA-AAGAACAGACCTTGTC
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA-AACAGATCTTGTC
*
46784927 TTCATGTATTGGCGTGAAGTAGATC
65 TTCATGTACTGGCGTGAAGTAGATC
46784952 AA
1 AA
46784954 GCACAGCAGA
Statistics
Matches: 651, Mismatches: 62, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
88 2 0.00
89 649 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (89 bp):
AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
TCATGTACTGGCGTGAAGTAGATC
Found at i:46785070 original size:44 final size:44
Alignment explanation
Indices: 46785006--46785215 Score: 162
Period size: 44 Copynumber: 4.8 Consensus size: 44
46784996 ATATCTGGTC
* * *
46785006 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGACAGATCT
* * * *
46785050 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGACAGATCT
* * *
46785094 TACCTCCCTAGGGCTA-CAGTGGAGTACATTG-A-A-GCCAGTAAT-T
1 TATCTCCCTA-GGC-AGCAGTGGAGTAGATTGAAGATGACAG--ATCT
* * * *
46785137 CTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGATGACAAATTT
1 -TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGACAGATCT
* * *
46785182 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAG
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG
46785216 CCAGTATTCC
Statistics
Matches: 131, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
42 5 0.04
43 17 0.13
44 69 0.53
45 35 0.27
46 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGACAGATCT
Found at i:46785158 original size:88 final size:88
Alignment explanation
Indices: 46785050--46785232 Score: 289
Period size: 88 Copynumber: 2.1 Consensus size: 88
46785040 TTACAGATCT
* * *
46785050 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCT-AGGGCTACAGT
1 TATCTCCCTAGGCAGTAGTGGAGCAGATCGAAGATGACAAATTTTACCTCCCTGA-GGCTACAGT
46785114 GGAGTACATTGAAGCCAGTAATT-C
65 GGAGTACATTGAAGCCAGT-ATTCC
* *
46785138 TATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGATGACAAATTTTACCTCCCTGAGGTTACAGTG
1 TATCTCCCTAGGCAGTAGTGGAGCAGATCGAAGATGACAAATTTTACCTCCCTGAGGCTACAGTG
46785203 GAGTACATTGAAGCCAGTATTCC
66 GAGTACATTGAAGCCAGTATTCC
46785226 TATCTCC
1 TATCTCC
46785233 TTGAAGTTGT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
87 3 0.03
88 84 0.95
89 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (88 bp):
TATCTCCCTAGGCAGTAGTGGAGCAGATCGAAGATGACAAATTTTACCTCCCTGAGGCTACAGTG
GAGTACATTGAAGCCAGTATTCC
Found at i:46787764 original size:17 final size:17
Alignment explanation
Indices: 46787742--46787774 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46787732 TTATTTGATA
46787742 TATTTGA-ATTTTACTAT
1 TATTTGATA-TTTACTAT
46787759 TATTTGATATTTACTA
1 TATTTGATATTTACTA
46787775 GAGCAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
TATTTGATATTTACTAT
Found at i:46788269 original size:18 final size:20
Alignment explanation
Indices: 46788246--46788282 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
46788236 ATTTGGAAAC
46788246 TATAATTTA-AC-TAATAAT
1 TATAATTTATACATAATAAT
46788264 TATAATTTATACATAATAA
1 TATAATTTATACATAATAA
46788283 GATTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATTTATACATAATAAT
Found at i:46803625 original size:26 final size:26
Alignment explanation
Indices: 46803589--46803638 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
46803579 TTTTTCACCT
46803589 AAAACTCAAAAATCCCTCATTTGATG
1 AAAACTCAAAAATCCCTCATTTGATG
* *
46803615 AAAACTCAAAAGTCTCTCATTTGA
1 AAAACTCAAAAATCCCTCATTTGA
46803639 AATTATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAACTCAAAAATCCCTCATTTGATG
Found at i:46812387 original size:24 final size:24
Alignment explanation
Indices: 46812354--46812400 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
46812344 ATTTGTAAAT
46812354 GGGCTAATTGGGTTTAGTTTGTTG
1 GGGCTAATTGGGTTTAGTTTGTTG
*
46812378 GGGCTGATTGGGTTTAGTTTGTT
1 GGGCTAATTGGGTTTAGTTTGTT
46812401 TGGGTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.11, C:0.04, G:0.38, T:0.47
Consensus pattern (24 bp):
GGGCTAATTGGGTTTAGTTTGTTG
Found at i:46813018 original size:39 final size:39
Alignment explanation
Indices: 46812964--46813150 Score: 132
Period size: 39 Copynumber: 4.6 Consensus size: 39
46812954 TCCGCTCCAC
*
46812964 TGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGT
1 TGTAATCTCAGGGAGATAAGATCTACTA-CTTCAATCTGT
* * **
46813003 TGTAATCTCAGGGAGATAAGATCTGAC-ACGATCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCT-ACTAC-TTC-AATCTGT
* * * * *
46813044 TGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCT
1 TGTAATC-TCAGGGAGATAAGAT-CTACTACTTCAATCTG-T
*
46813084 CCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGT
1 ----TGTAATCTCAGGGAGATAAGATCTACTA-CTTCAATCTGT
46813127 TGTAATCTCAGGGAGATAAGATCT
1 TGTAATCTCAGGGAGATAAGATCT
46813151 GACACGATCT
Statistics
Matches: 111, Mismatches: 21, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
39 46 0.41
40 7 0.06
41 26 0.23
42 3 0.03
43 3 0.03
44 25 0.23
45 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (39 bp):
TGTAATCTCAGGGAGATAAGATCTACTACTTCAATCTGT
Found at i:46813475 original size:175 final size:175
Alignment explanation
Indices: 46813255--46813938 Score: 1113
Period size: 175 Copynumber: 3.9 Consensus size: 175
46813245 ATCTGCTCCG
* ** * * *
46813255 CTGTAATCTCA-GGAAGATAAGATCTGACACGATCTACTATACTGTAACTTCAAAGAGATAAGAT
1 CTGTAATCTCAGGGAA-ATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGAT
** * *
46813319 CCTTTA-TTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCC
65 CC-TTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCC
*
46813383 GCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCA
129 GCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCA
* * *
46813430 CTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTTAGATAGATAAGATC
1 CTGTAATCTCAGGGAAATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATC
* * * *
46813495 CTTTA-TTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCG
66 C-TTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCG
46813559 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCA
130 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCA
* * *
46813605 CTGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCCACTGTAACTTCAGAGAGATAAGATT
1 CTGTAATCTCAGGGAAATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATC
46813670 CTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGC
66 CTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGC
46813735 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCA
131 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCA
* *
46813780 CTGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATT
1 CTGTAATCTCAGGGAAATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATC
46813845 CTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGC
66 CTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGC
46813910 TGTAATCTCAGGGAGATAAGATCTGAAAT
131 TGTAATCTCAGGGAGATAAGATCTGAAAT
46813939 GATCTACTAT
Statistics
Matches: 486, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
174 3 0.01
175 479 0.99
176 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (175 bp):
CTGTAATCTCAGGGAAATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATC
CTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGC
TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCA
Found at i:46813626 original size:46 final size:45
Alignment explanation
Indices: 46813003--46814970 Score: 533
Period size: 44 Copynumber: 45.5 Consensus size: 45
46812993 TTCAATCTGT
* *
46813003 TGTAATCTCAGGGAGATAAGATCTG-A--C-ACGATCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* ** * **
46813044 TGTAA-CTTCAGAGAGATAAGATCCTTTATT-TT-AATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTCGATCTACTCCAC
* * * * *
46813088 TGTAATCTCAGGGAGATAGGAT-T-ACTAGCTTCAATCT-GT----
1 TGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTACTCCAC
* *
46813127 TGTAATCTCAGGGAGATAAGATCTG-A--C-ACGATCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* ** * **
46813168 TGTAA-CTTCAGAGAGATAAGATCCTTTATT-TT-AATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTCGATCTACTCCAC
* * * * * *
46813212 TGTAATCTCAGGGAGATAGGAT-T-ACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTACTCCAC
* * **
46813256 TGTAATCTCAGGAAGATAAGATCTG-A--C-ACGATCTACTATAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
** ** * *
46813297 TGTAA-CTTCAAAGAGATAAGATCCTTTATT-TT-AATCTGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTCGATCTACTCCAC
* * * * * *
46813341 TGTAATCTCAGGGAGATAGGAT-T-ACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTACTCCAC
* **
46813385 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* * * *
46813431 TGTAATCTCAGGGAAATAAGACCTG-A---TGCGATCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* ** ** * **
46813472 TGTAA-CTTTAGATAGATAAGATCCTTTATT-TT-AATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTCGATCTACTCCAC
* * * * * * *
46813516 TGTAATCTCAAGGAGATAGGAT-T-ACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTACTCCAC
* *
46813560 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* * * * *
46813606 TGTAATCTCAGGGAAATAAGACCTG----GTGCGATCGACTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* * * * *
46813647 TGTAA-CTTCAGAGAGATAAGATTCTTAGTT-TT-AATCCACTCCAC
1 TGTAATC-TCAGGGAGATAAGA-TCTGAATTCTTCGATCTACTCCAC
* * * * * *
46813691 TGTAATATCAGGGAGAT-AGAAT-T-ACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAG-ATCTGAAT-TCTTCGATCTACTCCAC
* *
46813735 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* * * * * *
46813781 TGTAATCTCAGGGAAATAAGACCTG----GTGCGATCGACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* * * * *
46813822 TGTAA-CTTCAGAGAGATAAGATTCTTAGTT-TT-AATCCACTCCAC
1 TGTAATC-TCAGGGAGATAAGA-TCTGAATTCTTCGATCTACTCCAC
* * * * * *
46813866 TGTAATATCAGGGAGAT-AGAAT-T-ACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAG-ATCTGAAT-TCTTCGATCTACTCCAC
* **
46813910 TGTAATCTCAGGGAGATAAGATCTGAA---AT-GATCTACTATAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
** ** * *
46813951 TGTAA-CTTCAAAGAGATAAGATCCTTTATT-TT-AATCTGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTCGATCTACTCCAC
* * * * * *
46813995 TGTAATCTCAGGGAGATAGGAT-T-ACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTACTCCAC
**
46814039 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTC-AGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGA-TCTACTCCAC
* * * * * * **
46814085 TGTAATCTAAGGGAAATAAGACCTG----GTGCGATCTGCTTTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* ** **
46814126 TGTAA-CTTCAGAGAGATAAGATC------CTTTAATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* * * * *
46814165 TGTAATCTCAGGGAGATAGGATTACT-AGCTTCAATCTGATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGA-T-CTGA-ATTC-TTC-GATCTACTCCAC
* **
46814214 TGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* * * * * **
46814260 TGTAATCTCAGGGAAATAAGACCTG----GTGCGATCTGCTTTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* ** * **
46814301 TGTAA-CTTCAGAGAGATAAGATCCTTTATT-TT-AATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTCGATCTACTCCAC
* * * * *
46814345 TGTAATCTCAGGGAGATAGGAT-T-ACCA-TATTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGA--ATTCTTCGATCTACTCCAC
* **
46814389 TGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* * * * * *
46814435 TGTAATCTCAGGGAAATAAGACCTG----GTGCGATCTGCTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* ** ** *
46814476 TGTAA-CTTCAGAGAGATAAGATC------CTTTAATCCGCTCAAC
1 TGTAATC-TCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
** * * * * *
46814515 TGTAATCTCAGGGAGATGGGAT-T-ACTATATTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTACTCCAC
* **
46814559 TGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* * * * * *
46814605 TGTAATCTCAGGGAAATAAGACCTG----GTGCGATGTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* ** ** *
46814646 TGTAA-CTTCAGAGAGATAAGA--T--A--CTTTAATCCGCTCAAC
1 TGTAATC-TCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
** * * * * *
46814685 TGTAATCTCAGGGAGATGGGAT-T-ACTATATTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTACTCCAC
* **
46814729 TGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* * * * *
46814775 TGTAATCTCAGGGAAATAAGACCTG----GTGCGATCTACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
* * * **
46814816 TGTAA-CTTCAGAGAGATAAGATCCTTG-GTT-TT-AATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-C-TGAATTCTTCGATCTACTCCAC
* * * * *
46814860 TGTAATCTCAGGGAGATAGGAT-T-ACCA-TATTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGA--ATTCTTCGATCTACTCCAC
* **
46814904 TGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCAC
1 TGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGATCTACTCCAC
* *
46814950 CGTAATCTCAGGGAAATAAGA
1 TGTAATCTCAGGGAGATAAGA
46814971 CCTGTATAAT
Statistics
Matches: 1424, Mismatches: 340, Indels: 321
0.68 0.16 0.15
Matches are distributed among these distances:
36 5 0.00
37 2 0.00
39 99 0.07
40 18 0.01
41 314 0.22
42 31 0.02
43 32 0.02
44 534 0.38
45 29 0.02
46 306 0.21
47 19 0.01
48 5 0.00
49 30 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (45 bp):
TGTAATCTCAGGGAGATAAGATCTGAATTCTTCGATCTACTCCAC
Found at i:46813968 original size:304 final size:301
Alignment explanation
Indices: 46813645--46814238 Score: 944
Period size: 304 Copynumber: 2.0 Consensus size: 301
46813635 GATCGACTCC
* *
46813645 ACTGTAACTTCAGAGAGATAAGATTC-TTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATA
1 ACTGTAACTTCAAAGAGATAAGATCCTTTA-TTTTAATCCACTCCACTGTAATATCAGGGAGATA
*
46813709 GAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
65 GAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCT
*
46813774 ATTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC-GACTCTACTGTAACTTCAGAGAGA
130 ATTCCACTGTAATCTAAGGGAAATAAGACCTGGTGCGATCTG-CTCTACTGTAACTTCAGAGAGA
*
46813838 TAAGATTCTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTC-A-AT
194 TAAGA-TC----CTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATAT
46813901 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATGATCTACTAT
254 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATGATCTACTAT
** *
46813949 ACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAG
1 ACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATATCAGGGAGATAG
* *
46814014 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTG
66 AATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTA
*
46814079 TTCCACTGTAATCTAAGGGAAATAAGACCTGGTGCGATCTGCTTTACTGTAACTTCAGAGAGATA
131 TTCCACTGTAATCTAAGGGAAATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATA
* * *
46814144 AGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGATCTGC
196 AGATCCTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAA--T-ATCTGC
46814209 TCCGCTGTAATCTCAGGGAGATAAGATCTG
258 TCCGCTGTAATCTCAGGGAGATAAGATCTG
46814239 CAATTCTTCG
Statistics
Matches: 269, Mismatches: 14, Indels: 14
0.91 0.05 0.05
Matches are distributed among these distances:
299 44 0.16
300 1 0.00
303 2 0.01
304 218 0.81
305 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (301 bp):
ACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATATCAGGGAGATAG
AATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTA
TTCCACTGTAATCTAAGGGAAATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATA
AGATCCTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATATCTGCTCC
GCTGTAATCTCAGGGAGATAAGATCTGAAATGATCTACTAT
Found at i:46814024 original size:479 final size:477
Alignment explanation
Indices: 46813127--46814413 Score: 1706
Period size: 479 Copynumber: 2.7 Consensus size: 477
46813117 TTCAATCTGT
* * *** * *
46813127 TGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC
1 TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC
46813192 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
66 -TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
* * * * ** ** *
46813257 GTAATCTCAGGAAGATAAGATCTG-A--C-ACGATCTACTATACTGTAA-CTTCAAAGAGATAAG
130 GTAATCTCAGGGAGATAAGATCTGAATTCTTCGGTCTATTCCACTGTAATC-TCAGGGAAATAAG
** *** * * * * * *
46813317 ATCCTTTATTTTAATCTGCTCCACTGTAA-TCTCAGGGAGATAGGATTAC-TAGCTTCAATCTGC
194 A-CC--TGGTGCGATCTGCTCTACTGTAACT-TCAGAGAGATAAGATT-CTTAGTTTTAATCCGC
* ** * *
46813380 TCCGCTGTAATCTCAGGGAGATA-AGATCTGA-AATTCTTCGGTCTGTTCCACTGTAATCTCAGG
254 TCCACTGTAATCTCAGGGAGATAGA-AT-T-ACAA-TCTTCAATCTGCTCCGCTGTAATCTCAGG
* * ** * * * *
46813443 GAAATAAGACCTGATGCGATCTACTCTACTGTAACTTTAGATAGATAAGATCCTTTATTTTAATC
315 GAGATAAGATCTGAAACGATCTACTATACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATC
46813508 CGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGG
380 CGCTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGG
*
46813573 AGATAAGATCTGAAATTCTTCGGTCTATTCCAC
445 AGATAAGATCTGAAATTCTTCAGTCTATTCCAC
*
46813606 TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCCACTGTAACTTCAGAGAGATAAGATTC
1 TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC
* * *
46813671 TTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCT
66 TTA-TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
46813736 GTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAG
130 GTAATCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAG
*
46813801 ACCTGGTGCGATC-GACTCTACTGTAACTTCAGAGAGATAAGATTCTTAGTTTTAATCCACTCCA
194 ACCTGGTGCGATCTG-CTCTACTGTAACTTCAGAGAGATAAGATTCTTAGTTTTAATCCGCTCCA
* * *
46813865 CTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
258 CTGTAATCTCAGGGAGATAGAATTACAATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAG
* *
46813930 ATCTGAAATGATCTACTATACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCTGCTCCAC
323 ATCTGAAACGATCTACTATACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
46813995 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
388 TGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
*
46814060 TCTGAAATTCTTCAGTCTGTTCCAC
453 TCTGAAATTCTTCAGTCTATTCCAC
* *
46814085 TGTAATCTAAGGGAAATAAGACCTGGTGCGATCTG-CTTTACTGTAACTTCAGAGAGATAAGA-T
1 TGTAATCTCAGGGAAATAAGACCTGGTGCGATC-GACTCTACTGTAACTTCAGAGAGATAAGATT
*
46814148 C---CTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGATCTGCT
65 CTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC-A----ATCTGCT
*
46814210 CCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAA
125 CCGCTGTAATCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAA
* *
46814275 ATAAGACCTGGTGCGATCTGCTTTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTAATCCG
189 ATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATTC-TTAGTTTTAATCCG
* * *
46814339 CTCCACTGTAATCTCAGGGAGATAGGATTACCATATTCAATCTGCTCCGCTGTAATCTCAGGGAG
253 CTCCACTGTAATCTCAGGGAGATAGAATTACAATCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
46814404 ATAAGATCTG
318 ATAAGATCTG
46814414 CAATTCTTCG
Statistics
Matches: 718, Mismatches: 70, Indels: 40
0.87 0.08 0.05
Matches are distributed among these distances:
474 44 0.06
475 1 0.00
478 5 0.01
479 565 0.79
480 9 0.01
481 63 0.09
482 2 0.00
483 3 0.00
484 25 0.03
485 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (477 bp):
TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC
TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
TAATCTCAGGGAGATAAGATCTGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAGAC
CTGGTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATTCTTAGTTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGAATTACAATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
TGAAACGATCTACTATACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
GAAATTCTTCAGTCTATTCCAC
Found at i:46814067 original size:129 final size:129
Alignment explanation
Indices: 46812845--46814064 Score: 1062
Period size: 129 Copynumber: 9.5 Consensus size: 129
46812835 CGCAATGTCG
* * * * * * * * * * **
46812845 GGGAGATAGAATTACTGGCTTCTATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACACGA
* *
46812910 TCTACACTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
46812974 GGGAGATAGGATTACTAGCTTCAATCTG-T----TGTAATCTCAGGGAGATAAGATCTGACACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACACGA
*
46813034 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
46813098 GGGAGATAGGATTACTAGCTTCAATCTG-T----TGTAATCTCAGGGAGATAAGATCTGACACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACACGA
*
46813158 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
* *
46813222 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGATCTGACACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACACGA
* *
46813287 TCTACTATACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
*
46813351 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG--A--C
* * ** * * * * *** * *
46813416 TTCGGTCTGTTCCACTGTAA-TCTCAGGGAAATAAGA-CC-TGA-TGCGATCTACTCTACTGTAA
62 -ACGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAA
*
46813477 -CTTTA
125 TC-TCA
** * * * * * * *
46813482 GATAGATAAGATCCT-TTA-TTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACT-AG
1 GGGAGATAGGAT--TACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-
* * * ** * ** ** **
46813544 CTTCAATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTATTCCACT
61 C-ACGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCT-TTATT-TT-AATCTGCTCCACT
46813607 GTAATCTCA
121 GTAATCTCA
* * * * * * * *
46813616 GGGAAATAAGA--CCT-GGTGCGATC-GACTCCACTGTAA-CTTCAGAGAGATAAGATTCTTAGT
1 GGGAGATAGGATTACTAGCTTCAATCTG-CTCCACTGTAATC-TCAGGGAGATAAGA-TC-T-GA
**** * * * * * * *
46813676 TTTAATCCACTCCACTGTAA-TATCAGGGAGAT-AGAAT--TACTAGCTTCAATCTGCTCCGCTG
61 CACGATCTACTCTACTGTAACT-TCAGAGAGATAAG-ATCCT-TTA-TTTTAATCTGCTCCACTG
46813737 TAATCTCA
122 TAATCTCA
* * * ** ** * * ***
46813745 GGGAGATAAGATCTGA-AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
1 GGGAGATAGGAT-T-ACTA-GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACA
* * ** *
46813809 CGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC-TTAGTTTTAATCCACTCCACTGTAATA
63 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTAATCTGCTCCACTGTAATC
46813873 TCA
127 TCA
* * * *
46813876 GGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACACGA
* *
46813941 TCTACTATACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
*
46814005 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA
46814065 AATTCTTCAG
Statistics
Matches: 910, Mismatches: 135, Indels: 92
0.80 0.12 0.08
Matches are distributed among these distances:
124 239 0.26
125 1 0.00
128 1 0.00
129 381 0.42
130 15 0.02
131 178 0.20
132 10 0.01
133 8 0.01
134 75 0.08
135 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACACGA
TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
Found at i:46814090 original size:175 final size:173
Alignment explanation
Indices: 46813900--46814974 Score: 1691
Period size: 175 Copynumber: 6.2 Consensus size: 173
46813890 CTAGCTTCAA
* * * * **** * *
46813900 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATGATCTACTATACTGTAACTTCAAAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
* **
46813965 GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCC--TATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAAT
* *
46814030 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAG
129 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
* * *
46814075 TCTGTTCCACTGTAATCTAAGGGAAATAAGACCTGGTGCGATCTGCTTTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
*
46814140 GATAAGATCC---TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
66 GATAAGATCCTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA---T-ATTC-
*
46814202 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
126 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
* *
46814250 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTTTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
*
46814315 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCATATTCAAT
66 GATAAGATCC--TATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAAT
46814380 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
129 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
*
46814425 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
* *
46814490 GATAAGATCC---TTTAATCCGCTCAACTGTAATCTCAGGGAGATGGGATTACTATATTCAATCT
66 GATAAGATCCTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAATCT
46814552 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
131 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
*
46814595 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATGTACTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
* * *
46814660 GATAAGA---TACTTTAATCCGCTCAACTGTAATCTCAGGGAGATGGGATTACTATATTCAATCT
66 GATAAGATCCTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAATCT
46814722 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
131 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
46814765 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
* *
46814830 GATAAGATCCTTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCATATTCAAT
66 GATAAGATCC-T-ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAAT
46814895 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
129 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
*
46814940 TCTGTTCCACCGTAATCTCAGGGAAATAAGACCTG
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG
46814975 TATAATGAAC
Statistics
Matches: 846, Mismatches: 36, Indels: 36
0.92 0.04 0.04
Matches are distributed among these distances:
170 369 0.44
174 3 0.00
175 429 0.51
176 3 0.00
177 1 0.00
180 41 0.05
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (173 bp):
TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAATCT
GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
Found at i:46814090 original size:350 final size:343
Alignment explanation
Indices: 46813329--46814974 Score: 1319
Period size: 350 Copynumber: 4.7 Consensus size: 343
46813319 CCTTTATTTT
* * * * * * *
46813329 AATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTAGCTTCAATCTGCTCCGCTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCAGTCTGTTCCACTGTAATC
* * *
46813392 TCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAA-TCTCAGGGAAATAAGA-CCT
65 TCAGGGAAATAAGACCTG--ATTCTTCGGTCTGTTCCACTGTAACT-TCAGAGAAATAAGATCCT
* ** * * *
46813455 GATGCGATCTACTCTACTGTAA-CTTTAGATAGATAAGATCCT-TTATTTTAATCCGCTCCACTG
127 --T-CAATCCGCTCTACTGTAATC-TCAGAGAGATAAGAT--TACTATTTTAATCCGCTCCACTG
* * * * *
46813518 TAATCTCAAGGAGATAGGAT-TACTA-GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
186 TAATCTCAGGGAGATAAGATCTACAATGCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAAGA
* * * ** * * ** ***
46813581 TCTGAAATTCTTCGGTCTATTCCACTGTAA-TCTCAGGGAAATAAGACCTGGTGCGAT-CGACTC
251 CCTGAAA-----CGATCTACTATACTGTAACT-TCAGAGAGATAAGACCTATTTTAATCCG-CTC
* * * *
46813644 CACTGTAA-CTTCAGAGAGATAAGATT-CTTAGTTTT
309 CACTGTAATC-TCAGGGAGATAGGATTAC-TAGATTC
** * * * * * * *
46813679 AATCCACTCCACTGTAATATCAGGGAGAT-AGAAT-T-ACTAGCTTCAATCTGCTCCGCTGTAAT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAG-ATCTGAAT-TCTTCAGTCTGTTCCACTGTAAT
* * * *
46813741 CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAA-TCTCAGGGAAATAAGA-CC
64 CTCAGGGAAATAAGACCTG--ATTCTTCGGTCTGTTCCACTGTAACT-TCAGAGAAATAAGATCC
* *
46813804 TGGTGCGAT-CGACTCTACTGTAA-CTTCAGAGAGATAAGATT-CTTAGTTTTAATCCACTCCAC
126 T--T-CAATCCG-CTCTACTGTAATC-TCAGAGAGATAAGATTAC-TA-TTTTAATCCGCTCCAC
* * * *
46813866 TGTAATATCAGGGAGAT-AGAAT-TACTA-GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATA
184 TGTAATCTCAGGGAGATAAG-ATCTACAATGCTTCAATCTGCTCCACTGTAATCTCAGGGAAATA
* * * *
46813928 AGATCTGAAATGATCTACTATACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCTGCTCC
248 AGACCTGAAACGATCTACTATACTGTAACTTCAGAGAGATAAGA-CC--TATTTTAATCCGCTCC
*
46813993 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
310 ACTGTAATCTCAGGGAGATAGGATTACTAGATTC
46814027 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGTTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG-AATTCTTCAGTCTGTTCCACTGTAATC
* * * * * * *
46814092 TAAGGGAAATAAGACCTG---GTGCGATCTGCTT-TACTGTAACTTCAGAGAGATAAGATCCTTT
65 TCAGGGAAATAAGACCTGATTCTTCGGTCTG-TTCCACTGTAACTTCAGAGAAATAAGATCCTTC
* * * * * *
46814153 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGATCTGCTCCGCTGTA
129 AATCCGCTCTACTGTAATCTCAGAGAGATAAGATTACTA--TT---T-TAATCCGCTCCACTGTA
* * ** *
46814218 ATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACC
188 ATCTCAGGGAGATAAGATCTACAATGCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACC
*** * *
46814283 TGGTGCGATCTGCTTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
253 TGAAACGATCTACTATACTGTAACTTCAGAGAGATAAGA-CC--TATTTTAATCCGCTCCACTGT
* *
46814348 AATCTCAGGGAGATAGGATTACCATATTC
315 AATCTCAGGGAGATAGGATTACTAGATTC
*
46814377 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG-AATTCTTCAGTCTGTTCCACTGTAATC
* * * * * * *
46814442 TCAGGGAAATAAGACCTG---GTGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
65 TCAGGGAAATAAGACCTGATTCTTCGGTCTGTTCCACTGTAACTTCAGAGAAATAAGATCCTTCA
* * ** * * *
46814504 ATCCGCTCAACTGTAATCTCAGGGAGATGGGATTACTATATTCAATCTGCTCCGCTGTAATCTCA
130 ATCCGCTCTACTGTAATCTCAGAGAGATAAGATTACTAT-TTTAATCCGCTCCACTGTAATCTCA
* * ** * ***
46814569 GGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGC
194 GGGAGATAAGATCTACAATGCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGAAAC
* * * *
46814634 GATGTACTCTACTGTAACTTCAGAGAGATAAGA--TACTTTAATCCGCTCAACTGTAATCTCAGG
259 GATCTACTATACTGTAACTTCAGAGAGATAAGACCTATTTTAATCCGCTCCACTGTAATCTCAGG
* *
46814697 GAGATGGGATTACTATATTC
324 GAGATAGGATTACTAGATTC
*
46814717 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG-AATTCTTCAGTCTGTTCCACTGTAATC
* * * ** * *
46814782 TCAGGGAAATAAGACCTG---GTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGG
65 TCAGGGAAATAAGACCTGATTCTTCGGTCTGTTCCACTGTAACTTCAGAGAAATAAGATCC----
* * * * * * * *
46814844 TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCATATTCAATCTGCTCCGCTGTAA
126 -TTCAATCCGCTCTACTGTAATCTCAGAGAGATAAGATTACTAT-TTTAATCCGCTCCACTGTAA
* * ** * *
46814909 TCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACCGTAATCTCAGGGAAATAAGACCT
189 TCTCAGGGAGATAAGATCTACAATGCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACCT
46814974 G
254 G
46814975 TATAATGAAC
Statistics
Matches: 1156, Mismatches: 103, Indels: 79
0.86 0.08 0.06
Matches are distributed among these distances:
340 168 0.15
343 28 0.02
344 7 0.01
345 291 0.25
346 10 0.01
347 1 0.00
348 90 0.08
349 17 0.01
350 542 0.47
351 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (343 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAATTCTTCAGTCTGTTCCACTGTAATCT
CAGGGAAATAAGACCTGATTCTTCGGTCTGTTCCACTGTAACTTCAGAGAAATAAGATCCTTCAA
TCCGCTCTACTGTAATCTCAGAGAGATAAGATTACTATTTTAATCCGCTCCACTGTAATCTCAGG
GAGATAAGATCTACAATGCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGAAACGA
TCTACTATACTGTAACTTCAGAGAGATAAGACCTATTTTAATCCGCTCCACTGTAATCTCAGGGA
GATAGGATTACTAGATTC
Found at i:46814380 original size:654 final size:649
Alignment explanation
Indices: 46813127--46814583 Score: 2381
Period size: 654 Copynumber: 2.2 Consensus size: 649
46813117 TTCAATCTGT
* * *** * *
46813127 TGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC
1 TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC
46813192 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
66 -TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
* *
46813257 GTAATCTCAGGAAGATAAGATCTGACACGATCTACTATACTGTAACTTCAAAGAGATAAGATCCT
130 GTAATCTCAGGGAGATAAGATCTGAAACGATCTACTATACTGTAACTTCAAAGAGATAAGATCCT
46813322 TTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
195 TTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
* *
46813387 TAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
260 TAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGTTCCACTGTAATCTAAGGGAAATAAGA
* *
46813452 CCTGATGCGATCTACTCTACTGTAACTTTAGATAGATAAGATCCTTTATTTTAATCCGCTCCACT
325 CCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC----TTTTAATCCGCTCCACT
46813517 GTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
386 GTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
46813582 CTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCCAC
451 CTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCCAC
*
46813647 TGTAACTTCAGAGAGATAAGATTCTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAA
516 TGTAACTTCAGAGAGATAAGATCCTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAA
* *
46813712 TTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATT
581 TTACCAGATTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATT
46813777 CCAC
646 CCAC
46813781 TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC
1 TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC
* * *
46813846 TTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCT
66 TTA-TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
*
46813911 GTAATCTCAGGGAGATAAGATCTGAAATGATCTACTATACTGTAACTTCAAAGAGATAAGATCCT
130 GTAATCTCAGGGAGATAAGATCTGAAACGATCTACTATACTGTAACTTCAAAGAGATAAGATCCT
46813976 TTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
195 TTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
46814041 TAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGTTCCACTGTAATCTAAGGGAAATAAGA
260 TAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGTTCCACTGTAATCTAAGGGAAATAAGA
* * *
46814106 CCTGGTGCGATCTGCTTTACTGTAACTTCAGAGAGATAAGATCC-TTTAATCCGCTCCACTGTAA
325 CCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTAATCCGCTCCACTGTAA
*
46814170 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
390 TCTCAAGGAGATAGGATTACTAGCTTC-A----ATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* * **
46814235 TCTGCAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTG-CTTT
450 TCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC-GACTCC
* *
46814299 ACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
514 ACTGTAACTTCAGAGAGATAAGATCC-TTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATA
* * *
46814363 GGATTACCATATTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
578 GAATTACCAGATTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
*
46814428 GTTCCAC
643 ATTCCAC
46814435 TGTAATCTCAGGGAAATAAGACCTGGTGCGATCTG-CTCTACTGTAACTTCAGAGAGATAAGA-T
1 TGTAATCTCAGGGAAATAAGACCTGGTGCGATC-GACTCTACTGTAACTTCAGAGAGATAAGATT
* * * **
46814498 C---CTTTAATCCGCTCAACTGTAATCTCAGGGAGATGGGATTACTATATTCAATCTGCTCCGCT
65 CTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCT
46814560 GTAATCTCAGGGAGATAAGATCTG
130 GTAATCTCAGGGAGATAAGATCTG
46814584 CAATTCTTCG
Statistics
Matches: 752, Mismatches: 42, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
649 123 0.16
650 1 0.00
653 5 0.01
654 618 0.82
655 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (649 bp):
TGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCTACTGTAACTTCAGAGAGATAAGATTC
TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
TAATCTCAGGGAGATAAGATCTGAAACGATCTACTATACTGTAACTTCAAAGAGATAAGATCCTT
TATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT
AATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGTTCCACTGTAATCTAAGGGAAATAAGAC
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTAATCCGCTCCACTGTAAT
CTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA
ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCGACTCCACTGTAA
CTTCAGAGAGATAAGATCCTTAGTTTTAATCCACTCCACTGTAATATCAGGGAGATAGAATTACC
AGATTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCAC
Found at i:46816036 original size:21 final size:21
Alignment explanation
Indices: 46816010--46816056 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
46816000 GGTATAGCAG
46816010 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
46816031 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
46816052 GATCA
1 GATCA
46816057 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:46816170 original size:10 final size:10
Alignment explanation
Indices: 46816150--46816181 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
46816140 CCATTTTTAC
46816150 TTTTTCA-TT
1 TTTTTCATTT
46816159 TTTTT-ATTT
1 TTTTTCATTT
46816168 TTTTTCATTT
1 TTTTTCATTT
46816178 TTTT
1 TTTT
46816182 GACTCAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 12 0.57
10 8 0.38
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:46817047 original size:10 final size:9
Alignment explanation
Indices: 46817010--46817113 Score: 57
Period size: 9 Copynumber: 10.6 Consensus size: 9
46817000 AAACCTCTCC
46817010 TTTTTCTTT
1 TTTTTCTTT
46817019 TTATTT-TTCT
1 TT-TTTCTT-T
46817029 TTTTTCTTT
1 TTTTTCTTT
46817038 TTTTTCCTTT
1 TTTTT-CTTT
46817048 TTTTTGACTTCGAT
1 TTTTT--CTT---T
*
46817062 TTTTTTTATT
1 TTTTTCT-TT
*
46817072 TTTTTGTTT
1 TTTTTCTTT
* *
46817081 TTTTTGTTG
1 TTTTTCTTT
*
46817090 TTTTTGTTT
1 TTTTTCTTT
*
46817099 TTTTTGTGTT
1 TTTTTCT-TT
46817109 TTTTT
1 TTTTT
46817114 TAGTCTGAAC
Statistics
Matches: 80, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
9 38 0.47
10 31 0.39
11 3 0.04
12 1 0.01
13 1 0.01
14 6 0.08
ACGTcount: A:0.04, C:0.07, G:0.08, T:0.82
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:46817108 original size:17 final size:17
Alignment explanation
Indices: 46817061--46817111 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
46817051 TTGACTTCGA
* *
46817061 TTTTTTTTATTTTTTTG
1 TTTTTTTTGTGTTTTTG
46817078 TTTTTTTTGTTGTTTTTG
1 TTTTTTTTG-TGTTTTTG
46817096 TTTTTTTTGTGTTTTT
1 TTTTTTTTGTGTTTTT
46817112 TTTAGTCTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (17 bp):
TTTTTTTTGTGTTTTTG
Found at i:46819187 original size:19 final size:20
Alignment explanation
Indices: 46819158--46819206 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
46819148 CACTTCGTGA
* *
46819158 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
46819177 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
46819197 AAATG-AATGC
1 AAATGTAATGC
46819207 CTAGAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:46824607 original size:12 final size:12
Alignment explanation
Indices: 46824590--46824617 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46824580 TTGAGTTTTA
46824590 AAAAAAATCAGT
1 AAAAAAATCAGT
46824602 AAAAAAATCAGT
1 AAAAAAATCAGT
46824614 AAAA
1 AAAA
46824618 TCAGTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAAATCAGT
Found at i:46824619 original size:21 final size:22
Alignment explanation
Indices: 46824593--46824635 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
46824583 AGTTTTAAAA
46824593 AAAATCAGTAAAA-AAATCAGT
1 AAAATCAGTAAAATAAATCAGT
*
46824614 AAAATCAGTAAAATATATCAGT
1 AAAATCAGTAAAATAAATCAGT
46824636 CAGATGTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (22 bp):
AAAATCAGTAAAATAAATCAGT
Found at i:46834346 original size:32 final size:32
Alignment explanation
Indices: 46834310--46834374 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
46834300 TTGTGTAAGT
*
46834310 ACTAAGTAATTCGATATCAATTTGAGATTGTG
1 ACTAAGTAATCCGATATCAATTTGAGATTGTG
46834342 ACTAAGTAATCCGATATCAATTTGAGATTGTG
1 ACTAAGTAATCCGATATCAATTTGAGATTGTG
46834374 A
1 A
46834375 AATTTTCAAT
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:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (32 bp):
ACTAAGTAATCCGATATCAATTTGAGATTGTG
Found at i:46836470 original size:9 final size:9
Alignment explanation
Indices: 46836458--46836569 Score: 54
Period size: 10 Copynumber: 12.2 Consensus size: 9
46836448 TTTATAATTT
46836458 TTTTTATAA
1 TTTTTATAA
46836467 -TTTTAT-A
1 TTTTTATAA
*
46836474 TATTTTATAT
1 T-TTTTATAA
*
46836484 TCTTTTACAA
1 T-TTTTATAA
46836494 TTTTTATAAA
1 TTTTTAT-AA
* *
46836504 ATTTTACAA
1 TTTTTATAA
*
46836513 CTTTTTTAAAA
1 --TTTTTATAA
*
46836524 TTTTTTACAA
1 -TTTTTATAA
*
46836534 TTTTTATATT
1 TTTTTATA-A
*
46836544 TTTTTCTAA
1 TTTTTATAA
46836553 TTTTT-T-A
1 TTTTTATAA
46836560 TTTTT-TAA
1 TTTTTATAA
46836568 TT
1 TT
46836570 AAAATTTAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 17
0.72 0.12 0.15
Matches are distributed among these distances:
7 8 0.10
8 10 0.12
9 25 0.31
10 31 0.38
11 7 0.09
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:46836498 original size:19 final size:18
Alignment explanation
Indices: 46836476--46836566 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 18
46836466 ATTTTATATA
46836476 TTTTATATTCTTTTACAAT
1 TTTTATATT-TTTTACAAT
**
46836495 TTTTATAAAATTTTACAACTT
1 TTTTAT-ATTTTTTACAA--T
*
46836516 TTTTAAAATTTTTTACAAT
1 TTTT-ATATTTTTTACAAT
*
46836535 TTTTATATTTTTTTCTAAT
1 TTTTATATTTTTTAC-AAT
46836554 TTTT-TATTTTTTA
1 TTTTATATTTTTTA
46836567 ATTAAAATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
18 17 0.29
19 26 0.44
20 1 0.02
21 14 0.24
22 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATATTTTTTACAAT
Found at i:46836538 original size:10 final size:10
Alignment explanation
Indices: 46836486--46836559 Score: 57
Period size: 9 Copynumber: 7.5 Consensus size: 10
46836476 TTTTATATTC
46836486 TTTTACAATT
1 TTTTACAATT
*
46836496 TTTATA-AA-A
1 TTT-TACAATT
46836505 TTTTACAACTT
1 TTTTACAA-TT
*
46836516 TTTTAAAATT
1 TTTTACAATT
46836526 TTTTACAA-T
1 TTTTACAATT
*
46836535 TTTTA-TATT
1 TTTTACAATT
*
46836544 TTTTTCTAATT
1 TTTTAC-AATT
46836555 TTTTA
1 TTTTA
46836560 TTTTTTAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
8 3 0.06
9 16 0.33
10 14 0.29
11 16 0.33
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTACAATT
Found at i:46837499 original size:22 final size:22
Alignment explanation
Indices: 46837464--46837511 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
46837454 ATAATTTTTT
*
46837464 AATA-AAATTCTAAAATATAAA
1 AATATAAATTCTAAAAAATAAA
* *
46837485 AATATAAATTTTAAAAAATCAA
1 AATATAAATTCTAAAAAATAAA
46837507 AATAT
1 AATAT
46837512 TATATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AATATAAATTCTAAAAAATAAA
Found at i:46837503 original size:32 final size:30
Alignment explanation
Indices: 46837446--46837511 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
46837436 TCAAAAAATT
**
46837446 ATATAAAAATAATTTTTTAATAAAATTCTAAA
1 ATATAAAAATAAAATTTTAATAAAA-TC-AAA
46837478 ATATAAAAATATAAATTTTAA-AAAATCAAA
1 ATATAAAAATA-AAATTTTAATAAAATCAAA
46837508 ATAT
1 ATAT
46837512 TATATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.23
31 2 0.06
32 15 0.48
33 7 0.23
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
ATATAAAAATAAAATTTTAATAAAATCAAA
Found at i:46837725 original size:21 final size:21
Alignment explanation
Indices: 46837699--46837747 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
46837689 AGAATTTTGA
*
46837699 TTTTTTAT-ATATTTAAAATGT
1 TTTTTTATCA-ATTTAAAATAT
*
46837720 TTTTTT-TCAATTTTAAATAT
1 TTTTTTATCAATTTAAAATAT
46837740 TTTTTTAT
1 TTTTTTAT
46837748 TTTTTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTATCAATTTAAAATAT
Found at i:46837770 original size:25 final size:24
Alignment explanation
Indices: 46837742--46837799 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 24
46837732 TTAAATATTT
46837742 TTTTATTTTTTTTCATAATTTTAT-A
1 TTTTATTTTTTTT--TAATTTTATGA
*
46837767 TTTTATATTTTTTTTAATTTTATGT
1 TTTTAT-TTTTTTTTAATTTTATGA
46837792 TTTTATTT
1 TTTTATTT
46837800 AAAATATGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 11 0.37
25 12 0.40
26 7 0.23
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTTTTTAATTTTATGA
Found at i:46837770 original size:27 final size:27
Alignment explanation
Indices: 46837719--46837797 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
46837709 ATTTAAAATG
*
46837719 TTTTTTTTCAATTTTAAATATTTTTTTA
1 TTTTTTTTCAATTTT-AATATTTTTATA
46837747 TTTTTTTTCATAATTTT-ATA-TTTTATA
1 TTTTTTTTC--AATTTTAATATTTTTATA
*
46837774 TTTTTTTT-AATTTT-ATGTTTTTAT
1 TTTTTTTTCAATTTTAATATTTTTAT
46837798 TTAAAATATG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
24 8 0.17
25 6 0.13
27 14 0.30
28 12 0.26
30 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (27 bp):
TTTTTTTTCAATTTTAATATTTTTATA
Found at i:46837781 original size:18 final size:17
Alignment explanation
Indices: 46837760--46837801 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
46837750 TTTTTCATAA
46837760 TTTTATATTTTATATTTT
1 TTTTA-ATTTTATATTTT
*
46837778 TTTTAATTTTATGTTTT
1 TTTTAATTTTATATTTT
46837795 TATTTAA
1 T-TTTAA
46837802 AATATGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTAATTTTATATTTT
Found at i:46837784 original size:24 final size:25
Alignment explanation
Indices: 46837742--46837799 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
46837732 TTAAATATTT
46837742 TTTTAT-TTTTTTTCATAATTTTATA
1 TTTTATATTTTTTT-ATAATTTTATA
*
46837767 TTTTATATTTTTTT-TAATTTTATG
1 TTTTATATTTTTTTATAATTTTATA
46837791 TTTT-TATTT
1 TTTTATATTT
46837800 AAAATATGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 5 0.16
24 13 0.42
25 6 0.19
26 7 0.23
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTATATTTTTTTATAATTTTATA
Found at i:46838579 original size:15 final size:15
Alignment explanation
Indices: 46838559--46838598 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
46838549 CAAACACGAG
46838559 TTGTTCTCAATATAA
1 TTGTTCTCAATATAA
46838574 TTGTTCTCAATATAA
1 TTGTTCTCAATATAA
46838589 TTGTTCTCAA
1 TTGTTCTCAA
46838599 CATAGAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (15 bp):
TTGTTCTCAATATAA
Found at i:46840900 original size:111 final size:111
Alignment explanation
Indices: 46840663--46840864 Score: 269
Period size: 111 Copynumber: 1.8 Consensus size: 111
46840653 TCCATTAGAA
* * * * * *
46840663 TATGTTGGGCTGAGTAACCGGGGTGGGGTGTTTGGTTGTCATCTCTCTTCGCGTCAAAAGGTTCA
1 TATGTAGGACTGAGTAACCGAGGTGGGATGCTTGGTTGTCATCTCTCTTCACGTCAAAAGGTTCA
* * *
46840728 ATATATTCTTAAGAAAAAAACACATATAAATATAATAAATTAGGAG
66 ATATATTCTTAAGAAAAAAACAAAAATAAATATAATAAATTAGCAG
* * * *
46840774 TATGTTGGGCTGAGTAATCGAGGTGGGATGCTTGGTTGTCATCTCTCTTCACGTTAAAAGGTTCA
1 TATGTAGGACTGAGTAACCGAGGTGGGATGCTTGGTTGTCATCTCTCTTCACGTCAAAAGGTTCA
* *
46840839 ATATATTCTTAAGCAAAAAAGAAAAA
66 ATATATTCTTAAGAAAAAAACAAAAA
46840865 GTAATAATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 81 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (111 bp):
TATGTAGGACTGAGTAACCGAGGTGGGATGCTTGGTTGTCATCTCTCTTCACGTCAAAAGGTTCA
ATATATTCTTAAGAAAAAAACAAAAATAAATATAATAAATTAGCAG
Found at i:46842238 original size:21 final size:21
Alignment explanation
Indices: 46842212--46842272 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
46842202 AATTCTGTTT
46842212 ATTTTTACAATTTCAATTTCA
1 ATTTTTACAATTTCAATTTCA
* *
46842233 ATTTTTACAATCTCAATTTTA
1 ATTTTTACAATTTCAATTTCA
*
46842254 ATTTATACAATTTCAATTT
1 ATTTTTACAATTTCAATTT
46842273 GTCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTTACAATTTCAATTTCA
Found at i:46845366 original size:4 final size:4
Alignment explanation
Indices: 46845357--46845383 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46845347 GGAACACCAA
46845357 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
46845384 CAAAGAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:46848911 original size:71 final size:70
Alignment explanation
Indices: 46848835--46848976 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 70
46848825 AATTTGAAGG
46848835 AAGTGACAAAAATAATTTAACTATCTAACGTGACGTAAGTGCTTTAAATTATGAA-TTTTTTTAT
1 AAGTGACAAAAATAATTTAACTATCTAACGTGACGTAAGTGC-TTAAATTAT-AATTTTTTTTAT
46848899 TTTTAGT
64 TTTTAGT
* * *
46848906 AAGTGACGAAAATAATTTAACTATCTAACGTGATGTGAGTGCTTAAATTATAATTTTTTTTATTT
1 AAGTGACAAAAATAATTTAACTATCTAACGTGACGTAAGTGCTTAAATTATAATTTTTTTTATTT
46848971 TTAGT
66 TTAGT
46848976 A
1 A
46848977 TCTAAAATAA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
69 2 0.03
70 26 0.39
71 39 0.58
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (70 bp):
AAGTGACAAAAATAATTTAACTATCTAACGTGACGTAAGTGCTTAAATTATAATTTTTTTTATTT
TTAGT
Found at i:46848996 original size:71 final size:71
Alignment explanation
Indices: 46848842--46848993 Score: 193
Period size: 70 Copynumber: 2.2 Consensus size: 71
46848832 AGGAAGTGAC
*
46848842 AAAAATAATTTAACTATCTAACGTGACGTAAGTGCTTTAAATTATGAATTTTTTTATTTTTAGTA
1 AAAAAAAATTTAACTATCTAACGTGACGTAAGTGCTTTAAATTATGAATTTTTTTATTTTTAGTA
* *
46848907 AGTGAC
66 ACTGAA
* * * *
46848913 GAAAATAATTTAACTATCTAACGTGATGTGAGTGC-TTAAATTAT-AATTTTTTTTATTTTTAGT
1 AAAAAAAATTTAACTATCTAACGTGACGTAAGTGCTTTAAATTATGAA-TTTTTTTATTTTTAGT
*
46848976 ATCT-AA
65 AACTGAA
46848982 AATAAAAAATTT
1 AA-AAAAAATTT
46848994 TAATAGGTGA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
69 4 0.06
70 35 0.49
71 32 0.45
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.43
Consensus pattern (71 bp):
AAAAAAAATTTAACTATCTAACGTGACGTAAGTGCTTTAAATTATGAATTTTTTTATTTTTAGTA
ACTGAA
Found at i:46849329 original size:6 final size:6
Alignment explanation
Indices: 46849318--46849354 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
46849308 GAGTTTTTTT
46849318 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA T
46849355 AATTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAATA
Found at i:46849436 original size:16 final size:17
Alignment explanation
Indices: 46849381--46849433 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
46849371 TGTAATCATT
46849381 ATTTATAATTTTTATAATAA
1 ATTT-TAATTTTT-TAAT-A
* *
46849401 ATTTT-ATATTTTAGTA
1 ATTTTAATTTTTTAATA
46849417 ATTTTAATTTTTTAATA
1 ATTTTAATTTTTTAATA
46849434 TTTCTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 6 0.21
17 12 0.43
18 5 0.18
19 1 0.04
20 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTTTAATTTTTTAATA
Found at i:46850158 original size:17 final size:18
Alignment explanation
Indices: 46850136--46850170 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
46850126 TTGAGTGGTA
46850136 AAATTTAATTA-AAAATT
1 AAATTTAATTACAAAATT
46850153 AAATTTAATTACAAAATT
1 AAATTTAATTACAAAATT
46850171 TAATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTAATTACAAAATT
Found at i:46850169 original size:30 final size:31
Alignment explanation
Indices: 46850135--46850204 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 31
46850125 ATTGAGTGGT
46850135 AAAATTTAATTAAAAATT-AAA-TTTAATTA-C
1 AAAATTTAATT-AAAATTCAAAGTTTAA-TAGC
*
46850165 AAAATTTAA-TAAAATTCAAAGTTTAATAGT
1 AAAATTTAATTAAAATTCAAAGTTTAATAGC
46850195 AAAATTTAAT
1 AAAATTTAAT
46850205 CACTAAATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 6 0.17
29 6 0.17
30 23 0.66
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (31 bp):
AAAATTTAATTAAAATTCAAAGTTTAATAGC
Found at i:46850189 original size:17 final size:18
Alignment explanation
Indices: 46850159--46850192 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46850149 AATTAAATTT
46850159 AATTACAAAATTTAATAA
1 AATTACAAAATTTAATAA
*
46850177 AATT-CAAAGTTTAATA
1 AATTACAAAATTTAATA
46850193 GTAAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTACAAAATTTAATAA
Found at i:46853003 original size:1 final size:1
Alignment explanation
Indices: 46852999--46853055 Score: 87
Period size: 1 Copynumber: 57.0 Consensus size: 1
46852989 TTAGGGGGGG
* **
46852999 TTTTTTTTTTTTTTTTTTTTTTTTTCTTTTGNTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46853056 GTAAAGCTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.02, G:0.02, T:0.95
Consensus pattern (1 bp):
T
Done.