Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold154
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: 1945843
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 156 characters in sequence are not A, C, G, or T
File 7 of 12
Found at i:884845 original size:20 final size:20
Alignment explanation
Indices: 884820--884858 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
884810 AAAATGCCTG
*
884820 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGTAA
884840 AATGTATCGATACAATGTA
1 AATGTATCGATACAATGTA
884859 TCGATACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACAATGTAA
Found at i:884856 original size:13 final size:13
Alignment explanation
Indices: 884840--884869 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
884830 TACATTGTAA
884840 AATGTATCGATAC
1 AATGTATCGATAC
884853 AATGTATCGATAC
1 AATGTATCGATAC
884866 AATG
1 AATG
884870 CAAAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:884857 original size:33 final size:33
Alignment explanation
Indices: 884820--884951 Score: 139
Period size: 33 Copynumber: 4.1 Consensus size: 33
884810 AAAATGCCTG
* *
884820 AATGTATCGATACATTGTAAAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATAC
884853 AATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATAC
* * * ** *
884886 -A--TCTGGGTA-AACCCAGAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATAC
*
884915 AATGTATCGATACAATG-AGCAATGTATCGATAC
1 AATGTATCGATACAATGCA-AAATGTATCGATAC
884948 AATG
1 AATG
884952 AACAATGTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
29 17 0.21
30 6 0.08
32 7 0.09
33 50 0.62
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:884939 original size:20 final size:20
Alignment explanation
Indices: 884913--884969 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
884903 ATGTATCGAT
884913 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
884933 GCAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
884953 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
884970 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:884950 original size:13 final size:13
Alignment explanation
Indices: 884902--884931 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
884892 GTAAACCCAG
884902 AATGTATCGATAC
1 AATGTATCGATAC
884915 AATGTATCGATAC
1 AATGTATCGATAC
884928 AATG
1 AATG
884932 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:894011 original size:31 final size:30
Alignment explanation
Indices: 893973--894055 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 30
893963 TATATGTTTT
893973 AGAAATAAAACTAGGGTTGGAGTATCCCTTC
1 AGAAATAAAAC-AGGGTTGGAGTATCCCTTC
*
894004 AGAAAT--AACGGGGTTGGAGTATCCCTTC
1 AGAAATAAAACAGGGTTGGAGTATCCCTTC
* * *
894032 GGAAAT--AACAGAGTTAGAGTATCC
1 AGAAATAAAACAGGGTTGGAGTATCC
894056 TCGATTGTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
28 38 0.81
29 3 0.06
31 6 0.13
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (30 bp):
AGAAATAAAACAGGGTTGGAGTATCCCTTC
Found at i:894021 original size:28 final size:28
Alignment explanation
Indices: 893985--894055 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
893975 AAATAAAACT
893985 AGGGTTGGAGTATCCCTTCAGAAATAAC
1 AGGGTTGGAGTATCCCTTCAGAAATAAC
* *
894013 GGGGTTGGAGTATCCCTTCGGAAATAAC
1 AGGGTTGGAGTATCCCTTCAGAAATAAC
* *
894041 AGAGTTAGAGTATCC
1 AGGGTTGGAGTATCC
894056 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (28 bp):
AGGGTTGGAGTATCCCTTCAGAAATAAC
Found at i:894089 original size:107 final size:107
Alignment explanation
Indices: 893903--894135 Score: 317
Period size: 107 Copynumber: 2.2 Consensus size: 107
893893 TGGAGATAAA
* * * *
893903 AACGGGGTTGGAGTATCCCTTCGAAAATAATGGGTTTGGAGTATTCTCAATTGTGAAAAATATAT
1 AACGGGGTTGGAGTATCCCTTCGAAAATAAAGAGTTTAGAGTATCCTCAATTGTGAAAAATATAT
* * * *
893968 GTTTTAGAAATAAAACTAGGGTTGGAGTATCCCTTCAGAAAT
66 ATTTTAGAAATAAAACCAAGGTTGGAGTATCCCATCAGAAAT
* * *
894010 AACGGGGTTGGAGTATCCCTTCGGAAATAACAGAG-TTAGAGTATCCTCGATTGTGAAAAGT-TG
1 AACGGGGTTGGAGTATCCCTTCGAAAATAA-AGAGTTTAGAGTATCCTCAATTGTGAAAAATAT-
* *
894073 GTATTTTAGAAATAAAACCAAGGTTGGTGTATCCCATCAGAAAT
64 ATATTTTAGAAATAAAACCAAGGTTGGAGTATCCCATCAGAAAT
894117 AACGGGGTTGGAGTATCCC
1 AACGGGGTTGGAGTATCCC
894136 CGATTGTGGA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
106 1 0.01
107 108 0.97
108 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (107 bp):
AACGGGGTTGGAGTATCCCTTCGAAAATAAAGAGTTTAGAGTATCCTCAATTGTGAAAAATATAT
ATTTTAGAAATAAAACCAAGGTTGGAGTATCCCATCAGAAAT
Found at i:897414 original size:20 final size:19
Alignment explanation
Indices: 897364--897533 Score: 93
Period size: 20 Copynumber: 8.9 Consensus size: 19
897354 GGTAAAAAGA
897364 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* *
897383 GCAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
* *
897403 CATACATGTATCAATATATT
1 CATA-ATGTATCGATACATT
* *
897423 GAAAAATGTATCGATACA-T
1 -CATAATGTATCGATACATT
** * *
897442 C--AGGGTA---A-AAATGA
1 CATAATGTATCGATACAT-T
897456 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* *
897475 GCAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
*
897495 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* *
897515 GAAAAATGTATCGATACAT
1 -CATAATGTATCGATACAT
897534 CAGGGTAAAA
Statistics
Matches: 110, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 1 0.01
16 8 0.07
19 8 0.07
20 86 0.78
21 4 0.04
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:897493 original size:92 final size:92
Alignment explanation
Indices: 897337--897546 Score: 388
Period size: 92 Copynumber: 2.3 Consensus size: 92
897327 TTTTAACTAG
897337 ATGTATCGATACATCTA-GGTAAAAA-GACATAATGTATCGATACATTGCAGAATATATCGATAC
1 ATGTATCGATACATC-AGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATAC
897400 ATTCATACATGTATCAATATATTGAAAA
65 ATTCATACATGTATCAATATATTGAAAA
897428 ATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATACA
1 ATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATACA
*
897493 TTCATACATGTATCGATATATTGAAAA
66 TTCATACATGTATCAATATATTGAAAA
897520 ATGTATCGATACATCAGGGTAAAAATG
1 ATGTATCGATACATCAGGGTAAAAATG
897547 TGACTTTTCC
Statistics
Matches: 116, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
90 1 0.01
91 23 0.20
92 92 0.79
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (92 bp):
ATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATACA
TTCATACATGTATCAATATATTGAAAA
Found at i:897527 original size:40 final size:39
Alignment explanation
Indices: 897456--897533 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
897446 GTAAAAATGA
* *
897456 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
897495 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
897534 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:899602 original size:21 final size:21
Alignment explanation
Indices: 899578--899621 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
899568 GTGGTGGTTT
*
899578 TTGGA-GCTAAGGGAATGAGTG
1 TTGGAGGCAAAGGGAAT-AGTG
*
899599 TTGGAGGCAAATGGAATAGTG
1 TTGGAGGCAAAGGGAATAGTG
899620 TT
1 TT
899622 TTTTGAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.30, C:0.05, G:0.39, T:0.27
Consensus pattern (21 bp):
TTGGAGGCAAAGGGAATAGTG
Found at i:900143 original size:20 final size:20
Alignment explanation
Indices: 900092--900143 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
900082 AAAATGCCTG
*
900092 AATGTATCGATACATTGAAA
1 AATGTATCGATACAATGAAA
* *
900112 AATTTATCGATACAATGAAC
1 AATGTATCGATACAATGAAA
*
900132 AATGTATAGATA
1 AATGTATCGATA
900144 TTAATTATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACAATGAAA
Found at i:900617 original size:65 final size:63
Alignment explanation
Indices: 900433--900647 Score: 190
Period size: 62 Copynumber: 3.3 Consensus size: 63
900423 GTGGCAGTCC
* * * *
900433 TTTTTAGTCTTTAAAAAGCAAGAATCCTTTTT-TTTCTTAAAGCCTACACAAGCTGGT-AGCAC-
1 TTTTTAGTCCTCAAAAAGCAAGACT-CTTTTTCTTTCTTAAAGCCTACACAAGTTGGTGA-CACT
* * * * * *
900495 CTTTTAGTCCTCAAAGAGC-AGAGCGCCTTTCCTTTTCCTTTTAAAG-CTCACATAAGTTGGTGA
1 TTTTTAGTCCTCAAAAAGCAAGA-CTCTTTTTC-TTT-C--TTAAAGCCT-ACACAAGTTGGTGA
900558 CACTTT
60 CAC--T
*
900564 TTTTTAGTCCTCAAAAAGCAAGACTCTTTTTCTTTCTTAAAGCCTACACAAGTTGGTGGCACT
1 TTTTTAGTCCTCAAAAAGCAAGACTCTTTTTCTTTCTTAAAGCCTACACAAGTTGGTGACACT
*
900627 TTTTT-GTCCTCAAAGAGCAAG
1 TTTTTAGTCCTCAAAAAGCAAG
900648 GCTATCGGAG
Statistics
Matches: 122, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
61 7 0.06
62 30 0.25
63 9 0.07
64 1 0.01
65 23 0.19
66 21 0.17
67 2 0.02
68 3 0.02
69 23 0.19
70 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (63 bp):
TTTTTAGTCCTCAAAAAGCAAGACTCTTTTTCTTTCTTAAAGCCTACACAAGTTGGTGACACT
Found at i:900865 original size:20 final size:21
Alignment explanation
Indices: 900825--900878 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
900815 TTCTATAATT
* *
900825 TGTATTGATACAAATAGTGAA
1 TGTATCGATACATATAGTGAA
900846 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTGAA
* *
900866 TCTATCAATACAT
1 TGTATCGATACAT
900879 GTCTAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTGAA
Found at i:901027 original size:25 final size:25
Alignment explanation
Indices: 900954--901028 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
900944 CAACCTATTT
900954 TTTTATTGTATCGATACATTTTGGG
1 TTTTATTGTATCGATACATTTTGGG
* * *
900979 TTTTAATATATCGAT--ATATT---
1 TTTTATTGTATCGATACATTTTGGG
*
900999 TTTTATTGTATTGATACATTTTGGG
1 TTTTATTGTATCGATACATTTTGGG
901024 TTTTA
1 TTTTA
901029 ACCCAAATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
20 12 0.32
22 4 0.11
23 4 0.11
25 18 0.47
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (25 bp):
TTTTATTGTATCGATACATTTTGGG
Found at i:901045 original size:51 final size:49
Alignment explanation
Indices: 900952--901120 Score: 166
Period size: 52 Copynumber: 3.4 Consensus size: 49
900942 ATCAACCTAT
* * *
900952 TTTTTTATTGTATCGATACATTTTGGGTTTT----AATATATCGATATA
1 TTTTTCATTGTATCGATACATTTTGGGTTTTACCAAATGTATCGATACA
* *
900997 TTTTTTATTGTATTGATACATTTTGGGTTTTAACCCAAATGTATCGATACA
1 TTTTTCATTGTATCGATACATTTTGGGTTTT-A-CCAAATGTATCGATACA
* * * *
901048 TTTTTCATTTTATCGATACATTCTGGTTTTTTGACCTAAATGTATTGATACA
1 TTTTTCATTGTATCGATACATTTTGG-GTTTT-ACC-AAATGTATCGATACA
* *
901100 TTCTTCAATGTATCGATACAT
1 TTTTTCATTGTATCGATACAT
901121 GTAGGCTATT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
45 30 0.29
51 36 0.35
52 37 0.36
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (49 bp):
TTTTTCATTGTATCGATACATTTTGGGTTTTACCAAATGTATCGATACA
Found at i:903596 original size:81 final size:81
Alignment explanation
Indices: 903441--903599 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 81
903431 TCACCATCGA
** * * * *
903441 GGATACTCTAACCCCATTATTTTCGAGGGGATACTCCAACTTTGTTTTTATTTCTAAAAATATTA
1 GGATACTCTAACCCCACCATTTTCGAGGGGATAATCCAACTTCGTTTTTATCTCTAAAAATATCA
903506 AAATTTTCATCTTAGG
66 AAATTTTCATCTTAGG
*
903522 GGATACTCTAACCCCACCATTTTTGAGGGGATAATCCAA-TCTCGTTTTTA-CTCTTAAAAATAT
1 GGATACTCTAACCCCACCATTTTCGAGGGGATAATCCAACT-TCGTTTTTATCTC-TAAAAATAT
*
903585 CAAATTTTTCATCTT
64 CAAAATTTTCATCTT
903600 CGGAGATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.04
81 65 0.96
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (81 bp):
GGATACTCTAACCCCACCATTTTCGAGGGGATAATCCAACTTCGTTTTTATCTCTAAAAATATCA
AAATTTTCATCTTAGG
Found at i:903616 original size:81 final size:81
Alignment explanation
Indices: 903424--903616 Score: 212
Period size: 81 Copynumber: 2.4 Consensus size: 81
903414 CAAAACCATT
* * ** * *
903424 AAATTTTTCACCATC-GAGGATACTCTAACCCCATTATTTTCGAGGGGATACTCCAACTTTGTTT
1 AAATTTTTCATCTTCGGA-GATACTCTAACCCCACCATTTTCGAGGGGATAATCCAACTTCGTTT
* *
903488 TTATTTCTAAAAATATT
65 TTATCTCTAAAAATATC
* * * *
903505 AAAATTTTCATCTTAGGGGATACTCTAACCCCACCATTTTTGAGGGGATAATCCAA-TCTCGTTT
1 AAATTTTTCATCTTCGGAGATACTCTAACCCCACCATTTTCGAGGGGATAATCCAACT-TCGTTT
903569 TTA-CTCTTAAAAATATC
65 TTATCTC-TAAAAATATC
* *
903586 AAATTTTTCATCTTCGGAGATATTCCAACCC
1 AAATTTTTCATCTTCGGAGATACTCTAACCC
903617 TTTTTTTACT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 3 0.03
81 88 0.96
82 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (81 bp):
AAATTTTTCATCTTCGGAGATACTCTAACCCCACCATTTTCGAGGGGATAATCCAACTTCGTTTT
TATCTCTAAAAATATC
Found at i:903623 original size:53 final size:53
Alignment explanation
Indices: 903565--903722 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 53
903555 ATCCAATCTC
*
903565 GTTTTTAC-TCTTAAAAATATCAAATTTTTCATCTTCGGAGATATTCCAACCCT
1 GTTTTTACTTC-TAAAAATATCAAATTTTTCATCTTCGGAGATACTCCAACCCT
* * * *
903618 TTTTTTACTTCTAAAAATATCAAAATTTTCATCTTTGGGGATACTCCAACCCT
1 GTTTTTACTTCTAAAAATATCAAATTTTTCATCTTCGGAGATACTCCAACCCT
* * * *
903671 GTTTTTACTTCAAAAAATATCAAATTTTCCATCTTAAGG-GATACTTCAACCC
1 GTTTTTACTTCTAAAAATATCAAATTTTTCATCTT-CGGAGATACTCCAACCC
903723 CACCATTTTG
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 88 0.96
54 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.40
Consensus pattern (53 bp):
GTTTTTACTTCTAAAAATATCAAATTTTTCATCTTCGGAGATACTCCAACCCT
Found at i:904126 original size:19 final size:20
Alignment explanation
Indices: 904102--904139 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
904092 CCCAGATGCA
904102 TCGATAAATTGTT-ATTGTG
1 TCGATAAATTGTTCATTGTG
*
904121 TCGATATATTGTTCATTGT
1 TCGATAAATTGTTCATTGT
904140 ATCTATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (20 bp):
TCGATAAATTGTTCATTGTG
Found at i:906611 original size:79 final size:79
Alignment explanation
Indices: 906508--906889 Score: 416
Period size: 79 Copynumber: 4.9 Consensus size: 79
906498 TTTACTCTCG
* * * *
906508 AGGGGATACTCCAACCTTGGTTTTATTTTCAAAACATCGATTTTCCACGATCGAGGATACTCCAA
1 AGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCGATTTTTCACAATCGAGGATACTCCAA
906573 CCCTGTTATTTTCA
66 CCCTGTTATTTTCA
* ** * * * *
906587 AGGGGATACTCAAACCCTAATTTTATTTCCAAAACACCAATTTTTCATAAT-TAGGGATACTCCA
1 AGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCGATTTTTCACAATCGA-GGATACTCCA
906651 ATCCC-GTTATTTTCA
65 A-CCCTGTTATTTTCA
* * * * *
906666 AGGGGATGCTCTAACCCCGATTTTA-TTTCTAAAACACCGATTTTCCACAATCG-GGATACTCCA
1 AGGGGATACTCCAACCCTGGTTTTATTTTC-AAAACACCGATTTTTCACAATCGAGGATACTCCA
** * *
906729 ACCCCATTA-TCTCTG
65 ACCCTGTTATTTTC-A
* * *
906744 AGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCGATTTTTCACAATCGAGGATACTCCAA
* *
906809 CCTTGTTATTTTCG
66 CCCTGTTATTTTCA
* * * * *
906823 AGGGGATACTTC-ACCCCGGTTTTATTTCCAAAACACCAATTTTTCACCATCGAGGATACTCCAA
1 AGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCGATTTTTCACAATCGAGGATACTCCAA
906887 CCC
66 CCC
906890 CGATTTTATT
Statistics
Matches: 251, Mismatches: 43, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
77 6 0.02
78 106 0.42
79 133 0.53
80 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
AGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCGATTTTTCACAATCGAGGATACTCCAA
CCCTGTTATTTTCA
Found at i:906801 original size:157 final size:157
Alignment explanation
Indices: 906528--906890 Score: 455
Period size: 157 Copynumber: 2.3 Consensus size: 157
906518 CCAACCTTGG
* * ** *
906528 TTTTATTT-TCAAAACATCGATTTTCCACGATCGAGGATACTCCAACCCTGTTATTTTCAAGGGG
1 TTTTATTTCT-AAAACACCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTCTCAAGGGG
*
906592 ATACTCAAACCCTAATTTTATTTCCAAAACACCAATTTTTCATAATTAGGGATACTCCAATCC-C
65 ATACTCAAACCCTAATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAA-CCTC
*
906656 GTTATTTTCAAGGGGATGCTCTAACCCCGA
129 GTTATTTTCAAGGGGATACT-TAACCCCGA
*
906686 TTTTATTTCTAAAACACCGATTTTCCACAATCG-GGATACTCCAACCCCATTA-TCTCTGAGGGG
1 TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTCTC-AAGGGG
* ** * ** * *
906749 ATACTCCAACCCTGGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCCAACCTTG
65 ATACTCAAACCCTAATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCTCG
* * *
906814 TTATTTTCGAGGGGATACTTCACCCCGG
130 TTATTTTCAAGGGGATACTTAACCCCGA
* * * *
906842 TTTTATTTCCAAAACACCAATTTTTCACCATCGAGGATACTCCAACCCC
1 TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAACCCC
906891 GATTTTATTT
Statistics
Matches: 178, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
156 41 0.23
157 107 0.60
158 29 0.16
159 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (157 bp):
TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAACCCCATTATTCTCAAGGGGA
TACTCAAACCCTAATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCTCGT
TATTTTCAAGGGGATACTTAACCCCGA
Found at i:906897 original size:51 final size:51
Alignment explanation
Indices: 906826--906942 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
906816 ATTTTCGAGG
* * *
906826 GGATACTTC-ACCCCGGTTTTATTTCCAAAACACCAATTTT-TCACCATCGA
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-ACAATCGA
* * * *
906876 GGATACTCCAACCCCGATTTTATTTCTAGAACATCGATTTTCTACAATCGA
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTACAATCGA
906927 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
906943 TTATTTTTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
50 8 0.14
51 49 0.84
52 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTACAATCGA
Found at i:906897 original size:129 final size:130
Alignment explanation
Indices: 906747--906988 Score: 312
Period size: 129 Copynumber: 1.9 Consensus size: 130
906737 ATCTCTGAGG
* * * *
906747 GGATACTCCAACCCTGGTTTTATTT-TCAAAACA-CTGATTTT-TCATAATCGGGGATACTCCAA
1 GGATACTCCAACCCCGATTTTATTTCT-AAAACATC-GATTTTCT-ACAATCGAGGATACTCCAA
** * * *
906809 CCTTGTTATTTTCGAGGGGATACTTC-ACCCCGGTTTTATTTCCAAAACACCAATTTTTCACCAT
63 CCCCGTTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACCAT
906873 CGA
128 CGA
*
906876 GGATACTCCAACCCCGATTTTATTTCTAGAACATCGATTTTCTACAATCGAGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCTACAATCGAGGATACTCCAACCC
* * *
906941 CGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTTTCAGAACAC
66 CGTTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTCCAAAACAC
906989 TATTTTCTAC
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
129 72 0.75
130 24 0.25
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (130 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCTACAATCGAGGATACTCCAACCC
CGTTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACCATCGA
Found at i:906965 original size:79 final size:78
Alignment explanation
Indices: 906874--907026 Score: 238
Period size: 78 Copynumber: 1.9 Consensus size: 78
906864 TTTCACCATC
906874 GAGGATACTCCAACCCCGATTTTA-TTTCTAGAACATCGATTTTCTACAATC-GAGGATACTCCA
1 GAGGATACTCCAACCCCGATTTTATTTTC-AGAACA-CGATTTTCTACAATCAG-GGATACTCCA
906937 ACCCCGTTATTTTTGA
63 ACCCCGTTATTTTTGA
* *
906953 GAGGATACTCCAACCCCGATTTTATTTTCAGAACACTATTTTCTACAATCAGGGATACTCCAGCC
1 GAGGATACTCCAACCCCGATTTTATTTTCAGAACACGATTTTCTACAATCAGGGATACTCCAACC
*
907018 CTGTTATTT
66 CCGTTATTT
907027 AATCGGGGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
78 34 0.49
79 31 0.45
80 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
GAGGATACTCCAACCCCGATTTTATTTTCAGAACACGATTTTCTACAATCAGGGATACTCCAACC
CCGTTATTTTTGA
Found at i:907009 original size:129 final size:128
Alignment explanation
Indices: 906746--907014 Score: 305
Period size: 129 Copynumber: 2.1 Consensus size: 128
906736 TATCTCTGAG
* * * *
906746 GGGATACTCCAACCCTGGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTTCACAATCGAGGATACTCCAACC
** * * * *
906811 TTGTTATTTTCGAGGGGATACTTCACCCCGGTTTTATTTCCAAAACACCAATTTTTCACCATC
66 CCGTTATTTTCGAGAGGATACTCCACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
*
906874 GAGGATACTCCAACCCCGATTTTA-TTTCTAGAACA-TCGA-TTTTCTACAATCGAGGATACTCC
1 G-GGATACTCCAACCCCGATTTTATTTTC-AAAACACT-GATTTTTC-ACAATCGAGGATACTCC
* * * *
906936 AACCCCGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTTTCAGAACA-CTA-TTTTCTAC
62 AACCCCGTTATTTTCGAGAGGATACTCC-ACCCCGATTTTATTTCCAAAACACCAATTTTTC-AC
906999 AATC
125 AATC
907003 AGGGATACTCCA
1 -GGGATACTCCA
907015 GCCCTGTTAT
Statistics
Matches: 119, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
128 16 0.13
129 82 0.69
130 21 0.18
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (128 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTTCACAATCGAGGATACTCCAACC
CCGTTATTTTCGAGAGGATACTCCACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:907037 original size:207 final size:207
Alignment explanation
Indices: 906669--907063 Score: 539
Period size: 207 Copynumber: 1.9 Consensus size: 207
906659 ATTTTCAAGG
* *
906669 GGATGCTCTAACCCCGATTTTATTTCTAAAACACCGATTTTCCACAATCGGGATACTCCAACCCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCCACAATCGGGATACTCCAACCCC
* * * * *
906734 ATTATCTCTGAGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTGATTTTTCATAATCGGG
66 ATTATCTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTTCACAATCAGG
* *
906799 GATACTCCAACCTTGTTATTTTCGAGGGGATACT-TCACCCCGGT-TTTATTTCCAAAACACCAA
131 GATACTCCAACCCTGTTATTTTC-AGGGGATACTCTCACCCC-GTCTTTATCTCCAAAACACCAA
906862 TTTTTCACCATCGA
194 TTTTTCACCATCGA
* * *
906876 GGATACTCCAACCCCGATTTTATTTCTAGAACATCGATTTTCTACAATCGAGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCCACAATCG-GGATACTCCAACCC
* * * *
906941 CGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTTTCAGAACACT-A-TTTTCTACAATCA
65 CATTATCTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTTC-ACAATCA
* *
907004 GGGATACTCCAGCCCTGTTATTTAATC-GGGGATACTCTCACCTCGTCTTTATCTCCAAAA
129 GGGATACTCCAACCCTGTTATTT--TCAGGGGATACTCTCACCCCGTCTTTATCTCCAAAA
907064 TATTAAATTT
Statistics
Matches: 164, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
206 5 0.03
207 83 0.51
208 74 0.45
209 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (207 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTCCACAATCGGGATACTCCAACCCC
ATTATCTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTTCACAATCAGG
GATACTCCAACCCTGTTATTTTCAGGGGATACTCTCACCCCGTCTTTATCTCCAAAACACCAATT
TTTCACCATCGA
Found at i:915826 original size:23 final size:23
Alignment explanation
Indices: 915795--915840 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
915785 TACCAAGACA
*
915795 TGCCCGGATTAGACATCGACATT
1 TGCCCGGATTAGACACCGACATT
*
915818 TGCCTGGATTAGACACCGACATT
1 TGCCCGGATTAGACACCGACATT
915841 ATGGTCCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (23 bp):
TGCCCGGATTAGACACCGACATT
Found at i:919030 original size:8 final size:8
Alignment explanation
Indices: 919015--919047 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
919005 AACAAAACAC
919015 AAAA-AAA
1 AAAAGAAA
919022 AAAAGAAA
1 AAAAGAAA
919030 AAAAGAAA
1 AAAAGAAA
919038 AAAGAGAAA
1 AAA-AGAAA
919047 A
1 A
919048 GAAAAGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 4 0.17
8 14 0.58
9 6 0.25
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:919033 original size:15 final size:16
Alignment explanation
Indices: 919015--919052 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
919005 AACAAAACAC
919015 AAAAAAAAAAAGA-AA
1 AAAAAAAAAAAGAGAA
*
919030 AAAAGAAAAAAGAGAA
1 AAAAAAAAAAAGAGAA
919046 AAGAAAA
1 AA-AAAA
919053 GAGCCTGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 12 0.63
16 4 0.21
17 3 0.16
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAGAA
Found at i:919033 original size:22 final size:21
Alignment explanation
Indices: 918995--919052 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
918985 CCTTTTTTTT
* *
918995 AAAAAAACAA-AACAAAACACA
1 AAAAAAAAAAGAAAAAAACA-A
*
919016 AAAAAAAAAAGAAAAAAAGAA
1 AAAAAAAAAAGAAAAAAACAA
*
919037 AAAAGAGAAAAGAAAA
1 AAAA-AAAAAAGAAAA
919053 GAGCCTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAAACAA
Found at i:919041 original size:7 final size:7
Alignment explanation
Indices: 919015--919052 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
919005 AACAAAACAC
919015 AAAAA-A
1 AAAAAGA
919021 AAAAAGAA
1 AAAAAG-A
919029 AAAAAGA
1 AAAAAGA
919036 AAAAAGA
1 AAAAAGA
*
919043 GAAAAGA
1 AAAAAGA
919050 AAA
1 AAA
919053 GAGCCTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:920203 original size:61 final size:60
Alignment explanation
Indices: 920026--920482 Score: 513
Period size: 61 Copynumber: 7.5 Consensus size: 60
920016 CTTTTAACCT
* * *
920026 TTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAATGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-C
* * * *
920087 TTTAGTCCTTAAAGAGTAGGACACGTCTTTTCATTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTAGTCCTCAAAGAGCAGG--ACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
920149 TTCTAGTCCTCAAGGAGCAGGACGTCTTTTCATTTTAAAGCCCACATAAGTTGGTGGCACC
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
920210 TTTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
920271 TTTCAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCAACATAAGTTGGTGGCATC
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * ** * *
920332 TTTCAGTCTTCAAAGAGCAGGACACCTTTTCCTTTTAAATCCCACATGAGCT-ATGGCACC
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * **
920392 TTTTACTCCTTAAAGAGCAAGACG-CTTTCGCCTTGCAAAGCCCACACAAGTTGGTGGCACC
1 -TTTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
920453 TTCTAGTCCCCAAAGAGCAGGACGCGCTTT
1 TT-TAGTCCTCAAAGAGCAGGACGC-CTTT
920483 AATTTCCTTA
Statistics
Matches: 339, Mismatches: 47, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
59 4 0.01
60 40 0.12
61 237 0.70
62 2 0.01
63 56 0.17
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (60 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:920549 original size:42 final size:42
Alignment explanation
Indices: 920458--920601 Score: 132
Period size: 42 Copynumber: 3.4 Consensus size: 42
920448 GCACCTTCTA
* *
920458 GTCCCCAAAGAGCAGGACGCGC-TTTAATTTCCTTATTTTCCTTT
1 GTCCTCAAAGAGCAGGAC-C-CATTTCATTT-CTTATTTTCCTTT
* *** * *
920502 ATCCTCAAAGAGCAGGATGTATTTTATTTCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACCCATTTCATTTCTTATTTTCCTTT
* * *
920544 GTCCTCAAGGAGCAAGACCCATTTCA-TTC-TCTTTTCCTTT
1 GTCCTCAAAGAGCAGGACCCATTTCATTTCTTATTTTCCTTT
*
920584 GTCCTCGAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
920602 ATACTCTTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 25 0.31
41 3 0.04
42 31 0.38
43 7 0.09
44 15 0.19
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACCCATTTCATTTCTTATTTTCCTTT
Found at i:920626 original size:34 final size:34
Alignment explanation
Indices: 920574--920662 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 34
920564 ATTTCATTCT
* *
920574 CTTTTCCTTTGTCCTCGAAGAGCAGGACATACTC
1 CTTTTCCTTTGTCATCGAAGAGCAGGACACACTC
* ** *
920608 TTTTTTTTTTGTCATCGAAGAGCAGGACGCACTC
1 CTTTTCCTTTGTCATCGAAGAGCAGGACACACTC
*
920642 CTTTTCCTTTGTCATCAAAGA
1 CTTTTCCTTTGTCATCGAAGA
920663 ACAAGATGCC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (34 bp):
CTTTTCCTTTGTCATCGAAGAGCAGGACACACTC
Found at i:926198 original size:49 final size:49
Alignment explanation
Indices: 926129--926803 Score: 330
Period size: 49 Copynumber: 14.1 Consensus size: 49
926119 ATGTTAAAGA
* * * *
926129 TGCCAATATGCTAATTCAAGGCCAATGATATCAGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
** ** * * *
926178 TATCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
* * * * *
926227 TGCCAATATGCTGATTCAAGGCCAGTGATATCGGATTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
* *
926276 TGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCA-ATGACATCGGACTTAAAGAT-G--AAGG
* *
926328 TGCCAATGTGCTGATTCCAA-GCCAATGACATCAGTA-TTAAAGATAAAGG
1 TGCCAATGTGCTGATT-CAAGGCCAATGACATC-GGACTTAAAGATGAAGG
* ** * * *
926377 TGCCAATGTGCTGATTTAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
* *** * * *
926416 TGCCAATGTGCTGATTTAAGGCCAGCAACATTGGTCTTAAAGA-CAAGG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
* * ** * * *
926464 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGAT-G--AAGG
* * ** * **
926515 TGCCAATATGCTGATTTAAGGCCAGCGATATTAGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
** * ** *
926558 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
* * ** * *
926607 TGCTAATATGCTGATTCAA-GCCAGCGATATTGGACTT-AA-A-G--GG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
*** * *
926650 -GCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
* * ** *
926698 TGCTAATGTACTGATTCAAGGATAGA-GACATTGGACTTAAAGATGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCA-ATGACATCGGACTTAAAGATG---AAGG
** * ** * *
926750 CACCAATATGCTGATTCAAGGCCAGCG-CTATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAATGAC-ATCGGACTTAAAGATGAAGG
926799 TGCCA
1 TGCCA
926804 CCAACTTGTG
Statistics
Matches: 500, Mismatches: 83, Indels: 86
0.75 0.12 0.13
Matches are distributed among these distances:
39 34 0.07
40 1 0.00
42 16 0.03
43 55 0.11
44 2 0.00
46 2 0.00
47 8 0.02
48 55 0.11
49 205 0.41
50 2 0.00
51 41 0.08
52 74 0.15
53 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAATGACATCGGACTTAAAGATGAAGG
Found at i:926387 original size:101 final size:99
Alignment explanation
Indices: 926077--926794 Score: 484
Period size: 101 Copynumber: 7.4 Consensus size: 99
926067 TGAATAAGAA
* ** * *
926077 TGCCAATGTGTTGAAACAAGGCCAGCGACATTAGGCTT-AGGAATGTTAAAGATGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGCTTAAAG-ATGTT-AAGGTGCCAATATGCT
*
926141 AATTCAAGGCCAATGATATCAGACTTAAAGATGAAGG
63 GATTCAAGGCCAATGATATCAGACTTAAAGATGAAGG
** *
926178 TATCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--TAAAGGTGCCAATATGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGTTAAGGTGCCAATATGCTGA
* * * *
926241 TTCAAGGCCAGTGATATCGGATTTAAAGATGAAGA
65 TTCAAGGCCAATGATATCAGACTTAAAGATGAAGG
* *
926276 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGAT-GTTAAGGTGCCAATATGCTG
* *
926341 ATTCCAA-GCCAATGACATCAGTA-TTAAAGATAAAGG
64 ATT-CAAGGCCAATGATATCAG-ACTTAAAGATGAAGG
* * * *
926377 TGCCAATGTGCTGATTTAAGGCCAGCGATATTGG------G--CTT---GTGCCAATGTGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCTTAAAGATGTTAAGGTGCCAATATGCTGAT
* *** * ** * *
926431 TTAAGGCCAGCAACATTGGTCTTAAAGA-CAAGG
66 TCAAGGCCAATGATATCAGACTTAAAGATGAAGG
* * * * *
926464 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGAT-GTTAAGGTGCCAATATGCTG
* ** *
926528 ATTTAAGGCCAGCGATATTAGACTT----A--AAGG
64 ATTCAAGGCCAATGATATCAGACTTAAAGATGAAGG
* * *
926558 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGA--TAAAGGTGCTAATATGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGTTAAGGTGCCAATATGCTGA
** **
926621 TTCAA-GCCAGCGATATTGGACTT-AA-A-G--GG
65 TTCAAGGCCAATGATATCAGACTTAAAGATGAAGG
* * * * *
926650 -GCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG--GTGAAGGTGCTAATGTACTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGTTAAGGTGCCAATATGCTGA
** * **
926712 TTCAAGGATAGA-GACATTGGACTTAAAGATGACAAAGG
65 TTCAAGGCCA-ATGATATCAGACTTAAAGATG---AAGG
** *
926750 CACCAATATGCTGATTCAAGGCCAGCG-CTATTGGACTTAAAGATG
1 TGCCAATGTGCTGATTCAAGGCCAGCGAC-ATTGG-CTTAAAGATG
926795 AAGATGCCAC
Statistics
Matches: 511, Mismatches: 66, Indels: 78
0.78 0.10 0.12
Matches are distributed among these distances:
87 39 0.08
88 33 0.06
91 79 0.15
92 38 0.07
93 4 0.01
94 37 0.07
95 7 0.01
96 1 0.00
98 86 0.17
99 35 0.07
100 5 0.01
101 140 0.27
102 6 0.01
103 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (99 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCTTAAAGATGTTAAGGTGCCAATATGCTGAT
TCAAGGCCAATGATATCAGACTTAAAGATGAAGG
Found at i:926570 original size:43 final size:43
Alignment explanation
Indices: 926509--926693 Score: 192
Period size: 43 Copynumber: 4.2 Consensus size: 43
926499 CTCAAGATGG
*
926509 TAAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTAGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACT
* * * **
926552 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCG--A----TATTAGACT
* *
926601 TAAAGGTGCTAATATGCTGATTCAA-GCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACT
* * * * *
926643 TAAAGGGGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACT
926686 TAAAGGTG
1 TAAAGGTG
926694 AAGGTGCTAA
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
42 26 0.22
43 53 0.46
45 1 0.01
46 1 0.01
48 7 0.06
49 28 0.24
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACT
Found at i:926584 original size:181 final size:188
Alignment explanation
Indices: 926226--926591 Score: 444
Period size: 181 Copynumber: 2.0 Consensus size: 188
926216 AAAGATAAAG
** * * *
926226 GTGCCAATATGCTGATTCAAGGCCAGTGATATCGGATTTAAAGATGAAGATGCCAATGTGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATCGGATTTAAAGATCAAGATGCCAATATGCTGAT
* * *
926291 TCAAGGCCAGCTACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCCAAGCCAATGA
66 TCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAATATGCTGATTCCAAGCCAATGA
* * *
926356 CATCAGTATTAAAGATAAAGGTGCCAATGTGCTGATTTAAGGCCAGCGATATTGGGCTT
131 CA-CAGTATTAAACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * * *
926415 GTGCCAATGTGCTGATTTAAGGCCAGCAACATTGG-TCTTAAAGA-CAAGGTGCCAATATGCTGA
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATCGGAT-TTAAAGATCAAGATGCCAATATGCTGA
* * * *
926478 TTTAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAGGTGCCAATATGCTGATT-TAAGGCC-A-
65 TTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAATATGCTGATTCCAA-GCCAAT
* * *
926539 G-C-GA-TATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
129 GACACAGTATTAAACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
926592 TTTTAAAGAT
Statistics
Matches: 153, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
181 44 0.29
182 1 0.01
184 1 0.01
185 1 0.01
186 3 0.02
187 31 0.20
188 36 0.24
189 36 0.24
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (188 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATCGGATTTAAAGATCAAGATGCCAATATGCTGAT
TCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAATATGCTGATTCCAAGCCAATGA
CACAGTATTAAACATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:926658 original size:91 final size:91
Alignment explanation
Indices: 926460--926717 Score: 354
Period size: 91 Copynumber: 2.8 Consensus size: 91
926450 TCTTAAAGAC
* * * * *
926460 AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTCAAGATGGTAAAGGTGCCAATATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA-A-GGTAAAGGTGCTAATATG
*
926525 CTGATTTAAGGCCAGCGATATTAGACTTA
64 CTGATTCAA-GCCAGCGATATTAGACTTA
** *
926554 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATAAAGGTGCTAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTAAAGGTGCTAATATGCT
*
926619 GATTCAAGCCAGCGATATTGGACTTA
66 GATTCAAGCCAGCGATATTAGACTTA
* * * * *
926645 AAGGGGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATGTACT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTAAAGGTGCTAATATGCT
926710 GATTCAAG
66 GATTCAAG
926718 GATAGAGACA
Statistics
Matches: 146, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
91 83 0.57
92 24 0.16
93 1 0.01
94 38 0.26
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (91 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTAAAGGTGCTAATATGCT
GATTCAAGCCAGCGATATTAGACTTA
Found at i:926806 original size:52 final size:50
Alignment explanation
Indices: 926651--926807 Score: 156
Period size: 52 Copynumber: 3.1 Consensus size: 50
926641 CTTAAAGGGG
* * *
926651 CCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTG--
1 CCAATGTGCTGATTCAAGGCCAGC-GCATTGGACTTAAAGATGAAGATGCA
* * ** * * *
926700 CTAATGTACTGATTCAAGGATAGAGACATTGGACTTAAAGATGACAAAGGCA
1 CCAATGTGCTGATTCAAGGCCAGCG-CATTGGACTTAAAGATGA-AGATGCA
*
926752 CCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGATGAAGATGCCA
1 CCAATGTGCTGATTCAAGGCCAGCGC-ATTGGACTTAAAGATGAAGATG-CA
926804 CCAA
1 CCAA
926808 CTTGTGTGGG
Statistics
Matches: 84, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
49 36 0.43
50 2 0.02
51 4 0.05
52 42 0.50
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (50 bp):
CCAATGTGCTGATTCAAGGCCAGCGCATTGGACTTAAAGATGAAGATGCA
Found at i:926889 original size:28 final size:28
Alignment explanation
Indices: 926853--927222 Score: 343
Period size: 28 Copynumber: 12.9 Consensus size: 28
926843 TGTGCTTTTG
*
926853 AAGGTTGCCACT-ACCTTGTGGGCTTCAAA
1 AAGG-TGCCACTGA-CTTGTGGGCTTTAAA
* *
926882 AAGGTGCCACTAACTTGTGGGCTTTTGAA
1 AAGGTGCCACTGACTTGTGGGC-TTTAAA
* * * * *
926911 AAGATGCCATTGGCTTGTGTGCTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTTTAAA
* *
926939 AAGGTGCCACTAACTTGTGGGCTTTTGAA
1 AAGGTGCCACTGACTTGTGGGC-TTTAAA
* * * *
926968 AAGATGCTACTAACTTGTGGGCTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTTTAAA
**
926996 AAGGTGCCACTGACTTACGGGCTTTAAA
1 AAGGTGCCACTGACTTGTGGGCTTTAAA
*
927024 AAGATGCCACTGACTTGTGGGCTTTGAAA
1 AAGGTGCCACTGACTTGTGGGCTTT-AAA
** *
927053 GGGGTGCCACTGACTTGTGGGCTTCT--G
1 AAGGTGCCACTGACTTGTGGGCTT-TAAA
* *
927080 AAGGTTACCACTGACTTGTGGGCTTTGAA
1 AAGG-TGCCACTGACTTGTGGGCTTTAAA
*
927109 AAGGTGCCACTGACTTAT-GGCTTTTTGAAA
1 AAGGTGCCACTGACTTGTGGGC--TTT-AAA
* *
927139 AGGGTGCCATTGACTTGTGGGCTTTTGAAA
1 AAGGTGCCACTGACTTGTGGGC-TTT-AAA
* *
927169 AGGGTGCCACTAACTTGTGGGCTTTTAAA
1 AAGGTGCCACTGACTTGTGGGC-TTTAAA
*
927198 AAGATGCCACTGACTTGTGGGCTTT
1 AAGGTGCCACTGACTTGTGGGCTTT
927223 GGAAGGTGAG
Statistics
Matches: 287, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
27 6 0.02
28 123 0.43
29 105 0.37
30 50 0.17
31 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (28 bp):
AAGGTGCCACTGACTTGTGGGCTTTAAA
Found at i:926910 original size:85 final size:83
Alignment explanation
Indices: 926812--927222 Score: 278
Period size: 85 Copynumber: 4.8 Consensus size: 83
926802 CACCAACTTG
**
926812 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTATGTGCTTTTGAAGGTTGCCACTACCTTGTGGGC
1 TGTGGGCTTTTGAAA-GG-TGCCACTGACTTATGTGCTTTTGAAGG-TGCCACTA-CTTGTGGGC
926876 -TTCAAAAAGGTGCCACTAACT
62 TTTCAAAAAGGTGCCACTAACT
* * * *
926897 TGTGGGCTTTTGAAAAGATGCCATTGGCTTGTGTGC-TTTGAAAAGGTGCCACTAACTTGTGGGC
1 TGTGGGCTTTTG-AAAGGTGCCACTGACTTATGTGCTTTTG--AAGGTGCCACT-ACTTGTGGGC
** * *
926961 TTTTGAAAAGATGCTACTAACT
62 TTTCAAAAAGGTGCCACTAACT
* * ** *
926983 TGTGGGC-TTTGAAAAGGTGCCACTGACTTACGGGCTTTAAAAAGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACTTATGTGCTTT-TGAAGGTGCCACT-ACTTGTGGGCT
* ** *
927047 TTGAAAGGGGTGCCACTGACT
63 TTCAAAAAGGTGCCACTAACT
* * * * *
927068 TGTGGGCTTCTG-AAGGTTACCACTGACTTGTGGGC-TTTGAAAAGGTGCCACTGACTTAT-GGC
1 TGTGGGCTTTTGAAAGG-TGCCACTGACTTATGTGCTTTTG--AAGGTGCCACT-ACTTGTGGGC
* * * *
927130 TTTTTGAAAAGGGTGCCATTGACT
62 --TTTCAAAAAGGTGCCACTAACT
* * * * *
927154 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTAAAAAGATGCCACTGACTTGTGGG
1 TGTGGGCTTTTG-AAA-GGTGCCACTGACTTATGTGCTTTT--GAAGGTGCCACT-ACTTGTGGG
927219 CTTT
61 CTTT
927223 GGAAGGTGAG
Statistics
Matches: 262, Mismatches: 43, Indels: 39
0.76 0.12 0.11
Matches are distributed among these distances:
84 15 0.06
85 134 0.51
86 68 0.26
88 21 0.08
89 21 0.08
90 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (83 bp):
TGTGGGCTTTTGAAAGGTGCCACTGACTTATGTGCTTTTGAAGGTGCCACTACTTGTGGGCTTTC
AAAAAGGTGCCACTAACT
Found at i:926919 original size:57 final size:57
Alignment explanation
Indices: 926858--927222 Score: 414
Period size: 57 Copynumber: 6.4 Consensus size: 57
926848 TTTTGAAGGT
*
926858 TGCCACT-ACCTTGTGGGCTTCAAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGA-CTTGTGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
* * * *
926915 TGCCATTGGCTTGTGTGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
* * * * ** *
926972 TGCTACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTACGGGC-TTTAAAAAGA
1 TGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
** * * * *
927028 TGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTCTG-AAGGT
1 TGCCACTGACTTGTGGGCTTT-AAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
* * * * *
927085 TACCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTAT-GGCTTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTAACTTGTGGGC-TTTTGAAAA-GA
* * *
927143 TGCCATTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTAAAAAGA
1 TGCCACTGACTTGTGGGC-TTT-AAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
927202 TGCCACTGACTTGTGGGCTTT
1 TGCCACTGACTTGTGGGCTTT
927223 GGAAGGTGAG
Statistics
Matches: 257, Mismatches: 42, Indels: 17
0.81 0.13 0.05
Matches are distributed among these distances:
55 3 0.01
56 49 0.19
57 134 0.52
58 22 0.09
59 21 0.08
60 25 0.10
61 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (57 bp):
TGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
Found at i:927629 original size:37 final size:37
Alignment explanation
Indices: 927587--927671 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
927577 AAAGATGAAG
* *
927587 CACAAATGCATCGTGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
927624 CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
927661 CACAAATGCAT
1 CACAAATGCAT
927672 GATTGTGGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
Found at i:932444 original size:20 final size:20
Alignment explanation
Indices: 932396--932451 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
932386 CAAAACCCTG
932396 AAAA-GTATCGATACACATTT
1 AAAATGTATCGATACACA-TT
*
932416 TAAATGTATCGATACACA-T
1 AAAATGTATCGATACACATT
932435 AAATATGTATCGATACA
1 AAA-ATGTATCGATACA
932452 GGACATTGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.09
20 16 0.50
21 13 0.41
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (20 bp):
AAAATGTATCGATACACATT
Found at i:932502 original size:53 final size:53
Alignment explanation
Indices: 932420--932558 Score: 208
Period size: 53 Copynumber: 2.6 Consensus size: 53
932410 ACATTTTAAA
*
932420 TGTATCGATACACATAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATT
1 TGTATCGATACACA-AAATATGTATCGATACAGGACACTGGCAGTAGCCAAATT
* *
932474 TGTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATT
1 TGTATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATT
*
932527 TGTATTGATACATCATAAATA-GTATCGATACA
1 TGTATCGATACA-CA-AAATATGTATCGATACA
932559 TCACTGTTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
53 47 0.60
54 27 0.35
55 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (53 bp):
TGTATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATT
Found at i:933970 original size:20 final size:20
Alignment explanation
Indices: 933945--933998 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
933935 GTATTGATAC
**
933945 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
933965 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
933985 AATGTATCGATACA
1 AATGTATCGATACA
933999 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:934068 original size:13 final size:13
Alignment explanation
Indices: 934050--934106 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
934040 ACACATAATA
934050 TGTATCGATACAT
1 TGTATCGATACAT
934063 TGTATCGATACA-
1 TGTATCGATACAT
* *
934075 T-CA-C-A-A-AA
1 TGTATCGATACAT
934083 TGTATCGATACAT
1 TGTATCGATACAT
934096 TGTATCGATAC
1 TGTATCGATAC
934107 GTCACAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
7 1 0.03
8 2 0.06
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 24 0.69
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:934088 original size:20 final size:20
Alignment explanation
Indices: 934063--934128 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
934053 ATCGATACAT
934063 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
934083 TGTATCGATACAT-------
1 TGTATCGATACATCACAAAA
*
934096 TGTATCGATACGTCACAAAA
1 TGTATCGATACATCACAAAA
934116 TGTATCGATACAT
1 TGTATCGATACAT
934129 TAGCTTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 12 0.32
20 25 0.68
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:934091 original size:33 final size:33
Alignment explanation
Indices: 934033--934129 Score: 160
Period size: 33 Copynumber: 3.0 Consensus size: 33
934023 GCTAAATTTT
* *
934033 TATCGATACA-CATAATATGTATCGATACATTG
1 TATCGATACATCACAAAATGTATCGATACATTG
934065 TATCGATACATCACAAAATGTATCGATACATTG
1 TATCGATACATCACAAAATGTATCGATACATTG
*
934098 TATCGATACGTCACAAAATGTATCGATACATT
1 TATCGATACATCACAAAATGTATCGATACATT
934130 AGCTTGTAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 10 0.16
33 51 0.84
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (33 bp):
TATCGATACATCACAAAATGTATCGATACATTG
Found at i:940312 original size:13 final size:13
Alignment explanation
Indices: 940294--940332 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
940284 ACAGCATTCT
940294 TTGTATCGATACA
1 TTGTATCGATACA
940307 TTGTATCGATACA
1 TTGTATCGATACA
* *
940320 CTATATCGATACA
1 TTGTATCGATACA
940333 AGGGGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:940808 original size:21 final size:20
Alignment explanation
Indices: 940764--940815 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
940754 TCCCTAGGCA
* *
940764 GCACCCACCAGGTCGCGATCG
1 GCACCC-CCAGGTCGCAACCG
940785 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACC-G
940806 GCAGCCCCCA
1 GCA-CCCCCA
940816 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (20 bp):
GCACCCCCAGGTCGCAACCG
Found at i:942866 original size:20 final size:20
Alignment explanation
Indices: 942828--942874 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
942818 CGATACAATG
**
942828 TATCGATACATGACTAAATA
1 TATCGATACATGAAAAAATA
* *
942848 TATCGATACTTGAAAAAATG
1 TATCGATACATGAAAAAATA
942868 TATCGAT
1 TATCGAT
942875 GGAAGTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (20 bp):
TATCGATACATGAAAAAATA
Found at i:942976 original size:33 final size:32
Alignment explanation
Indices: 942909--942976 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
942899 GTAGCTAAAT
* *
942909 TTGTATCGATACACACAATATGTATCGATGCA
1 TTGTATCGATACACACAAAATGTATCGATACA
942941 TTGTATCGATACATCACAAAATGTATC-AGTACA
1 TTGTATCGATACA-CACAAAATGTATCGA-TACA
942974 TTG
1 TTG
942977 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:953828 original size:13 final size:13
Alignment explanation
Indices: 953810--953835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
953800 AAATTCCTAG
953810 ATGTATCGATACA
1 ATGTATCGATACA
953823 ATGTATCGATACA
1 ATGTATCGATACA
953836 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:958102 original size:49 final size:49
Alignment explanation
Indices: 957941--958593 Score: 427
Period size: 49 Copynumber: 13.8 Consensus size: 49
957931 CGAAGAATGA
* * * * * *
957941 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* ** * ** * * *
957988 CAATGTGCTGAGACAAGGCCAGCGACATTGGGGTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA--AA-GATGAAGGTGC
* *
958040 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
958089 TAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*
958138 TAATATG-TCGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCT-GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
958187 CGATGTGCTGATTCAAGGCCAGCAACA-TGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGC
*
958238 CAATATGCTGATTCAAGGTCAGCGATATTGGAC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * * *
958277 CAATGTACTAATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*
958325 CAATATGTTGATTCAAGGCCAGCGATATTGGAC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * * * *
958364 CAATGTTCTGATTCAAGGCCAGTGACATTGGTCTCAGAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * * *
958412 CAATTTGTTGATTCAAAGCCAGTGATAATGAAC-TCAAGATGGTAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
*
958463 CAATATGCTAATTCAAGGCCAGCGATATTGGACTT-AA-A-G-A--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * ** *
958506 CAATGTGCTAATTCAAGGCTAGTGACATTGGTTTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*
958555 CAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
958594 GTGAGAAAAA
Statistics
Matches: 466, Mismatches: 97, Indels: 84
0.72 0.15 0.13
Matches are distributed among these distances:
39 59 0.13
40 1 0.00
41 1 0.00
43 32 0.07
44 2 0.00
45 2 0.00
46 2 0.00
47 34 0.07
48 74 0.16
49 151 0.32
50 7 0.02
51 64 0.14
52 37 0.08
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:958171 original size:98 final size:98
Alignment explanation
Indices: 957941--958593 Score: 463
Period size: 87 Copynumber: 6.9 Consensus size: 98
957931 CGAAGAATGA
* * * * * * **
957941 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
** * * * *
958004 GGCCAGCGACATTGGGGTTAGGAATGTTAAAGATGC
66 GGCCAGCGACATTGGACTTA--AA-GATGACGGTGC
* * *
958040 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
958105 GGCCAACGACATTGGACTTAAAGATGACGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACGGTGC
* *
958138 TAATATG-TCGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCGATGTGCTGATTCA
1 CAATATGCT-GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
958202 AGGCCAGCAACA-TGGACTTAAAGATGACAAAGGCGC
65 AGGCCAGCGACATTGGACTTAAAGATGAC---GGTGC
* * *
958238 CAATATGCTGATTCAAGGTCAGCGATATTGGAC-T-----T----GTGCCAATGTACTAATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * *
958293 GGCTAGCGACATTGGTCTTAAAGA-CAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACGGTGC
* *
958325 CAATATGTTGATTCAAGGCCAGCGATATTGGAC-T-----T--A--TGCCAATGTTCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * * * *
958380 GGCCAGTGACATTGGTCTCAGAGA-CAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACGGTGC
* * * * * * * * *
958412 CAATTTGTTGATTCAAAGCCAGTGATAATGAAC-TCAAGATGGTAAAGGTGCCAATATGCTAATT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATT
*
958476 CAAGGCCAGCGATATTGGACTT-AA-A-GA---TGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
* * * * * ** * * *
958506 CAATGTGCTAATTCAAGGCTAGTGACATTGGTTTTAAAGATAAAGGTGCCAATATACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
958571 GGCCAGCGATATTGGACTTAAAG
66 GGCCAGCGACATTGGACTTAAAG
958594 GTGAGAAAAA
Statistics
Matches: 457, Mismatches: 73, Indels: 53
0.78 0.13 0.09
Matches are distributed among these distances:
87 111 0.24
90 27 0.06
91 11 0.02
92 41 0.09
93 2 0.00
94 27 0.06
95 6 0.01
97 20 0.04
98 75 0.16
99 70 0.15
100 33 0.07
101 34 0.07
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (98 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGACGGTGC
Found at i:958515 original size:43 final size:43
Alignment explanation
Indices: 958454--958593 Score: 145
Period size: 43 Copynumber: 3.1 Consensus size: 43
958444 CTCAAGATGG
*
958454 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT
1 TAAAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT
* * * * **
958497 TAAAGATGCCAATGTGCTAATTCAAGGCTAGTGACATTGGTTT
1 TAAAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT
* *
958540 TAAAGATAAAGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGACT
1 TAAAG----A--TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT
958589 TAAAG
1 TAAAG
958594 GTGAGAAAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
43 41 0.54
47 1 0.01
49 34 0.45
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (43 bp):
TAAAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT
Found at i:958793 original size:34 final size:33
Alignment explanation
Indices: 958600--959036 Score: 419
Period size: 34 Copynumber: 13.2 Consensus size: 33
958590 AAAGGTGAGA
* * *
958600 AAAAGGATAAAGGGATGCCACAGAGGTGTAGG-CTT
1 AAAAGGA-AAAAGG-TGCCACGGAGTTGT-GGACTT
* * * *
958635 AAAAGGGAAAAGGGTGCTACTTGAGTCGTGGACTT
1 AAAA-GGAAAAAGGTGCCAC-GGAGTTGTGGACTT
* *
958670 AAAAAG-AAAAGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
958702 AAAA-GAAACAAGGTGCCACGAAGTTGTGGACTT
1 AAAAGGAAA-AAGGTGCCACGGAGTTGTGGACTT
* * *
958735 AAAAGTAAAAAGATACCACGGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
958768 AAAAGGAAAAAGATTGCCACGGAGTTATGGGCTT
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTT
*
958802 AAAAGGGAAAAGGGTGCCACGGAG-TGTGGACTT
1 AAAA-GGAAAAAGGTGCCACGGAGTTGTGGACTT
*
958835 AAAAAG-AAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
958867 AAAA-G-----GGTGCCACAGAGTTATGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
958894 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTT
* *
958928 AAAAAAGAAAAAGGTACCACGGAGTTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
958962 AAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTT
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTT
* * * *
958996 AAAAGGAAAAAAAGTGCCACAGAGTTTTGGGCTT
1 AAAAGG-AAAAAGGTGCCACGGAGTTGTGGACTT
959030 CAAAAGG
1 -AAAAGG
959037 TGCCACGGAC
Statistics
Matches: 341, Mismatches: 41, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
27 24 0.07
28 1 0.00
31 17 0.05
32 32 0.09
33 91 0.27
34 122 0.36
35 51 0.15
36 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:958878 original size:27 final size:27
Alignment explanation
Indices: 958809--958899 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 27
958799 CTTAAAAGGG
958809 AAAAGGGTGCCACGGAG-TGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
958835 AAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAAG----GGTGCCACGGAGTTGTGGACTT
* *
958867 AAAAGGGTGCCACAGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
958894 AAAAGG
1 AAAAGG
958900 AAAAAGAGTG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
27 31 0.54
31 17 0.30
32 9 0.16
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:958976 original size:92 final size:91
Alignment explanation
Indices: 958789--958976 Score: 254
Period size: 92 Copynumber: 2.0 Consensus size: 91
958779 GATTGCCACG
* * * *
958789 GAGTTATGGGCTTAAAAGGGAAAAGGGTGCCACGGAGTGTGGACTTAAAAAGAAAAGGTGCCACG
1 GAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTGTGGACTTAAAAAGAAAAGGTACCACG
** *
958854 GAGTTGTGGACTTAAAAGGGTGCCACA
66 GAGTTGTGGACTTAAAA-GGTGAAAAA
*
958881 GAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAGAAAAAGGTACC
1 GAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAG-TGTGGACTT-AAAAAG-AAAAGGTACC
958946 ACGGAGTTGTGGACTTAAAA-G-GAAAAA
63 ACGGAGTTGTGGACTTAAAAGGTGAAAAA
958973 GAGT
1 GAGT
958977 GCCACGGAGT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
92 41 0.48
93 9 0.11
94 6 0.07
95 29 0.34
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.19
Consensus pattern (91 bp):
GAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTGTGGACTTAAAAAGAAAAGGTACCACG
GAGTTGTGGACTTAAAAGGTGAAAAA
Found at i:959042 original size:27 final size:28
Alignment explanation
Indices: 959002--959113 Score: 102
Period size: 27 Copynumber: 4.0 Consensus size: 28
958992 GCTTAAAAGG
* * *
959002 AAAAAAAGTGCCACAGAGTTTTGGGCTT
1 AAAAAAGGTGCCACAGACTTGTGGGCTT
* *
959030 -CAAAAGGTGCCACGGACTTGTGGGCTTT
1 AAAAAAGGTGCCACAGACTTGTGGGC-TT
*
959058 AAAAAAGGTGCCACTGACTTGTGGGCTT
1 AAAAAAGGTGCCACAGACTTGTGGGCTT
*** *
959086 -TTGAAGGTTGCCACTGACTTGTGGGCTT
1 AAAAAAGG-TGCCACAGACTTGTGGGCTT
959114 TGAAAGGATG
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 24 0.34
28 24 0.34
29 23 0.32
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
AAAAAAGGTGCCACAGACTTGTGGGCTT
Found at i:959070 original size:29 final size:27
Alignment explanation
Indices: 959004--959142 Score: 136
Period size: 28 Copynumber: 5.0 Consensus size: 27
958994 TTAAAAGGAA
* * * * *
959004 AAAAAGTGCCACAGAGTTTTGGGCTTC
1 AAAAGGTGCCACTGACTTGTGGGCTTT
*
959031 AAAAGGTGCCACGGACTTGTGGGCTTT
1 AAAAGGTGCCACTGACTTGTGGGCTTT
959058 AAAAAAGGTGCCACTGACTTGTGGGCTTT
1 --AAAAGGTGCCACTGACTTGTGGGCTTT
**
959087 TGAAGGTTGCCACTGACTTGTGGGCTTT
1 AAAAGG-TGCCACTGACTTGTGGGCTTT
* *
959115 GAAAGGATGCTACT-ACCTTGTGGGCTTT
1 AAAAGG-TGCCACTGA-CTTGTGGGCTTT
959143 GGAAGGTAAG
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
27 27 0.28
28 43 0.45
29 26 0.27
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (27 bp):
AAAAGGTGCCACTGACTTGTGGGCTTT
Found at i:959135 original size:56 final size:56
Alignment explanation
Indices: 959033--959149 Score: 150
Period size: 56 Copynumber: 2.1 Consensus size: 56
959023 TGGGCTTCAA
*
959033 AAGG-TGCCACGGACTTGTGGGCTTTAAAAAAGGTGCCACTGACTTGTGGGCTTTTG
1 AAGGTTGCCACGGACTTGTGGGCTTT-AAAAAGGTGCCACTGACTTGTGGGCTTTGG
* * *
959089 AAGGTTGCCACTGACTTGTGGGCTTT-GAAAGGATGCTACT-ACCTTGTGGGCTTTGG
1 AAGGTTGCCACGGACTTGTGGGCTTTAAAAAGG-TGCCACTGA-CTTGTGGGCTTTGG
959145 AAGGT
1 AAGGT
959150 AAGGAATGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
55 6 0.11
56 28 0.52
57 20 0.37
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (56 bp):
AAGGTTGCCACGGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGG
Found at i:960604 original size:10 final size:10
Alignment explanation
Indices: 960575--960636 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
960565 CATCCGGACC
960575 TTTTTTGTTGT
1 TTTTTTGTT-T
*
960586 TTGTTTGTTT
1 TTTTTTGTTT
960596 TTTTTTGTTT
1 TTTTTTGTTT
*
960606 GTTTTTGTTT
1 TTTTTTGTTT
*
960616 TTTTTTAATTT
1 TTTTTT-GTTT
960627 TTTTTTGTTT
1 TTTTTTGTTT
960637 GCGGAGGACG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
10 27 0.61
11 17 0.39
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.84
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:960614 original size:31 final size:31
Alignment explanation
Indices: 960576--960637 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
960566 ATCCGGACCT
*
960576 TTTTTGTTGTTTGTTT-GTTTTTTTTTGTTTG
1 TTTTTGTT-TTTGTTTAATTTTTTTTTGTTTG
*
960607 TTTTTGTTTTTTTTTAATTTTTTTTTGTTTG
1 TTTTTGTTTTTGTTTAATTTTTTTTTGTTTG
960638 CGGAGGACGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (31 bp):
TTTTTGTTTTTGTTTAATTTTTTTTTGTTTG
Found at i:960616 original size:18 final size:18
Alignment explanation
Indices: 960575--960621 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
960565 CATCCGGACC
*
960575 TTTTTTGTTGTTTGTTTG
1 TTTTTTTTTGTTTGTTTG
960593 TTTTTTTTTGTTTGTTTTTG
1 TTTTTTTTTGTTTG--TTTG
960613 TTTTTTTTT
1 TTTTTTTTT
960622 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 13 0.50
20 13 0.50
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTGTTTGTTTG
Found at i:968229 original size:13 final size:13
Alignment explanation
Indices: 968211--968236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
968201 CAATTTTTTG
968211 TGTATCGATACAT
1 TGTATCGATACAT
968224 TGTATCGATACAT
1 TGTATCGATACAT
968237 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:968251 original size:32 final size:33
Alignment explanation
Indices: 968191--968254 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
968181 TACAAGCCAA
** *
968191 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
968224 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
968255 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:978202 original size:79 final size:76
Alignment explanation
Indices: 978069--978331 Score: 222
Period size: 79 Copynumber: 3.3 Consensus size: 76
978059 CTCCCGAAAT
* * *** * *
978069 GATACTCCAACCCTGGTTTTATTTCCAAAACATTGA-TTTTCTACAATCGGGGATACTCCAACCC
1 GATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTTTC-ACAATC-AGGATACTCTAACCC
* *
978133 CGTTATTTTCAAAGG
63 CGTTATTTT-GAGGG
** * * *
978148 GATACTCCAAGCCCGCCTTTATTTTTAAAACACCAATTTTTCATAATCAAGGATACTCTATCCCC
1 GATACTCCAA-CCCGATTTTATTTTCAAAACACCAATTTTTCACAATC-AGGATACTCTAACCCC
*
978213 ATTATTTTTGAGGG
64 GTTA-TTTTGAGGG
* * * * * *
978227 GATGCTCTAACCCTGGTTTTATTTCCAAAACACCGATTTTTCACAATCGGAGATACTCTAACCCC
1 GATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTTTCACAATCAG-GATACTCTAACCCC
*
978292 GTTAAATTTGAGGG
64 GTT-ATTTTGAGGG
978306 GATACTCCAACCCCGATTTTATTTTC
1 GATACTCCAA-CCCGATTTTATTTTC
978332 CATAATCGGG
Statistics
Matches: 146, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
78 4 0.03
79 126 0.86
80 16 0.11
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (76 bp):
GATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTTCACAATCAGGATACTCTAACCCCGT
TATTTTGAGGG
Found at i:978484 original size:51 final size:51
Alignment explanation
Indices: 978371--978484 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
978361 TTTCGAGAGA
* * * *
978371 ATACTTCAACCCAGGTTTTATTTTCAAAACACTAATTTTCCACCATCGGGG
1 ATACTTCAACCCAGATTTTATTTCCAAAACACTAATTTTCCACAATCGAGG
* * * *
978422 ATAC-TCTAACCCTGATTTTATTTCCAAAACA-TCGATTTTTCACAATTGAGG
1 ATACTTC-AACCCAGATTTTATTTCCAAAACACT-AATTTTCCACAATCGAGG
978473 ATACTTCAACCC
1 ATACTTCAACCC
978485 CGTTATTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
50 3 0.06
51 47 0.90
52 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (51 bp):
ATACTTCAACCCAGATTTTATTTCCAAAACACTAATTTTCCACAATCGAGG
Found at i:978502 original size:79 final size:78
Alignment explanation
Indices: 978419--978570 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 78
978409 TCCACCATCG
* * * ** *
978419 GGGATACTCTAACC-CTGATTTTATTTCCAAAACATCGATTTTTCACAATTGAGGATACTTCAAC
1 GGGATACTCCAACCTC-GATTTTATTTCCAAAACACCGA-TTTCCACAATCAAGGATACTCCAAC
978483 CCCGTTATTTTTCAA
64 CCCGTTATTTTTCAA
* * *
978498 GGGATACTCCAACCTCGGTTTTATTTTCAAAACACCGATTTCCACAATCAAGGATACTCCAGCCC
1 GGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTCCACAATCAAGGATACTCCAACCC
978563 CGTTATTT
66 CGTTATTT
978571 AACTGGGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
78 30 0.48
79 32 0.51
80 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTCCACAATCAAGGATACTCCAACCC
CGTTATTTTTCAA
Found at i:978583 original size:78 final size:79
Alignment explanation
Indices: 978419--978589 Score: 195
Period size: 78 Copynumber: 2.2 Consensus size: 79
978409 TCCACCATCG
* * * * ** *
978419 GGGATACTCTAACC-CTGATTTTATTTCCAAAACATCGATTTTTCACAATTGAGGATACTTCAAC
1 GGGATACTCCAACCTC-GGTTTTATTTCCAAAACACCGATTTTCCACAATCAAGGATACTCCAAC
**
978483 CCCGTTATTTTTCAA
65 CCCGTTATTTAACAA
* *
978498 GGGATACTCCAACCTCGGTTTTATTTTCAAAACACCGA-TTTCCACAATCAAGGATACTCCAGCC
1 GGGATACTCCAACCTCGGTTTTATTTCCAAAACACCGATTTTCCACAATCAAGGATACTCCAACC
*
978562 CCGTTATTTAAC-T
66 CCGTTATTTAACAA
978575 GGGAATACTCCAACC
1 GGG-ATACTCCAACC
978590 CCATTTTTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
77 3 0.04
78 42 0.54
79 32 0.41
80 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCTCGGTTTTATTTCCAAAACACCGATTTTCCACAATCAAGGATACTCCAACC
CCGTTATTTAACAA
Found at i:981927 original size:3 final size:3
Alignment explanation
Indices: 981921--981973 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
981911 TAAGATAATC
981921 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
981969 TTA TT
1 TTA TT
981974 GTTGTTGTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:981978 original size:3 final size:3
Alignment explanation
Indices: 981972--982012 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
981962 ATTATTATTA
981972 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
982013 TTCTTTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:988349 original size:20 final size:20
Alignment explanation
Indices: 988324--988451 Score: 73
Period size: 20 Copynumber: 6.3 Consensus size: 20
988314 AGCATTTATT
988324 GATACATTTACTTATGTATC
1 GATACATTTACTTATGTATC
* * *
988344 GATACATTTTCTTA-GCAGC
1 GATACATTTACTTATGTATC
* * * *
988363 -ATGC-TGGGTAGTTTTGTATC
1 GATACAT--TTACTTATGTATC
***
988383 GATACATTTTAAGGCATGTATC
1 GATACA-TTT-ACTTATGTATC
* *
988405 GATATATTCACTTATGTATC
1 GATACATTTACTTATGTATC
*
988425 GATACATTTACTATTTGTATC
1 GATACATTTACT-TATGTATC
988446 GATACA
1 GATACA
988452 AATATAGAAA
Statistics
Matches: 77, Mismatches: 23, Indels: 15
0.67 0.20 0.13
Matches are distributed among these distances:
17 1 0.01
18 3 0.04
19 6 0.08
20 34 0.44
21 19 0.25
22 13 0.17
23 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (20 bp):
GATACATTTACTTATGTATC
Found at i:995221 original size:3 final size:3
Alignment explanation
Indices: 995213--995286 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
995203 TATAAGGTTA
995213 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
995261 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
995287 CTAAAAATGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1003577 original size:33 final size:33
Alignment explanation
Indices: 1003540--1003606 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1003530 TTCAACGATT
1003540 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1003573 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1003606 T
1 T
1003607 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1003578 original size:13 final size:13
Alignment explanation
Indices: 1003560--1003584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003550 CATAAAATGT
1003560 TGTATCGATACAA
1 TGTATCGATACAA
1003573 TGTATCGATACA
1 TGTATCGATACA
1003585 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1003665 original size:13 final size:13
Alignment explanation
Indices: 1003647--1003671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003637 ATTACTCAAA
1003647 TGTATCGATACAT
1 TGTATCGATACAT
1003660 TGTATCGATACA
1 TGTATCGATACA
1003672 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1003773 original size:52 final size:52
Alignment explanation
Indices: 1003680--1003807 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1003670 CACTGATCTT
*
1003680 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1003731 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1003783 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1003808 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1010704 original size:1 final size:1
Alignment explanation
Indices: 1010700--1010778 Score: 68
Period size: 1 Copynumber: 79.0 Consensus size: 1
1010690 AAAAGTGATG
* * * * * * * *
1010700 AAAAAAAAAAAAAAAAAAACAACAAACAAAAAAAACACACAAAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1010765 AAACACAAAAAAAA
1 AAAAAAAAAAAAAA
1010779 TGCAAAGGCA
Statistics
Matches: 58, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1010747 original size:31 final size:32
Alignment explanation
Indices: 1010700--1010778 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 32
1010690 AAAAGTGATG
*
1010700 AAAAAAAA-A-AAAAAAAAAAC-AACAAACAA
1 AAAAAAAACACAAAAAAAAAACAAAAAAACAA
*
1010729 AAAAAACACAC-AAAAAAAAACAAAAAAACAA
1 AAAAAAAACACAAAAAAAAAACAAAAAAACAA
1010760 AAAAAAAACACAAAAAAAA
1 AAAAAAAACACAAAAAAAA
1010779 TGCAAAGGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.16
30 11 0.26
31 18 0.42
32 7 0.16
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (32 bp):
AAAAAAAACACAAAAAAAAAACAAAAAAACAA
Found at i:1010784 original size:11 final size:11
Alignment explanation
Indices: 1010702--1010778 Score: 75
Period size: 11 Copynumber: 6.7 Consensus size: 11
1010692 AAGTGATGAA
* *
1010702 AAAAAAAAAAA
1 AAAAAAAACAC
1010713 AAAAAACAACAAAC
1 AAAAAA-AAC--AC
1010727 AAAAAAAACAC
1 AAAAAAAACAC
*
1010738 ACAAAAAAAAAC
1 A-AAAAAAACAC
*
1010750 -AAAAAAACAA
1 AAAAAAAACAC
1010760 AAAAAAAACAC
1 AAAAAAAACAC
1010771 AAAAAAAA
1 AAAAAAAA
1010779 TGCAAAGGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
10 8 0.15
11 26 0.47
12 11 0.20
13 3 0.05
14 7 0.13
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:1011036 original size:16 final size:17
Alignment explanation
Indices: 1011015--1011047 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1011005 TGTTCTTTTC
1011015 CAAAAAAG-AAACAAAA
1 CAAAAAAGAAAACAAAA
1011031 CAAAAAAGAAAACAAAA
1 CAAAAAAGAAAACAAAA
1011048 GAGGAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (17 bp):
CAAAAAAGAAAACAAAA
Found at i:1012055 original size:31 final size:30
Alignment explanation
Indices: 1012017--1012166 Score: 149
Period size: 31 Copynumber: 4.9 Consensus size: 30
1012007 AAAAAAAAAA
*
1012017 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGCTC
* *
1012048 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATC-TTTGC-TC
1012080 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTG-CTC
* * * *
1012110 AAGGTCCACGACTCAATGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGC-TC
* * * *
1012141 AAAGCCCACAACTCCGTGGCACCTTT
1 AAAGTCCACGACTCAGTGGCATCTTT
1012167 TCCTTTAAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
30 28 0.28
31 48 0.48
32 23 0.23
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTGCTC
Found at i:1012119 original size:30 final size:32
Alignment explanation
Indices: 1012017--1012193 Score: 168
Period size: 32 Copynumber: 5.7 Consensus size: 32
1012007 AAAAAAAAAA
*
1012017 AAAGTCCACGACTCAGTGGCAATCTCTG-C-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGTCTTC
* *
1012048 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
1012080 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * *
1012110 AAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * * * *
1012141 AAAGCCCACAACTCCGTGGCACCTTT-TCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGT-CTTC
* * *
1012173 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1012194 CCCTTTTAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
30 31 0.25
31 45 0.36
32 50 0.40
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
Found at i:1012192 original size:93 final size:93
Alignment explanation
Indices: 1012020--1012193 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 93
1012010 AAAAAAAAAA
* * * * * *
1012020 GTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAAAGT
1 GTCCACGACTCAATGGCAATCTCTGCTCAAAGCCCACAACTCAGTGGCACCTTTTCCTTTAAAGC
*
1012085 CCACGACTCAGTGGCATTTTGTCTCAAG
66 CCACAACTCAGTGGCATTTTGTCTCAAG
* * * *
1012113 GTCCACGACTCAATGGC-ATTTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAG
1 GTCCACGACTCAATGGCAATCTCTGC-TCAAAGCCCACAACTCAGTGGCACCTTTTCCTTTAAAG
*
1012177 CCCACAACTCCGTGGCA
65 CCCACAACTCAGTGGCA
1012194 CCCTTTTAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
92 5 0.07
93 63 0.93
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (93 bp):
GTCCACGACTCAATGGCAATCTCTGCTCAAAGCCCACAACTCAGTGGCACCTTTTCCTTTAAAGC
CCACAACTCAGTGGCATTTTGTCTCAAG
Found at i:1012271 original size:27 final size:27
Alignment explanation
Indices: 1012233--1012284 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1012223 TTTTTTCATC
*
1012233 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
1012260 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
1012285 TTCTTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:1012302 original size:34 final size:34
Alignment explanation
Indices: 1012263--1012629 Score: 462
Period size: 34 Copynumber: 10.7 Consensus size: 34
1012253 GCACCCGTTT
*
1012263 AAGCCCACAACTCCGTGGCACCTTCTTCTCTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTTA
*
1012297 AAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTTA
* *
1012331 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCA
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT-A
*
1012368 AAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTTA
1012402 AAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCA
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT-A
*
1012439 AAGCCCACGACTCCGTGGCA-------CTCTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTTA
* *
1012466 AAGCCCACAACTCCGTGGCACCTTCTTCTGTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTTA
*
1012500 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT-A
*
1012537 AAGCCCACAACTCCGTGGCACTTTTTTCT-TTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTCTTTA
* *
1012570 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCTCTTTA
* *
1012605 AAGTCCACAACTCCGTGGCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
1012630 CTCCCTTCTC
Statistics
Matches: 293, Mismatches: 22, Indels: 36
0.83 0.06 0.10
Matches are distributed among these distances:
27 20 0.07
28 3 0.01
29 3 0.01
33 22 0.08
34 114 0.39
35 46 0.16
36 22 0.08
37 63 0.22
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTCTTTA
Found at i:1012386 original size:71 final size:68
Alignment explanation
Indices: 1012132--1012650 Score: 542
Period size: 71 Copynumber: 7.8 Consensus size: 68
1012122 TCAATGGCAT
*
1012132 TTTTTC-TTCAAAGCCCACAACTCCGTGGCAC-C-TTTTCC-TTTAAAGCCCACAACTCCGTGGC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGC
1012193 ACC
66 ACC
* * * *
1012196 -----CTTTTAAAGCCCACAATTCCGAGGCACT-TTTTTCATCTTT-AAGTCCACAACTCCGTGG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT-TTTAAAGCCCACAACTCCGTGG
1012254 CACC
65 CACC
* *
1012258 -----CGTTT-AAGCCCACAACTCCGTGGCAC-CTTCTT-CTCTTTAAAGCCCACAACTCCGTGG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT-TTTAAAGCCCACAACTCCGTGG
1012315 CACC
65 CACC
*
1012319 TTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGT
1012384 GGCACC
63 GGCACC
*
1012390 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTTT-AAAGCCCACAACTCCGT
1012455 GGCA-C
63 GGCACC
*
1012460 ----TC-TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTGTTTAAAGCCCACAACTCCGTGG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT-TTTAAAGCCCACAACTCCGTGG
1012518 CACTC
65 CAC-C
1012523 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTT-CTTTTAAAGCCCACAACTCCGT
1 TTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGT
1012586 GGCACTC
63 GGCAC-C
* *
1012593 TTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCTCTAAAGCCCACA
1 TTTTT--CTTTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCCTT-T-TAAAGCCCACA
1012651 CAAGTCGGTG
Statistics
Matches: 398, Mismatches: 21, Indels: 64
0.82 0.04 0.13
Matches are distributed among these distances:
59 1 0.00
60 27 0.07
61 71 0.18
62 28 0.07
63 9 0.02
64 25 0.06
66 3 0.01
67 5 0.01
68 42 0.11
69 7 0.02
70 50 0.13
71 119 0.30
72 11 0.03
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (68 bp):
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGC
ACC
Found at i:1012486 original size:169 final size:166
Alignment explanation
Indices: 1012136--1012629 Score: 616
Period size: 169 Copynumber: 3.0 Consensus size: 166
1012126 TGGCATTTTT
* *
1012136 TCTTCAAAGCCCACAACTCCGTGGCACCTT-TTC-CTTTAAAGCCCACAACTCCGTGGCA-----
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
* * * *
1012194 ---CCCTTTT-AAAGCCCACAATTCCGAGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGG
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCCGTGG
*
1012254 CA--------CCCGTTTAAGCCCACAACTCCGTGGCACCTTCTTC
129 CACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCA-------C
* *
1012291 TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1012356 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGC
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGC
* *
1012421 ACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCAC
130 ACTCTTTTTCCCTTTT--AAGCCCACAACTCCGTGGCAC
1012460 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
*
1012525 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
*
1012590 CTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-
131 CTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCAC
1012625 TCTTT
1 TCTTT
1012630 CTCCCTTCTC
Statistics
Matches: 300, Mismatches: 17, Indels: 34
0.85 0.05 0.10
Matches are distributed among these distances:
155 29 0.10
156 3 0.01
157 23 0.08
165 16 0.05
166 63 0.21
168 38 0.13
169 104 0.35
174 5 0.02
176 19 0.06
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (166 bp):
TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:1012513 original size:203 final size:202
Alignment explanation
Indices: 1012138--1012650 Score: 688
Period size: 203 Copynumber: 2.6 Consensus size: 202
1012128 GCATTTTTTC
1012138 TTCAAAGCCCACAACTCCGTGGCAC-C-TTTTCC-TTTAAAGCCCACAACTCCGTGGCACC----
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
* * *
1012196 -CTTTTAAAGCCCACAATTCCGAGGCACT-TTTTTCATC-TTT--AAGTCCACAACTCCGTGGCA
66 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-TCTTTTCAAAGCCCACAACTCCGTGGCA
1012256 CCCGTTTAAGCCCACAACTCCGTGGCACCTTCTTCTCTTTAAAGCCCACAACTCCGTGGCAC-CT
130 CCCGTTTAAGCCCACAACTCCGTGGCACCTTCTTCTCTTTAAAGCCCACAACTCCGTGGCACTCT
1012320 TTTT-CTGT
195 TTTTCCT-T
*
1012328 TT-AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCTT
*
1012392 TTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGG
64 TTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGG
* *
1012457 CACTC-TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCAC
128 CACCCGTTT-AAGCCCACAACTCCGTGGCACCTTCTTCTCTTTAAAGCCCACAACTCCGTGGCAC
1012521 TCTTTTTCCCTT
192 TCTTTTT-CCTT
1012533 TTCAAAGCCCACAACTCCGTGGCACT-TTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTT
* * * *
1012596 TTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCTCTAAAGCCCACA
65 TT--CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTC-AAAGCCCACA
1012651 CAAGTCGGTG
Statistics
Matches: 286, Mismatches: 13, Indels: 35
0.86 0.04 0.10
Matches are distributed among these distances:
189 21 0.07
190 3 0.01
191 4 0.01
192 2 0.01
193 3 0.01
194 23 0.08
199 2 0.01
200 26 0.09
201 9 0.03
202 37 0.13
203 113 0.40
204 9 0.03
205 10 0.03
206 24 0.08
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (202 bp):
TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCAC
CCGTTTAAGCCCACAACTCCGTGGCACCTTCTTCTCTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCTT
Found at i:1012746 original size:33 final size:34
Alignment explanation
Indices: 1012632--1012772 Score: 223
Period size: 34 Copynumber: 4.2 Consensus size: 34
1012622 GCATCTTTCT
1012632 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
1012666 CCCTTCTATAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* * *
1012700 CCCTTCTCCAAAGCCCACACAAGTTGGCGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
1012733 CCATTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1012766 CCCTTCT
1 CCCTTCT
1012773 AAGCCCAATA
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 37 0.38
34 60 0.62
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.18
Consensus pattern (34 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:1012830 original size:49 final size:49
Alignment explanation
Indices: 1012772--1013713 Score: 1217
Period size: 49 Copynumber: 19.7 Consensus size: 49
1012762 GCAACCCTTC
* * * *
1012772 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1012821 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1012870 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1012919 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1012962 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1013011 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1013060 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1013109 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1013158 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
1013210 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1013253 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1013301 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1013344 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1013393 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * ** *
1013436 TAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1013485 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1013528 TAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1013577 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1013626 TAAGTCTAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
1013678 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1013714 ACATCCTTTT
Statistics
Matches: 782, Mismatches: 76, Indels: 67
0.85 0.08 0.07
Matches are distributed among these distances:
43 196 0.25
45 4 0.01
46 1 0.00
47 3 0.00
48 42 0.05
49 453 0.58
51 4 0.01
52 79 0.10
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1012983 original size:22 final size:22
Alignment explanation
Indices: 1012916--1012983 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1012906 GCACCTTTAT
1012916 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
1012938 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
1012959 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
1012981 CTT
1 CTT
1012984 GACTCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:1012992 original size:92 final size:92
Alignment explanation
Indices: 1012864--1013722 Score: 1207
Period size: 92 Copynumber: 9.1 Consensus size: 92
1012854 TTGGCACCTT
* *
1012864 CACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
1012929 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * * * *
1012956 CACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
* *
1013021 GTCGCTGGCCTTGAATCAGCATATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
1013048 CATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAG
1 ---CA-C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
1013113 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
60 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
1013146 CACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTT
1 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTT
1013211 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
57 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * *
1013247 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
1013311 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* *
1013338 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
1013403 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
1013430 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
* *
1013495 GTAGCTGGCCTTGACTCAGCACATTAG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
1013522 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
*
1013587 GTAGCTGGCCTTGACTCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* *
1013614 CACCTTCATCTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTT
1 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTT
* *
1013679 AAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGA
57 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1013715 CATCCTTT
1 CA-CCTTT
1013723 TTCATCATCT
Statistics
Matches: 703, Mismatches: 42, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
91 85 0.12
92 305 0.43
95 45 0.06
96 6 0.01
97 1 0.00
98 171 0.24
100 4 0.01
101 86 0.12
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:1013252 original size:21 final size:21
Alignment explanation
Indices: 1013228--1013294 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1013218 ATGTAGCTGG
1013228 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
1013249 CCTTTAAGTC--CA-ATGTAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
1013271 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
1013292 CCT
1 CCT
1013295 CACCTTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:1013274 original size:22 final size:22
Alignment explanation
Indices: 1013207--1013274 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1013197 CCTTTTCCAT
1013207 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
1013229 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
1013250 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
1013272 CTT
1 CTT
1013275 GAATCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:1013753 original size:56 final size:53
Alignment explanation
Indices: 1013525--1013761 Score: 215
Period size: 49 Copynumber: 4.6 Consensus size: 53
1013515 ACATTAGCAC
* * *
1013525 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGT-GGCACC--TT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA-TCGACACCTTTTCTCAT
* * * *
1013574 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * *
1013623 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * *
1013675 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC-TCAT
* * * *
1013731 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
1013762 ACATATTGGC
Statistics
Matches: 157, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.02
49 79 0.50
52 40 0.25
53 2 0.01
54 5 0.03
56 28 0.18
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
Found at i:1014653 original size:33 final size:33
Alignment explanation
Indices: 1014616--1014682 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1014606 TTCAACGATT
1014616 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1014649 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1014682 T
1 T
1014683 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1014654 original size:13 final size:13
Alignment explanation
Indices: 1014636--1014660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1014626 CATAAAATGT
1014636 TGTATCGATACAA
1 TGTATCGATACAA
1014649 TGTATCGATACA
1 TGTATCGATACA
1014661 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1014741 original size:13 final size:13
Alignment explanation
Indices: 1014723--1014747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1014713 ATTACTCAAA
1014723 TGTATCGATACAT
1 TGTATCGATACAT
1014736 TGTATCGATACA
1 TGTATCGATACA
1014748 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1014849 original size:52 final size:52
Alignment explanation
Indices: 1014756--1014883 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1014746 CACTGATCTT
*
1014756 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1014807 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1014859 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1014884 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1020329 original size:27 final size:27
Alignment explanation
Indices: 1020202--1021119 Score: 1235
Period size: 27 Copynumber: 34.3 Consensus size: 27
1020192 ACTGTGACCT
* * *
1020202 CTTTAAAGCCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
1020229 CTTTTAGAGTCCACAACTTTGTGGCATC
1 CTTTTA-AGTCCACAACTCCGTGGCACC
**
1020257 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1020285 CTTTTAAAGTCCATAACTCCGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1020313 GTTTTAAGTCCACAACTTCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1020341 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1020368 CTTTTAAGTCCATAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020395 CTTTTAAGTCCACAACTCCGTGGCA--
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1020420 ----TAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1020443 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1020471 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1020498 CTTTTAAGTCTACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1020525 CTTTTAAGTCCACAACTCCGTGGCAAC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020552 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1020580 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020607 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1020635 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1020662 CTTTTAAGTCCACAACTTCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020689 CTTTTAAGTCCACAACTCCGTGGCA--
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020714 ----TAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1020738 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020765 CTTTTAAGTCCACAACTCCGTGGCA--
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1020790 ----TAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1020813 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1020841 CTTTTAAGCCCACAACT-CGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020867 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1020894 CTTTTAAGTCCACAACTCAGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1020922 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020949 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1020976 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1021003 CTTTTAAGTCCACACCTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1021031 CTTTTCAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1021058 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1021085 CTTTTAAAATCCACAACTCCGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1021113 CTTTTAA
1 CTTTTAA
1021120 AATCCACACA
Statistics
Matches: 798, Mismatches: 63, Indels: 60
0.87 0.07 0.07
Matches are distributed among these distances:
21 61 0.08
26 23 0.03
27 426 0.53
28 287 0.36
29 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1020350 original size:55 final size:54
Alignment explanation
Indices: 1020202--1021119 Score: 1205
Period size: 55 Copynumber: 17.1 Consensus size: 54
1020192 ACTGTGACCT
* * * * ** *
1020202 CTTTAAAGCCCACAACTCCATGGCACCCTTTTAGAGTCCACAACTTTGTGGCATC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGCACC
* ** * *
1020257 CTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAAGTCCATAACTCCGTGGCACT
1 CTTTT-AAGTCCACAACTTCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
*
1020313 GTTTTAAGTCCACAACTTCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
1020368 CTTTTAAGTCCATAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA--
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* **
1020420 ----TAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
1020471 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCTACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1020525 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
1020580 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1020635 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTTCATGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1020689 CTTTTAAGTCCACAACTCCGTGGCA------TAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
1020738 CTTTTAAGTCCACAAC-TCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA--
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* **
1020790 ----TAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
*
1020841 CTTTTAAGCCCACAAC-TCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1020894 CTTTTAAGTCCACAAC-TCAGTGGCATCTCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
1020949 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
1021003 CTTTTAAGTCCACACCTCCGTGGCATCCCTTTTCAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1021058 CTTTTAAGTCCACAAC-TCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTTC-GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
1021113 CTTTTAA
1 CTTTTAA
1021120 AATCCACACA
Statistics
Matches: 773, Mismatches: 57, Indels: 66
0.86 0.06 0.07
Matches are distributed among these distances:
48 70 0.09
49 66 0.09
53 37 0.05
54 198 0.26
55 352 0.46
56 49 0.06
57 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1020417 original size:82 final size:81
Alignment explanation
Indices: 1020202--1021119 Score: 1235
Period size: 82 Copynumber: 11.4 Consensus size: 81
1020192 ACTGTGACCT
* * * ** *
1020202 CTTTAAAGCCCACAACTCCATGGCACCCTTTTAGAGTCCACAACTTTGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
1020267 CCACAACTCCGTGGCATT
64 CCACAACTCCGTGGCACC
* ** *
1020285 CTTTTAAAGTCCATAACTCCGTGGCACTGTTTTAAGTCCACAACTTCGTGGCATCCCTTTTAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
1020350 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* *
1020368 CTTTTAAGTCCATAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA------TAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1020427 ACAACTTCGTGGCATC
66 ACAACTCCGTGGCACC
** *
1020443 CTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1020508 TACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
1020525 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1020590 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
1020607 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1020672 CACAACTTCATGGCACC
65 CACAACTCCGTGGCACC
1020689 CTTTTAAGTCCACAACTCCGTGGCA------TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1020748 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
1020765 CTTTTAAGTCCACAACTCCGTGGCA------TAAGTCCACAACTTCGTGGCATCCTTTTAAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
**
1020824 CACAACTCCGTGGCATT
65 CACAACTCCGTGGCACC
*
1020841 CTTTTAAGCCCACAACT-CGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1020905 ACAACTCAGTGGCATCT
66 ACAACTCCGTGGCA-CC
*
1020922 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1020987 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* * *
1021003 CTTTTAAGTCCACACCTCCGTGGCATCCCTTTTCAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1021068 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
1021085 CTTTTAAAATCCACAACTCCGTGGCACTCTTTTAA
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAA
1021120 AATCCACACA
Statistics
Matches: 752, Mismatches: 60, Indels: 47
0.88 0.07 0.05
Matches are distributed among these distances:
75 59 0.08
76 148 0.20
80 19 0.03
81 111 0.15
82 296 0.39
83 90 0.12
84 29 0.04
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:1020425 original size:21 final size:21
Alignment explanation
Indices: 1020399--1020441 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1020389 GGCACCCTTT
1020399 TAAGTCCACAACTCCGTGGCA
1 TAAGTCCACAACTCCGTGGCA
*
1020420 TAAGTCCACAACTTCGTGGCA
1 TAAGTCCACAACTCCGTGGCA
1020441 T
1 T
1020442 CCTTTTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (21 bp):
TAAGTCCACAACTCCGTGGCA
Found at i:1020719 original size:21 final size:21
Alignment explanation
Indices: 1020693--1020811 Score: 103
Period size: 21 Copynumber: 5.0 Consensus size: 21
1020683 GGCACCCTTT
1020693 TAAGTCCACAACTCCGTGGCA
1 TAAGTCCACAACTCCGTGGCA
1020714 TAAGTCCACAACTCCGTGGCA
1 TAAGTCCACAACTCCGTGGCA
*
1020735 TCCCTTTTAAGTCCACAACTCTGTGGCA
1 -------TAAGTCCACAACTCCGTGGCA
1020763 CCCTTTTAAGTCCACAACTCCGTGGCA
1 ------TAAGTCCACAACTCCGTGGCA
*
1020790 TAAGTCCACAACTTCGTGGCA
1 TAAGTCCACAACTCCGTGGCA
1020811 T
1 T
1020812 CCTTTTAAAG
Statistics
Matches: 88, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
21 42 0.48
27 26 0.30
28 20 0.23
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (21 bp):
TAAGTCCACAACTCCGTGGCA
Found at i:1021160 original size:32 final size:32
Alignment explanation
Indices: 1021123--1021854 Score: 1179
Period size: 32 Copynumber: 22.9 Consensus size: 32
1021113 CTTTTAAAAT
1021123 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1021155 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
* *
1021187 CCAGACAAGTCAGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021219 CCACACAAGTCGGTGGCAA-CCATTTTAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1021250 CCACACAAGTCGGTGGCAA-CCATTTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCA-TTTCAAAGC
*
1021282 CCACACAAGTTGGTGGCAA-CCATTTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCA-TTTCAAAGC
1021314 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021346 CCACACAAGTCGGTGGCAACCTATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1021378 CCACACAAGTCGGTGGCAA-CCATTTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCA-TTTCAAAGC
*
1021410 CCACATAAGTCGGTGGCAA-CCATTTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCA-TTTCAAAGC
* *
1021442 CCACACAAGTCGGTGACAACCCTTTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021474 CCACACAAGTCGGTGGCAACCCATTCCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1021506 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
* *
1021538 CCATACAAGTCGGTGGCAACCCATTCCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021570 CCACATAAGTCGGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
* *
1021602 CCACACAAGTCGGTGGAAACCCTTTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021634 CCACACAAGTCAGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1021666 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
* *
1021698 CCACACAAGTCGGTGGCTACCCATTCCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021730 CCACATAAGTCGGTGGCAACCCATTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021762 CCACACAAGTCGGT-GCAACCCTTTTCAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
*
1021793 CCACACAAGTCGGTGGCAACCCATTTAAAAGC
1 CCACACAAGTCGGTGGCAACCCATTTCAAAGC
** *
1021825 CCACACAAGTTAGTGGCAACCCTTTTCAAA
1 CCACACAAGTCGGTGGCAACCCATTTCAAA
1021855 TCACCATTTT
Statistics
Matches: 652, Mismatches: 43, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
31 65 0.10
32 582 0.89
33 5 0.01
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.18
Consensus pattern (32 bp):
CCACACAAGTCGGTGGCAACCCATTTCAAAGC
Found at i:1022398 original size:23 final size:23
Alignment explanation
Indices: 1022372--1022417 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
1022362 GTCATAAACC
*
1022372 AACAACAAA-AAAATAAAAAAGGA
1 AACAA-AAACAAAAAAAAAAAGGA
1022395 AACAAAAAGCAAAAAAAAAAAGG
1 AACAAAAA-CAAAAAAAAAAAGG
1022418 GGAAGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 5 0.25
24 12 0.60
ACGTcount: A:0.78, C:0.09, G:0.11, T:0.02
Consensus pattern (23 bp):
AACAAAAACAAAAAAAAAAAGGA
Found at i:1023113 original size:17 final size:15
Alignment explanation
Indices: 1023093--1023142 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
1023083 TTAGGTAAAA
1023093 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
1023110 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
*
1023124 AA-AAAGAAA-AAAA
1 AAGAAAGAAAGAAAG
1023137 AAGAAA
1 AAGAAA
1023143 AAATATGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:1023139 original size:20 final size:20
Alignment explanation
Indices: 1023089--1023142 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1023079 AAAGTTAGGT
* *
1023089 AAAAAAGAAAGAAAGAAGATG
1 AAAAAA-AAAGAAAGAAAAAG
* *
1023110 AAGAAGAAAGAAAGAAAAAG
1 AAAAAAAAAGAAAGAAAAAG
1023130 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
1023143 AAATATGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAAAAG
Found at i:1023152 original size:10 final size:10
Alignment explanation
Indices: 1023116--1023145 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1023106 GATGAAGAAG
*
1023116 AAAGAAAGAA
1 AAAGAAAAAA
1023126 AAAGAAAAAA
1 AAAGAAAAAA
1023136 AAAGAAAAAA
1 AAAGAAAAAA
1023146 TATGAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:1023152 original size:20 final size:19
Alignment explanation
Indices: 1023089--1023152 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
1023079 AAAGTTAGGT
*
1023089 AAAAAAGAAAGAAAGAAGATG
1 AAAAAA-AAAGAAA-AAAATG
* * *
1023110 AAGAAGAAAGAAAGAAAAAG
1 AAAAAAAAAGAAA-AAAATG
1023130 AAAAAAAAAGAAAAAATATG
1 AAAAAAAAAGAAAAAA-ATG
1023150 AAA
1 AAA
1023153 TGGAGTGGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 3 0.09
20 28 0.80
21 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAATG
Found at i:1026652 original size:24 final size:22
Alignment explanation
Indices: 1026592--1026650 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 22
1026582 AATATTTATT
1026592 TTATATAAT-AAAAA-TATATA
1 TTATATAATAAAAAATTATATA
* *
1026612 ATATATCAATACAAAATTAATATA
1 TTATAT-AATAAAAAATT-ATATA
1026636 TTATATAATAAAAAA
1 TTATATAATAAAAAA
1026651 ATGGGCCGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 5 0.16
21 3 0.10
22 4 0.13
23 9 0.29
24 10 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (22 bp):
TTATATAATAAAAAATTATATA
Found at i:1028413 original size:21 final size:21
Alignment explanation
Indices: 1028389--1028429 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1028379 CTAGAATTTG
*
1028389 GGATAATTTTTTATAAAATAT
1 GGATAATTTTTTAGAAAATAT
1028410 GGATAATTTTTTAGAAAATA
1 GGATAATTTTTTAGAAAATA
1028430 GTAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (21 bp):
GGATAATTTTTTAGAAAATAT
Found at i:1028437 original size:20 final size:21
Alignment explanation
Indices: 1028393--1028437 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1028383 AATTTGGGAT
* *
1028393 AATTTTTTATAAAATATGGAT
1 AATTTTTTAGAAAATATGGAA
*
1028414 AATTTTTTAGAAAATA-GTAA
1 AATTTTTTAGAAAATATGGAA
1028434 AATT
1 AATT
1028438 AATTTCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (21 bp):
AATTTTTTAGAAAATATGGAA
Done.