Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 76 of 120
Found at i:22200649 original size:49 final size:49
Alignment explanation
Indices: 22200589--22200968 Score: 331
Period size: 49 Copynumber: 7.7 Consensus size: 49
22200579 GGGTTTACCA
22200589 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCG
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCG
** * * *
22200638 TTGCGATCTCAACCTTTCTCATTGC--ATC-TCTATGGAACCGGATTCGCCG
1 TTGCGGCCTCAACCTTTC-CCTT-CAAATCTTC-ATGGTACCGGGTTCGCCG
* * * * * *
22200687 TTACGGCCTCAATCC-TTCCCAT-AATATCTTTTAAGGTACCAGGTTCACCG
1 TTGCGGCCTCAA-CCTTTCCCTTCAA-ATC-TTCATGGTACCGGGTTCGCCG
** * **
22200737 TTGCGATCTCAACCTTTCCCTTCAAATTTTTGTGGTACCGGGTTCGCCG
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCG
* * * * * *
22200786 TTACGACCTCAACTTTTCCCTTCATATCTTCTTAGGTATCGGGTTCGCCG
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT-GGTACCGGGTTCGCCG
* * * * * * *
22200836 TTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGATTCACTG
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTC-ATGGTACCGGGTTCGCCG
** *
22200886 ACGCGGCCTCAATCC-TTCCCTTCTAATCTTCATGGTACCGGGTTCGCCG
1 TTGCGGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCG
* *
22200935 TTGCGGCCTCAACTTTTCCCTTTAAATCTTCATG
1 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATG
22200969 TTTTTCTCCG
Statistics
Matches: 256, Mismatches: 60, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
48 5 0.02
49 135 0.53
50 110 0.43
51 6 0.02
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (49 bp):
TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCG
Found at i:22200897 original size:149 final size:151
Alignment explanation
Indices: 22200591--22200965 Score: 451
Period size: 149 Copynumber: 2.5 Consensus size: 151
22200581 GTTTACCATT
* *
22200591 GCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGCGATCTCAACCTTT-
1 GCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGCGACCTCAACTTTTC
* *
22200655 -C-TCAT-TGCATCTCTATGGAACCGGATTCGCCGTTACGGCCTCAATCCTTCCCATAATATCTT
66 CCTTCATAT-CTTCTCTATGGAACCGGATTCGCCGTTACGGCCTCAATCCTTCCCATAACATCTT
* * **
22200717 TTAAGGTACCAGGTTCACCGTT
130 CTAAGGTACCAGATTCACCGAC
** * ** *
22200739 GCGATCTCAACCTTTCCCTTCAAATTTTTGTGGTACCGGGTTCGCCGTTACGACCTCAACTTTTC
1 GCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGCGACCTCAACTTTTC
* * * * *
22200804 CCTTCATATCTTCT-TA-GGTATCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCATCACATCTT
66 CCTTCATATCTTCTCTATGGAACCGGATTCGCCGTTACGGCCTCAATCC-TTCCCATAACATCTT
*
22200866 CTAAGGTACCAGATTCACTGAC
130 CTAAGGTACCAGATTCACCGAC
* *
22200888 GCGGCCTCAATCC-TTCCCTTCTAATCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACTTTT
1 GCGGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGCGACCTCAACTTTT
* *
22200952 CCCTTTAAATCTTC
65 CCCTTCATATCTTC
22200966 ATGTTTTTCT
Statistics
Matches: 191, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
148 58 0.30
149 119 0.62
150 5 0.03
151 8 0.04
152 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (151 bp):
GCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGCGACCTCAACTTTTC
CCTTCATATCTTCTCTATGGAACCGGATTCGCCGTTACGGCCTCAATCCTTCCCATAACATCTTC
TAAGGTACCAGATTCACCGAC
Found at i:22200928 original size:99 final size:99
Alignment explanation
Indices: 22200592--22200954 Score: 351
Period size: 99 Copynumber: 3.7 Consensus size: 99
22200582 TTTACCATTG
*
22200592 CGGCCTCAACCTTTCCCTTCAA-ATCTTCATGGTACCGGGTTCGCCGTTGCGATCTCAACCTTTC
1 CGGCCTCAACC-TTCCCTTCAATATCTTCATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTC
* ** *
22200656 TCATTGCATC-TCTATGGAACCGGATTCGCCGTTA
65 CCATCACATCTTCTATGGTACCGGATTCGCCGTTA
* * * * * *
22200690 CGGCCTCAATCCTTCCCAT-AATATCTTTTAAGGTACCAGGTTCACCGTTGCGATCTCAACCTTT
1 CGGCCTCAA-CCTTCCCTTCAATATC-TTCATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTT
* * * * *
22200754 CCCTTCAAAT-TTTTGTGGTACCGGGTTCGCCGTTA
64 CCCATCACATCTTCTATGGTACCGGATTCGCCGTTA
* * * * *
22200789 CGACCTCAACTTTTCCCTTC-ATATCTTCTTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTT
1 CGGCCTCAAC-CTTCCCTTCAATATCTTCAT-GGTACCGGGTTCGCCGTTGCGACCTCAACCTTT
* * * * ***
22200853 CCCATCACATCTTCTAAGGTACCAGATTCACTGACG
64 CCCATCACATCTTCTATGGTACCGGATTCGCCGTTA
* * *
22200889 CGGCCTCAATCCTTCCCTTCTA-ATCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACTTTTC
1 CGGCCTCAA-CCTTCCCTTCAATATCTTCATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTC
22200953 CC
65 CC
22200955 TTTAAATCTT
Statistics
Matches: 213, Mismatches: 42, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
97 2 0.01
98 21 0.10
99 150 0.70
100 38 0.18
101 2 0.01
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (99 bp):
CGGCCTCAACCTTCCCTTCAATATCTTCATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCC
CATCACATCTTCTATGGTACCGGATTCGCCGTTA
Found at i:22201928 original size:26 final size:26
Alignment explanation
Indices: 22201892--22201947 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
22201882 TTTTTCCCGT
22201892 TTTTTCTATTTTCTTT-TTCCTTTTTCC
1 TTTTTCTATTTT-TTTCTT-CTTTTTCC
*
22201919 TTTTT-TATTTTTTTCTTCTTTTTTC
1 TTTTTCTATTTTTTTCTTCTTTTTCC
22201944 TTTT
1 TTTT
22201948 CTTTCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 14 0.52
26 8 0.30
27 5 0.19
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTCTATTTTTTTCTTCTTTTTCC
Found at i:22201940 original size:10 final size:9
Alignment explanation
Indices: 22201926--22201968 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
22201916 TCCTTTTTTA
22201926 TTTTTTTCT
1 TTTTTTTCT
22201935 TCTTTTTTCT
1 T-TTTTTTCT
*
22201945 TTTCTTTCT
1 TTTTTTTCT
*
22201954 TTTTATTTAT
1 TTTT-TTTCT
22201964 TTTTT
1 TTTTT
22201969 CTTCATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:22201947 original size:15 final size:15
Alignment explanation
Indices: 22201891--22201957 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
22201881 TTTTTTCCCG
*
22201891 TTTTTTCTATT-TTC
1 TTTTTTCTTTTCTTC
*
22201905 TTTTTCCTTTTTCCTT-
1 TTTTTTC-TTTT-CTTC
*
22201921 TTTTATTTTTTTCTTC
1 TTTT-TTCTTTTCTTC
22201937 TTTTTTCTTTTCTTTC
1 TTTTTTCTTTTC-TTC
22201953 TTTTT
1 TTTTT
22201958 ATTTATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
14 6 0.14
15 13 0.31
16 20 0.48
17 3 0.07
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTCTTTTCTTC
Found at i:22201956 original size:26 final size:25
Alignment explanation
Indices: 22201892--22201971 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 25
22201882 TTTTTCCCGT
*
22201892 TTTTTCTATTTTCTT-TTTCCTTTTTCC
1 TTTTT-TATTTT-TTATTT-CTTTTTTC
22201919 TTTTTTATTTTTT-TCTTCTTTTTTC
1 TTTTTTATTTTTTAT-TTCTTTTTTC
*
22201944 TTTTCTT-TCTTTTTATTTATTTTTTC
1 TTTT-TTAT-TTTTTATTTCTTTTTTC
22201970 TT
1 TT
22201972 CATTGAATCC
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
25 15 0.32
26 26 0.55
27 6 0.13
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTATTTTTTATTTCTTTTTTC
Found at i:22206734 original size:30 final size:30
Alignment explanation
Indices: 22206698--22207062 Score: 261
Period size: 30 Copynumber: 12.5 Consensus size: 30
22206688 ATTCGGGGGT
*
22206698 AAAATGGAGTTTTTAGAAGTTTTAGGGTTA
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
*
22206728 AAAATGGAGTTTTTAGAAGTTTTAGGGTTA
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
* * *
22206758 AAAATGGAATTTATGGAA-TTTT-GGGGTA
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
* * * *
22206786 AAAATGTAATTTTAAGAAGTTTTTGGG-TC
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
* **
22206815 AAAATGGAATTTTTGGAAGTTCGAGGGTT-
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
* * * *
22206844 AAAATGTAATTTTTGGAAG-TTTCGAGGTCA
1 AAAATGGAATTTTTAGAAGTTTTAG-GGTTA
* * * ** *
22206874 AAAATGTAA-ATTTGGAAGTTCGAGGGTGA
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
* *
22206903 AAATAT--AATTTTGAGAAGTTTTAGGGTAA
1 AAA-ATGGAATTTTTAGAAGTTTTAGGGTTA
* *
22206932 AAAATGGAATTTTT-GAAAGTTTGAGAG-TA
1 AAAATGGAATTTTTAG-AAGTTTTAGGGTTA
* *
22206961 AAAATGTAATTTTTAGAAGTTTTGGGGTTA
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
* * * *
22206991 AAAATGTAATTTTT-GAAAG--TTCGGGGTC
1 AAAATGGAATTTTTAG-AAGTTTTAGGGTTA
* * * * **
22207019 AAAATGTAATTTTTGGAAGCTTCAGGGCCA
1 AAAATGGAATTTTTAGAAGTTTTAGGGTTA
22207049 AAAATGGAATTTTT
1 AAAATGGAATTTTT
22207063 GGATAATTTA
Statistics
Matches: 270, Mismatches: 48, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
28 48 0.18
29 108 0.40
30 114 0.42
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAATGGAATTTTTAGAAGTTTTAGGGTTA
Found at i:22206740 original size:29 final size:29
Alignment explanation
Indices: 22206698--22207003 Score: 214
Period size: 29 Copynumber: 10.4 Consensus size: 29
22206688 ATTCGGGGGT
*
22206698 AAAATGGAGTTTTTAGAAGTTTTAGGGTTA
1 AAAATGGA-ATTTTAGAAGTTTTAGGGTTA
*
22206728 AAAATGGAGTTTTTAGAAGTTTTAGGGTTA
1 AAAATGGA-ATTTTAGAAGTTTTAGGGTTA
* *
22206758 AAAATGGAATTTATGGAA-TTTT-GGGGTA
1 AAAATGGAATTT-TAGAAGTTTTAGGGTTA
* * *
22206786 AAAATGTAATTTTAAGAAGTTTTTGGG-TC
1 AAAATGGAATTTT-AGAAGTTTTAGGGTTA
* **
22206815 AAAATGGAATTTTTGGAAGTTCGAGGGTT-
1 AAAATGGAA-TTTTAGAAGTTTTAGGGTTA
* * * *
22206844 AAAATGTAATTTTTGGAAG-TTTCGAGGTCA
1 AAAATGGAA-TTTTAGAAGTTTTAG-GGTTA
* * * ** *
22206874 AAAATGTAAATTTGGAAGTTCGAGGGTGA
1 AAAATGGAATTTTAGAAGTTTTAGGGTTA
*
22206903 AAATAT--AATTTTGAGAAGTTTTAGGGTAA
1 AAA-ATGGAATTTT-AGAAGTTTTAGGGTTA
* * *
22206932 AAAATGGAATTTTTGAAAGTTTGAGAG-TA
1 AAAATGGAATTTTAG-AAGTTTTAGGGTTA
* *
22206961 AAAATGTAATTTTTAGAAGTTTTGGGGTTA
1 AAAATGGAA-TTTTAGAAGTTTTAGGGTTA
*
22206991 AAAATGTAATTTT
1 AAAATGGAATTTT
22207004 TGAAAGTTCG
Statistics
Matches: 225, Mismatches: 35, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.00
28 28 0.12
29 102 0.45
30 94 0.42
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
AAAATGGAATTTTAGAAGTTTTAGGGTTA
Found at i:22206788 original size:58 final size:59
Alignment explanation
Indices: 22206698--22207065 Score: 377
Period size: 58 Copynumber: 6.3 Consensus size: 59
22206688 ATTCGGGGGT
* * ** * *
22206698 AAAATGGAGTTTTTAGAAGTTTTAGGGTTAAAAATGGAGTTTTTAGAAGTTTTAGGGTTA
1 AAAATGGAATTTTTGGAAGTTCGAGGG-TAAAAATGTAATTTTTAGAAGTTTTAGGGTTA
* * * * * *
22206758 AAAATGGAATTTATGGAATTTTG-GGGTAAAAATGTAATTTTAAGAAGTTTTTGGG-TC
1 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAAGTTTTAGGGTTA
* * * *
22206815 AAAATGGAATTTTTGGAAGTTCGAGGGTTAAAATGTAATTTTTGGAAG-TTTCGAGGTCA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAAGTTTTAG-GGTTA
* * * * * *
22206874 AAAATGTAA-ATTTGGAAGTTCGAGGGTGAAAATATAATTTTGAGAAGTTTTAGGGTAA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAAGTTTTAGGGTTA
* * * *
22206932 AAAATGGAATTTTTGAAAGTTTGAGAGTAAAAATGTAATTTTTAGAAGTTTTGGGGTTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAAGTTTTAGGGTTA
* * * * * * **
22206991 AAAATGTAATTTTTGAAAGTTCG-GGGTCAAAATGTAATTTTTGGAAGCTTCAGGGCCA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAAGTTTTAGGGTTA
22207049 AAAATGGAATTTTTGGA
1 AAAATGGAATTTTTGGA
22207066 TAATTTAGGG
Statistics
Matches: 254, Mismatches: 49, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
57 25 0.10
58 135 0.53
59 76 0.30
60 18 0.07
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (59 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAGAAGTTTTAGGGTTA
Found at i:22207016 original size:29 final size:29
Alignment explanation
Indices: 22206756--22207063 Score: 211
Period size: 29 Copynumber: 10.6 Consensus size: 29
22206746 GTTTTAGGGT
* * * *
22206756 TAAAAATGGAATTTATGGAA-TTTTGGGG
1 TAAAAATGTAATTTTTGAAAGTTTCGGGG
* **
22206784 TAAAAATGTAA-TTTTAAGAAGTTTTTGGG
1 TAAAAATGTAATTTTTGA-AAGTTTCGGGG
* * *
22206813 TCAAAATGGAATTTTTGGAAG-TTCGAGGG
1 TAAAAATGTAATTTTTGAAAGTTTCG-GGG
* * *
22206842 TTAAAATGTAATTTTTGGAAGTTTCGAGG
1 TAAAAATGTAATTTTTGAAAGTTTCGGGG
* *
22206871 TCAAAAATGTAA-ATTTGGAAG-TTCGAGGG
1 T-AAAAATGTAATTTTTGAAAGTTTCG-GGG
* * **
22206900 TGAAAATATAA-TTTTGAGAAGTTTTAGGG
1 TAAAAATGTAATTTTTGA-AAGTTTCGGGG
* *
22206929 TAAAAAATGGAATTTTTGAAAGTTT-GAGAG
1 T-AAAAATGTAATTTTTGAAAGTTTCG-GGG
*
22206959 TAAAAATGTAATTTTT-AGAAGTTTTGGGG
1 TAAAAATGTAATTTTTGA-AAGTTTCGGGG
22206988 TTAAAAATGTAATTTTTGAAAG-TTCGGGG
1 -TAAAAATGTAATTTTTGAAAGTTTCGGGG
* * * *
22207017 TCAAAATGTAATTTTTGGAAGCTTCAGGGC
1 TAAAAATGTAATTTTTGAAAGTTTC-GGGG
* *
22207047 CAAAAATGGAATTTTTG
1 TAAAAATGTAATTTTTG
22207064 GATAATTTAG
Statistics
Matches: 225, Mismatches: 37, Indels: 34
0.76 0.12 0.11
Matches are distributed among these distances:
27 3 0.01
28 50 0.22
29 93 0.41
30 72 0.32
31 7 0.03
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
TAAAAATGTAATTTTTGAAAGTTTCGGGG
Found at i:22208968 original size:6 final size:6
Alignment explanation
Indices: 22208951--22209016 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
22208941 TTTGGACATT
* * *
22208951 AATTTA ATTTTA AATTT- -ATGTA AATTTA AATTTA AA-ATA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
22208996 ACTTTA AA-ATA AATTTA AATT
1 AATTTA AATTTA AATTTA AATT
22209017 CTGTTTTGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
4 3 0.07
5 8 0.17
6 35 0.76
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:22208991 original size:17 final size:17
Alignment explanation
Indices: 22208971--22209016 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
22208961 TAAATTTATG
22208971 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
22208988 TAAATTTAACTTTAAAA
1 TAAATTTAAATTTAAAA
22209005 TAAATTTAAATT
1 TAAATTTAAATT
22209017 CTGTTTTGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:22209825 original size:201 final size:200
Alignment explanation
Indices: 22209352--22209999 Score: 841
Period size: 201 Copynumber: 3.2 Consensus size: 200
22209342 ACTTGGCCTT
** * * ** * * * *
22209352 CTTCTCAGTATCTCATCAGGAAGATGACTGCATCACTTATTTTGATCCACTTCTCTGTGTTTCAA
1 CTTCTCAGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * ** * *
22209417 CAGGAAGACGGATTTGGTTCACTTCTCCGTATCTCATTAAAAAGCTAACCA-TTTGTTACTTTGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGA
* *
22209481 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAATATTTGCTCATATCGAGCGTGAGTTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGA----
* *
22209546 GATTTGGTCTT
192 G--TTGGTATA
* * **
22209557 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
22209622 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGA
* *
22209687 CCTACTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGCTGAGTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCG-TGAGTT
22209752 GGTATA
195 GGTATA
* * *
22209758 CTTCTCTGTATCTCATCAGGAAGATGATCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * *
22209823 CAGGAAGACTAATTTGGTCCACTTCTTACTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGA
* * *
22209888 CCTGCTTCTCAGTATCTCATCAGGAAGCCGGGGTTCGAAGATTTGCTCGCATTGAGCGTCGAGTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGT-GAGTT
*
22209953 GGCATA
195 GGTATA
* *
22209959 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCAC-TGTTT
1 CTTCTCAGTATCTCATCAGGAAGATGACCACCTCACTTGTTT
22210000 GTGTATGATC
Statistics
Matches: 397, Mismatches: 43, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
200 6 0.02
201 222 0.56
203 1 0.00
205 100 0.25
206 65 0.16
207 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (200 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGA
CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTTG
GTATA
Found at i:22216000 original size:13 final size:13
Alignment explanation
Indices: 22215982--22216024 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
22215972 ATCTCGGGCC
22215982 TTTGCTGATCTCT
1 TTTGCTGATCTCT
* *
22215995 TTTGCT-TTC-CC
1 TTTGCTGATCTCT
22216006 TTTGCTGATCTCT
1 TTTGCTGATCTCT
22216019 TTTGCT
1 TTTGCT
22216025 TTTTCTACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 7 0.29
12 4 0.17
13 13 0.54
ACGTcount: A:0.05, C:0.26, G:0.14, T:0.56
Consensus pattern (13 bp):
TTTGCTGATCTCT
Found at i:22216012 original size:24 final size:24
Alignment explanation
Indices: 22215980--22216026 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
22215970 GTATCTCGGG
22215980 CCTTTGCTGATCTCTTTTGCTTTC
1 CCTTTGCTGATCTCTTTTGCTTTC
22216004 CCTTTGCTGATCTCTTTTGCTTT
1 CCTTTGCTGATCTCTTTTGCTTT
22216027 TTCTACTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.28, G:0.13, T:0.55
Consensus pattern (24 bp):
CCTTTGCTGATCTCTTTTGCTTTC
Found at i:22221680 original size:156 final size:156
Alignment explanation
Indices: 22221396--22221708 Score: 590
Period size: 156 Copynumber: 2.0 Consensus size: 156
22221386 AAAGAAAGGT
*
22221396 TGCACCTAGTGAGTTAAGGCGTAAATTTTTAGAATCAGAGATAAGGAAACATTGCCTCGATTAAG
1 TGCACCTAGTGAGTTAAGGCGCAAATTTTTAGAATCAGAGATAAGGAAACATTGCCTCGATTAAG
* * *
22221461 GGTATTCGATTATCTCGATTCGAAGAAAAATTGCACCTAGTGAGTTAATGTACAAAATTTTGAAA
66 GGTATTCGATTATCTCGATTCGAAGAAAAATTACACCTAGTAAGTTAAGGTACAAAATTTTGAAA
22221526 CTCGAAATAAAAAAATATTGCCTTGA
131 CTCGAAATAAAAAAATATTGCCTTGA
22221552 TGCACCTAGTGAGTTAAGGCGCAAATTTTTAGAATCAGAGATAAGGAAACATTGCCTCGATTAAG
1 TGCACCTAGTGAGTTAAGGCGCAAATTTTTAGAATCAGAGATAAGGAAACATTGCCTCGATTAAG
22221617 GGTATTCGATTATCTCGATTCGAAGAAAAATTACACCTAGTAAGTTAAGGTACAAAATTTTGAAA
66 GGTATTCGATTATCTCGATTCGAAGAAAAATTACACCTAGTAAGTTAAGGTACAAAATTTTGAAA
22221682 CTCGAAATAAAAAAATATTGCCTTGA
131 CTCGAAATAAAAAAATATTGCCTTGA
22221708 T
1 T
22221709 TTTAAAGTTT
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 153 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (156 bp):
TGCACCTAGTGAGTTAAGGCGCAAATTTTTAGAATCAGAGATAAGGAAACATTGCCTCGATTAAG
GGTATTCGATTATCTCGATTCGAAGAAAAATTACACCTAGTAAGTTAAGGTACAAAATTTTGAAA
CTCGAAATAAAAAAATATTGCCTTGA
Found at i:22222048 original size:29 final size:29
Alignment explanation
Indices: 22222015--22222418 Score: 298
Period size: 29 Copynumber: 13.7 Consensus size: 29
22222005 TAAACATTCA
22222015 GGGGT-AAAATGGTAATTTTTGAAAGTTTT
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTT
* * * **
22222044 GGGGTCAAAAATGGAGTTTTTAGATA-TTCG
1 GGGGT-AAAAATGTAATTTTT-GAAAGTTTT
*
22222074 GGGGT-AAAATGGTAATTTTTAAAAGTTTT
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTT
* * *
22222103 GGTGTCAAAAATGGAATTTTTGGAAGTTTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* * * *
22222133 TGGGTCACAAATGGAATTTTTGAAAG-TTC
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* * *
22222162 GAGGGTAAAAATGTAATTTTAGGAAGTTTC
1 G-GGGTAAAAATGTAATTTTTGAAAGTTTT
* ** * * *
22222192 AGGGTCAAAAATAAAAATTTTAAAAGTTTA
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
*
22222222 GGGGTAAAAATGTAATTTTTGGAAG-TTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
* *
22222250 GAGGTCAAAAATGTAATTTTTGGAAG-TTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* * *
22222279 GAGGGCAAAAATGTAATTTTAGGAAGTTTT
1 G-GGGTAAAAATGTAATTTTTGAAAGTTTT
* * *
22222309 GGGGTTAAAATGGAATTTTTGAAAGTTTA
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
* * * **
22222338 AGGGTAAAAATGTAGTTTTTGGAAGTTCA
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
**
22222367 CAGGTAAAAAATGTAATTTTTGAAAGTTTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* *
22222397 AGTGTTAAAAATGTAATTTTTG
1 -GGGGTAAAAATGTAATTTTTG
22222419 GATAATTTAG
Statistics
Matches: 295, Mismatches: 65, Indels: 29
0.76 0.17 0.07
Matches are distributed among these distances:
28 13 0.04
29 146 0.49
30 121 0.41
31 15 0.05
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTT
Found at i:22222065 original size:59 final size:59
Alignment explanation
Indices: 22222002--22222123 Score: 190
Period size: 59 Copynumber: 2.1 Consensus size: 59
22221992 AAAAATGACA
* *
22222002 TTTTAAACATTCAGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAGT
1 TTTTAAACATTCAGGGGTAAAATGGTAATTTTTAAAAGTTTTGGGGTCAAAAATGGAAT
* * * *
22222061 TTTTAGATATTCGGGGGTAAAATGGTAATTTTTAAAAGTTTTGGTGTCAAAAATGGAAT
1 TTTTAAACATTCAGGGGTAAAATGGTAATTTTTAAAAGTTTTGGGGTCAAAAATGGAAT
22222120 TTTT
1 TTTT
22222124 GGAAGTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (59 bp):
TTTTAAACATTCAGGGGTAAAATGGTAATTTTTAAAAGTTTTGGGGTCAAAAATGGAAT
Found at i:22222123 original size:89 final size:89
Alignment explanation
Indices: 22222020--22222418 Score: 357
Period size: 89 Copynumber: 4.5 Consensus size: 89
22222010 ATTCAGGGGT
* * *
22222020 AAAATGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAGTTTTTAGATA-TTCGGGGGT-AAAA
1 AAAATGG-AATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTT-GAAAGTTCGAGGGTAAAAA
*
22222083 TGGTAATTTTTA-AAAGTTT-TGGTGTCA
64 T-GTAA-TTTTAGAAAGTTTCAGG-GTCA
* * *
22222110 AAAATGGAATTTTTGGAAGTTTTTGGGTCACAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATG
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATG
*
22222175 TAATTTTAGGAAGTTTCAGGGTCA
66 TAATTTTAGAAAGTTTCAGGGTCA
** * * * * * *
22222199 AAAATAAAAATTTTAAAAGTTTAGGGGT-AAAAATGTAATTTTTGGAAGTTTGA-GGTCAAAAAT
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTGAAAGTTCGAGGGT-AAAAAT
* * *
22222262 GTAATTTTTGGAAGTTTGAGGG-CA
65 GTAATTTTAGAAAGTTTCAGGGTCA
* * * * **
22222286 AAAATGTAATTTTAGGAAGTTTTGGGGT-TAAAATGGAATTTTTGAAAGTTTAAGGGTAAAAATG
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATG
* * * * *
22222350 TAGTTTTTGGAAG-TTCACAGGTAA
66 TAATTTTAGAAAGTTTCA-GGGTCA
* * * * *
22222374 AAAATGTAATTTTTGAAAGTTTTAGTGTTAAAAATGTAATTTTTG
1 AAAATGGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTG
22222419 GATAATTTAG
Statistics
Matches: 258, Mismatches: 42, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
86 3 0.01
87 68 0.26
88 83 0.32
89 90 0.35
90 14 0.05
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (89 bp):
AAAATGGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATG
TAATTTTAGAAAGTTTCAGGGTCA
Found at i:22222172 original size:59 final size:59
Alignment explanation
Indices: 22222020--22222420 Score: 343
Period size: 59 Copynumber: 6.8 Consensus size: 59
22222010 ATTCAGGGGT
* * * ***
22222020 AAAATGGTAATTTTTGAAAGTTTTG-GGGTCAAAAATGGAGTTTTTAGATA-TTCGGGGGT--
1 AAAATGG-AATTTTTGAAAG-TTTGAGGGT-AAAAATGTAATTTTTGGA-AGTTTTTGGGTCA
* * *
22222079 AAAATGGTAATTTTTAAAAGTTTTG-GTGTCAAAAATGGAATTTTTGGAAGTTTTTGGGTCA
1 AAAATGG-AATTTTTGAAAG-TTTGAGGGT-AAAAATGTAATTTTTGGAAGTTTTTGGGTCA
* * * **
22222140 CAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATGTAATTTTAGGAAGTTTCAGGGTCA
1 AAAATGGAATTTTTGAAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTTGGGTCA
** * *
22222199 AAAATAAAAATTTTAAAAGTTT-AGGGGTAAAAATGTAATTTTTGGAAG--TTTGAGGTCA
1 AAAATGGAATTTTTGAAAGTTTGA-GGGTAAAAATGTAATTTTTGGAAGTTTTTG-GGTCA
* * * * * *
22222257 AAAATGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTAGGAAGTTTTGGGGT-T
1 AAAATGGAATTTTTGAAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTTGGGTCA
* * **** *
22222315 AAAATGGAATTTTTGAAAGTTTAAGGGTAAAAATGTAGTTTTTGGAAGTTCACAGGTAA
1 AAAATGGAATTTTTGAAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTTGGGTCA
* * *
22222374 AAAATGTAATTTTTGAAAGTTTTAGTGTTAAAAATGTAATTTTTGGA
1 AAAATGGAATTTTTGAAAGTTTGAG-GGTAAAAATGTAATTTTTGGA
22222421 TAATTTAGGG
Statistics
Matches: 283, Mismatches: 48, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
57 2 0.01
58 93 0.33
59 146 0.52
60 36 0.13
61 6 0.02
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (59 bp):
AAAATGGAATTTTTGAAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTTGGGTCA
Found at i:22224312 original size:6 final size:6
Alignment explanation
Indices: 22224301--22224362 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
22224291 TTTGGACATT
*
22224301 AATTTA ATTTTA AATTTA AATTTA AATTTA TAA--TA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTTA
* *
22224347 TATGTA AATTTA AATT
1 AATTTA AATTTA AATT
22224363 CTGTTGGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 2 0.04
5 5 0.11
6 37 0.80
7 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:22224354 original size:17 final size:18
Alignment explanation
Indices: 22224317--22224362 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
22224307 ATTTTAAATT
22224317 TAAATTTAAA-TTTATAA
1 TAAATTTAAATTTTATAA
*
22224334 TAAATTTAAATTTTAT-G
1 TAAATTTAAATTTTATAA
22224351 TAAATTTAAATT
1 TAAATTTAAATT
22224363 CTGTTGGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TAAATTTAAATTTTATAA
Found at i:22224360 original size:23 final size:20
Alignment explanation
Indices: 22224301--22224362 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 20
22224291 TTTGGACATT
22224301 AATTT-AATTT-TAAATTTA
1 AATTTAAATTTATAAATTTA
22224319 AATTTAAATTTAT-AA--TA
1 AATTTAAATTTATAAATTTA
22224336 AATTTAAATTTTATGTAAATTTA
1 AATTTAAA-TTTA--TAAATTTA
22224359 AATT
1 AATT
22224363 CTGTTGGGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 10 0.28
18 9 0.25
19 7 0.19
20 2 0.06
21 2 0.06
23 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AATTTAAATTTATAAATTTA
Found at i:22225776 original size:22 final size:22
Alignment explanation
Indices: 22225746--22225790 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
22225736 GAACATCGAG
*
22225746 GGTAGAATGGTAATTTTTGGAA
1 GGTAAAATGGTAATTTTTGGAA
*
22225768 GGTAAAATGGTGATTTTTGGAA
1 GGTAAAATGGTAATTTTTGGAA
22225790 G
1 G
22225791 TTCGGGGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (22 bp):
GGTAAAATGGTAATTTTTGGAA
Found at i:22225813 original size:29 final size:28
Alignment explanation
Indices: 22225768--22226077 Score: 185
Period size: 30 Copynumber: 10.6 Consensus size: 28
22225758 ATTTTTGGAA
*
22225768 GGTAAAATGGTGATTTTTGGAAGTTCGGG
1 GGTAAAAT-GTAATTTTTGGAAGTTCGGG
* * ** *
22225797 GGCAAAAATATAATTTTTAAAAAGTT-TGG
1 GG-TAAAATGTAATTTTT-GGAAGTTCGGG
* * *
22225826 GGTAAAAATGTGA-TTTTGGGAGTAC-GG
1 GGT-AAAATGTAATTTTTGGAAGTTCGGG
* * *
22225853 GGTAAAAATGTGATTTTTGAAAGTACGGG
1 GGT-AAAATGTAATTTTTGGAAGTTCGGG
* * * *
22225882 GAGTGGAAATGTGATTTTTGGAGGTTTGGG
1 G-GT-AAAATGTAATTTTTGGAAGTTCGGG
*
22225912 GGTAAAATGTGATTTTTGAGAAGTTCGGG
1 GGTAAAATGTAATTTTTG-GAAGTTCGGG
* *
22225941 GGTTAAAATGTAATTTTGGAGAAGTTTGGAG
1 GG-TAAAATGTAATTTTTG-GAAGTTCGG-G
* * * *
22225972 GTTAAAATATAATTTTTAGAAAGTTTGGG
1 GGTAAAATGTAATTTTT-GGAAGTTCGGG
** ** *
22226001 GGCCAAATGTAATTTTTGCGAAGTTTAGA
1 GGTAAAATGTAATTTTTG-GAAGTTCGGG
* *
22226030 GGTCAAAATGTAATTTTTGAGAAGTTTGAG
1 GGT-AAAATGTAATTTTTG-GAAGTTCGGG
22226060 GGTCAAAATGTAATTTTT
1 GGT-AAAATGTAATTTTT
22226078 AGATAGTTTA
Statistics
Matches: 224, Mismatches: 44, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
27 18 0.08
28 29 0.13
29 58 0.26
30 116 0.52
31 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (28 bp):
GGTAAAATGTAATTTTTGGAAGTTCGGG
Found at i:22225968 original size:59 final size:60
Alignment explanation
Indices: 22225787--22226076 Score: 222
Period size: 59 Copynumber: 5.0 Consensus size: 60
22225777 GTGATTTTTG
* * * * * * * *
22225787 GAAGTTCGGGGGCAAAAATATAATTTTTAAAAAGTT-TGGGGTAAAAATGTGATTTTGG-
1 GAAGTTTGGGGGTAAAAATGTAATTTTTGAGAAGTTCGGGGGTCAAAATGTAATTTTGGA
** * * ** *
22225845 G-AG-TACGGGGTAAAAATGTGATTTTTGA-AAGTACGGGGAGTGGAAATGTGATTTTTGGA
1 GAAGTTTGGGGGTAAAAATGTAATTTTTGAGAAGTTCGGGG-GTCAAAATGT-AATTTTGGA
* *
22225904 G--GTTTGGGGGT-AAAATGTGATTTTTGAGAAGTTCGGGGGTTAAAATGTAATTTTGGA
1 GAAGTTTGGGGGTAAAAATGTAATTTTTGAGAAGTTCGGGGGTCAAAATGTAATTTTGGA
* * * * * * *
22225961 GAAGTTTGGAGGTTAAAATATAATTTTT-AGAAAGTTTGGGGG-CCAAATGTAATTTTTGC
1 GAAGTTTGGGGGTAAAAATGTAATTTTTGAG-AAGTTCGGGGGTCAAAATGTAATTTTGGA
* * * * *
22226020 GAAGTTTAGAGGTCAAAATGTAATTTTTGAGAAGTTTGAGGGTCAAAATGTAATTTT
1 GAAGTTTGGGGGTAAAAATGTAATTTTTGAGAAGTTCGGGGGTCAAAATGTAATTTT
22226077 TAGATAGTTT
Statistics
Matches: 189, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
55 4 0.02
56 22 0.12
57 19 0.10
58 32 0.17
59 75 0.40
60 37 0.20
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (60 bp):
GAAGTTTGGGGGTAAAAATGTAATTTTTGAGAAGTTCGGGGGTCAAAATGTAATTTTGGA
Found at i:22226016 original size:89 final size:89
Alignment explanation
Indices: 22225905--22226086 Score: 240
Period size: 89 Copynumber: 2.0 Consensus size: 89
22225895 ATTTTTGGAG
* * * * *
22225905 GTTTGGGGGTAAAATGTGATTTTTGAGAAGTTCGGGGGTTAAAATGTAATTTTGGAGAAGTTTG-
1 GTTTGGGGGCAAAATGTAATTTTTGAGAAGTTCAGAGGTCAAAATGTAATTTTGGAGAAGTTTGA
*
22225969 GAGGTTAAAATATAATTTTTAGAAA
66 G-GGTCAAAATATAATTTTTAGAAA
* * * *
22225994 GTTTGGGGGCCAAATGTAATTTTTGCGAAGTTTAGAGGTCAAAATGTAATTTTTGAGAAGTTTGA
1 GTTTGGGGGCAAAATGTAATTTTTGAGAAGTTCAGAGGTCAAAATGTAATTTTGGAGAAGTTTGA
* *
22226059 GGGTCAAAATGTAATTTTTAGATA
66 GGGTCAAAATATAATTTTTAGAAA
22226083 GTTT
1 GTTT
22226087 AGGGACCTTC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 79 0.99
90 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.38
Consensus pattern (89 bp):
GTTTGGGGGCAAAATGTAATTTTTGAGAAGTTCAGAGGTCAAAATGTAATTTTGGAGAAGTTTGA
GGGTCAAAATATAATTTTTAGAAA
Found at i:22227857 original size:11 final size:11
Alignment explanation
Indices: 22227849--22227943 Score: 64
Period size: 11 Copynumber: 8.4 Consensus size: 11
22227839 ATTATTAATT
*
22227849 TAAATTTAAGA
1 TAAATTTAAAA
22227860 TAAATTTAAAA
1 TAAATTTAAAA
* *
22227871 TAAATATAAACT
1 TAAATTTAAA-A
*
22227883 TAAACTTAAAA
1 TAAATTTAAAA
**
22227894 TAAATTTAATTT
1 TAAATTTAA-AA
** *
22227906 TAAAAATAAATT
1 TAAATTTAAA-A
*
22227918 TAAACTTAAAA
1 TAAATTTAAAA
*
22227929 TAAATCTAAAA
1 TAAATTTAAAA
22227940 TAAA
1 TAAA
22227944 ATGGATTGAA
Statistics
Matches: 64, Mismatches: 17, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
11 40 0.62
12 24 0.38
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:22227911 original size:18 final size:17
Alignment explanation
Indices: 22227845--22227938 Score: 100
Period size: 17 Copynumber: 5.5 Consensus size: 17
22227835 GGATATTATT
* *
22227845 AATTTAAATTTAAGATA
1 AATTTAAACTTAAAATA
*
22227862 AATTTAAA-ATAAATATA
1 AATTTAAACTTAAA-ATA
*
22227879 AACTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
**
22227896 AATTTAATTTTAAAAATA
1 AATTTAAACTT-AAAATA
22227914 AATTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
*
22227931 AATCTAAA
1 AATTTAAA
22227939 ATAAAATGGA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 3 0.05
17 42 0.66
18 19 0.30
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (17 bp):
AATTTAAACTTAAAATA
Found at i:22227915 original size:23 final size:23
Alignment explanation
Indices: 22227866--22227915 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
22227856 AAGATAAATT
**
22227866 TAAAATAAATATAAACTTAAACT
1 TAAAATAAATATAAACTTAAAAA
* **
22227889 TAAAATAAATTTAATTTTAAAAA
1 TAAAATAAATATAAACTTAAAAA
22227912 TAAA
1 TAAA
22227916 TTTAAACTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATAAATATAAACTTAAAAA
Found at i:22232734 original size:15 final size:16
Alignment explanation
Indices: 22232714--22232743 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22232704 CAAAAATTAT
22232714 AAAAAAAT-TTAAGTC
1 AAAAAAATATTAAGTC
22232729 AAAAAAATATTAAGT
1 AAAAAAATATTAAGT
22232744 ATTAACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (16 bp):
AAAAAAATATTAAGTC
Found at i:22232877 original size:18 final size:16
Alignment explanation
Indices: 22232854--22232901 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
22232844 TTTATAAAAA
*
22232854 TATAAAAATCAATTTTT
1 TATAAAAATCAA-ATTT
22232871 TATTAAAAATCAAATTT
1 TA-TAAAAATCAAATTT
*
22232888 TATAAAAATTAAAT
1 TATAAAAATCAAAT
22232902 GAAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 7 0.25
18 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAAAATCAAATTT
Found at i:22232898 original size:23 final size:22
Alignment explanation
Indices: 22232842--22232900 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
22232832 TTTTTATAAT
22232842 ATTTTATAAAAATATAAAAATCA
1 ATTTTATAAAAAT-TAAAAATCA
*
22232865 ATTTT-T---TATTAAAAATCAA
1 ATTTTATAAAAATTAAAAATC-A
22232884 ATTTTATAAAAATTAAA
1 ATTTTATAAAAATTAAA
22232901 TGAAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 1 0.03
22 1 0.03
23 11 0.38
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTTTATAAAAATTAAAAATCA
Found at i:22242728 original size:18 final size:20
Alignment explanation
Indices: 22242704--22242749 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
22242694 TTTTTATTCT
22242704 CTTCAACAA-AAA-AAAACA
1 CTTCAACAATAAACAAAACA
* *
22242722 TTTCAACAATAAACCAAACA
1 CTTCAACAATAAACAAAACA
22242742 CTTCAACA
1 CTTCAACA
22242750 TATACAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 12 0.52
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (20 bp):
CTTCAACAATAAACAAAACA
Found at i:22243758 original size:13 final size:13
Alignment explanation
Indices: 22243740--22243773 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22243730 GTATAGTTTT
22243740 AATTTTATTTATA
1 AATTTTATTTATA
*
22243753 AATTTTGTTTATA
1 AATTTTATTTATA
*
22243766 ATTTTTAT
1 AATTTTAT
22243774 GATTTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
AATTTTATTTATA
Found at i:22244289 original size:29 final size:29
Alignment explanation
Indices: 22244204--22244292 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 29
22244194 CAATTAAATT
*
22244204 AAAATTAAAATTTCATGTATAAATATAAACC
1 AAAATTAAAA-TTCATGTATAAAT-TACACC
* *
22244235 AAAATTTAAATTTCATGTATATAATTACATC
1 AAAA-TTAAAATTCATGTATA-AATTACACC
*
22244266 -AAATTAAAATTCATGGATCAAATTACA
1 AAAATTAAAATTCATGTAT-AAATTACA
22244293 GAGTGGACCA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 20 0.40
30 4 0.08
31 18 0.36
32 8 0.16
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTAAAATTCATGTATAAATTACACC
Found at i:22244913 original size:14 final size:16
Alignment explanation
Indices: 22244894--22244926 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22244884 TTTGTACACA
22244894 TTTATAT-TC-AATTT
1 TTTATATATCTAATTT
22244908 TTTATATATCTAATTT
1 TTTATATATCTAATTT
22244924 TTT
1 TTT
22244927 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATCTAATTT
Found at i:22246611 original size:36 final size:36
Alignment explanation
Indices: 22246564--22246634 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
22246554 TCCTCCAATG
22246564 TAAGATTCCGTAATTTGAGAATAGATTTTGGACTGT
1 TAAGATTCCGTAATTTGAGAATAGATTTTGGACTGT
* *
22246600 TAAGATTCCGTAGTTTGTGAATAGATTTTGGACTG
1 TAAGATTCCGTAATTTGAGAATAGATTTTGGACTG
22246635 CCTCATTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.39
Consensus pattern (36 bp):
TAAGATTCCGTAATTTGAGAATAGATTTTGGACTGT
Found at i:22251170 original size:20 final size:20
Alignment explanation
Indices: 22251136--22251176 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
22251126 ATATATATAT
*
22251136 ATATTAAAAGTTTATCTAAA
1 ATATTAAAAGTTTATATAAA
22251156 ATATTAAAA-TCTTATATAAA
1 ATATTAAAAGT-TTATATAAA
22251176 A
1 A
22251177 CTGTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
ATATTAAAAGTTTATATAAA
Found at i:22252798 original size:17 final size:17
Alignment explanation
Indices: 22252776--22252809 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22252766 AAAAAAATTC
*
22252776 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
22252793 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
22252810 TCATGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:22255348 original size:6 final size:6
Alignment explanation
Indices: 22255334--22255402 Score: 102
Period size: 6 Copynumber: 11.5 Consensus size: 6
22255324 ACTTTCAGCC
* *
22255334 GCCTGA GCTTGA GCTTGA GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA
1 GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA
* *
22255382 GCCTGA GCCTAA TCCTGA GCC
1 GCCTGA GCCTGA GCCTGA GCC
22255403 ACAATACTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.17, C:0.32, G:0.30, T:0.20
Consensus pattern (6 bp):
GCCTGA
Found at i:22255845 original size:6 final size:6
Alignment explanation
Indices: 22255834--22255860 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22255824 TAGAATTAAA
22255834 TATGTT TATGTT TATGTT TATGTT TAT
1 TATGTT TATGTT TATGTT TATGTT TAT
22255861 ATTCTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
TATGTT
Found at i:22256008 original size:26 final size:26
Alignment explanation
Indices: 22255953--22256009 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
22255943 GCTAAACCTC
**
22255953 ATTAAATAAATTCAAACATAAAAATT
1 ATTAAATAAATTCAAACATAAAAAGA
** *
22255979 ATTAAATAAATTCAAATTTAAACAGA
1 ATTAAATAAATTCAAACATAAAAAGA
22256005 ATTAA
1 ATTAA
22256010 TTCCAAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (26 bp):
ATTAAATAAATTCAAACATAAAAAGA
Found at i:22259041 original size:9 final size:10
Alignment explanation
Indices: 22259009--22259041 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22258999 CCAACTGTCA
22259009 AATTTTAATTT
1 AATTTT-ATTT
22259020 AATTTTATTT
1 AATTTTATTT
22259030 AATTTT-TTT
1 AATTTTATTT
22259039 AAT
1 AAT
22259042 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 10 0.45
11 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
AATTTTATTT
Found at i:22259441 original size:27 final size:27
Alignment explanation
Indices: 22259403--22259455 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
22259393 CAATGTGGGG
*
22259403 TTGGTGCCGCCTGTCAGGTAGACACCT
1 TTGGTGCCGCCTGTCAGATAGACACCT
* *
22259430 TTGGTTCCGCCTGTCAGATAGGCACC
1 TTGGTGCCGCCTGTCAGATAGACACC
22259456 ACCCCAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.26
Consensus pattern (27 bp):
TTGGTGCCGCCTGTCAGATAGACACCT
Found at i:22259667 original size:1 final size:1
Alignment explanation
Indices: 22259663--22259694 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
22259653 TTTTTGTAAA
22259663 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
22259695 AAATTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:22263562 original size:22 final size:21
Alignment explanation
Indices: 22263526--22263566 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22263516 TAAGAAAATT
22263526 TTAAAAATAAAAAATATAGAAA
1 TTAAAAATAAAAAAT-TAGAAA
**
22263548 TTAAAAATATCAAATTAGA
1 TTAAAAATAAAAAATTAGA
22263567 GAATAGATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
TTAAAAATAAAAAATTAGAAA
Found at i:22270236 original size:21 final size:21
Alignment explanation
Indices: 22270210--22270257 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22270200 GCCCTACTTA
*
22270210 AAGAAGAAAAAGATGATGATG
1 AAGAAGAAAAAGAAGATGATG
* *
22270231 AAGAAGAAGAAGAAGGTGATG
1 AAGAAGAAAAAGAAGATGATG
*
22270252 GAGAAG
1 AAGAAG
22270258 CAGAAATGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.10
Consensus pattern (21 bp):
AAGAAGAAAAAGAAGATGATG
Found at i:22270845 original size:11 final size:11
Alignment explanation
Indices: 22270829--22270853 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22270819 TATGTGCCTC
22270829 TTTTTCTTTTT
1 TTTTTCTTTTT
22270840 TTTTTCTTTTT
1 TTTTTCTTTTT
22270851 TTT
1 TTT
22270854 CCTTTCAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:22278284 original size:3 final size:3
Alignment explanation
Indices: 22278276--22278305 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22278266 CTATACCTAA
22278276 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22278306 TGTACACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22283926 original size:20 final size:21
Alignment explanation
Indices: 22283887--22283928 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22283877 TTCACATCAT
**
22283887 ATTATTTAATGTTCATTTTTA
1 ATTATTTAATAATCATTTTTA
22283908 ATTATTTAATAAT-ATTTTTA
1 ATTATTTAATAATCATTTTTA
22283928 A
1 A
22283929 AAAAATCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATTTAATAATCATTTTTA
Found at i:22290519 original size:5 final size:5
Alignment explanation
Indices: 22290509--22290536 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22290499 CCTAACCATG
22290509 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
22290537 CAAAACACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:22295821 original size:6 final size:6
Alignment explanation
Indices: 22295810--22295836 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22295800 TTTGGGTTAC
22295810 GTGGAG GTGGAG GTGGAG GTGGAG GTG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTG
22295837 AATCTGAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.67, T:0.19
Consensus pattern (6 bp):
GTGGAG
Found at i:22302755 original size:3 final size:3
Alignment explanation
Indices: 22302749--22302796 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
22302739 ACAACAAAAC
22302749 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22302797 GCAATGAGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22312687 original size:16 final size:16
Alignment explanation
Indices: 22312618--22312692 Score: 78
Period size: 16 Copynumber: 4.5 Consensus size: 16
22312608 CGTTTGGTTC
*
22312618 GCTGTAATAGAATAGA
1 GCTGTAATGGAATAGA
*
22312634 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
** *
22312650 ATTGTAATGGAATAATATA
1 GCTGTAATGG---AATAGA
22312669 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
22312685 GCTGTAAT
1 GCTGTAAT
22312693 CAGTAATTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 35 0.73
19 13 0.27
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:22312765 original size:44 final size:46
Alignment explanation
Indices: 22312674--22312767 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 46
22312664 ATATAGCTGT
* *
22312674 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGATTGG
1 AATGGAATAGAGCTGTAATCAGAAATTCAATTGTTTGGTTGAATGG
*
22312720 AATGGAATAGAGCTGTAAT-A-AAATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGAAATTCAAT-TGTTTGGTTGAATGG
22312764 AATG
1 AATG
22312768 ATGCTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 1 0.02
46 19 0.43
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGAAATTCAATTGTTTGGTTGAATGG
Found at i:22322540 original size:21 final size:20
Alignment explanation
Indices: 22322514--22322557 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
22322504 TCAAATTAGT
22322514 TTAATTTTTTTGAATTTTAAA
1 TTAATTTTTTTGAA-TTTAAA
22322535 TTAA--TTTTTGAATTTAAA
1 TTAATTTTTTTGAATTTAAA
22322553 -TAATT
1 TTAATT
22322558 CAAATAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
17 3 0.14
18 6 0.29
19 8 0.38
21 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTAATTTTTTTGAATTTAAA
Found at i:22322550 original size:18 final size:18
Alignment explanation
Indices: 22322520--22322557 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
22322510 TAGTTTAATT
22322520 TTTTTGAATTTTAAATTAA
1 TTTTTGAATTTTAAA-TAA
22322539 TTTTTGAA-TTTAAATAA
1 TTTTTGAATTTTAAATAA
22322556 TT
1 TT
22322558 CAAATAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TTTTTGAATTTTAAATAA
Found at i:22323395 original size:10 final size:10
Alignment explanation
Indices: 22323373--22323420 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
22323363 CATTATTTAG
*
22323373 AAAAAACTT-
1 AAAAAAATTA
*
22323382 AAAAATATT-
1 AAAAAAATTA
*
22323391 AAAAATATTA
1 AAAAAAATTA
22323401 AAAAAAATTA
1 AAAAAAATTA
22323411 AAAAAAATTA
1 AAAAAAATTA
22323421 CAACATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
9 16 0.46
10 19 0.54
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:22323415 original size:9 final size:9
Alignment explanation
Indices: 22323373--22323446 Score: 69
Period size: 9 Copynumber: 8.1 Consensus size: 9
22323363 CATTATTTAG
*
22323373 AAAAAACTT
1 AAAAAAATT
*
22323382 AAAAATATT
1 AAAAAAATT
*
22323391 AAAAATATT
1 AAAAAAATT
22323400 AAAAAAAATT
1 -AAAAAAATT
22323410 AAAAAAAATT
1 -AAAAAAATT
* *
22323420 -ACAACATT
1 AAAAAAATT
*
22323428 ATAAAAATT
1 AAAAAAATT
22323437 AAAAAAATT
1 AAAAAAATT
22323446 A
1 A
22323447 TATAATTTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 6 0.11
9 30 0.56
10 18 0.33
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAAAATT
Found at i:22323486 original size:23 final size:23
Alignment explanation
Indices: 22323435--22323486 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
22323425 ATTATAAAAA
22323435 TTAAAAAAATTATATAATTTTCT
1 TTAAAAAAATTATATAATTTTCT
*
22323458 TCAAAAAAATTATATAATTATT-T
1 TTAAAAAAATTATATAATT-TTCT
22323481 TTAAAA
1 TTAAAA
22323487 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAAAAAAATTATATAATTTTCT
Found at i:22323509 original size:19 final size:19
Alignment explanation
Indices: 22323483--22323534 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
22323473 AATTATTTTT
* *
22323483 AAAATTTTAAAAATGTATT
1 AAAATTTTAAAAATCTATC
* *
22323502 AGAATTTTAAAAAACTATC
1 AAAATTTTAAAAATCTATC
22323521 AAAATTTTAAAAAT
1 AAAATTTTAAAAAT
22323535 TCTTAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAATTTTAAAAATCTATC
Found at i:22323546 original size:11 final size:9
Alignment explanation
Indices: 22323477--22323582 Score: 56
Period size: 9 Copynumber: 11.3 Consensus size: 9
22323467 TTATATAATT
*
22323477 ATTTTTAAA
1 ATTTTAAAA
22323486 ATTTTAAAA
1 ATTTTAAAA
*
22323495 ATGTATT-AGA
1 AT-T-TTAAAA
22323505 ATTTTAAAAA
1 ATTTT-AAAA
* * *
22323515 ACTATCAAA
1 ATTTTAAAA
22323524 ATTTTAAAA
1 ATTTTAAAA
22323533 ATTCTTAGAAA
1 ATT-TTA-AAA
22323544 A-TTTAAAA
1 ATTTTAAAA
*
22323552 TATTGTAAAA
1 -ATTTTAAAA
* *
22323562 ATTAT-AGA
1 ATTTTAAAA
22323570 ATTATTAAAA
1 ATT-TTAAAA
22323580 ATT
1 ATT
22323583 GTGTTTTAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 10 0.14
9 32 0.44
10 25 0.34
11 6 0.08
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.41
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:22338811 original size:23 final size:23
Alignment explanation
Indices: 22338767--22338811 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
22338757 AACGTCCATT
* * *
22338767 TCATTTTCATTTCCATTTTCATA
1 TCATTCTCATTTCAATTCTCATA
*
22338790 TCATTCTCATTTTAATTCTCAT
1 TCATTCTCATTTCAATTCTCAT
22338812 TTCAAATTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (23 bp):
TCATTCTCATTTCAATTCTCATA
Found at i:22340027 original size:15 final size:15
Alignment explanation
Indices: 22340007--22340040 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
22339997 TTATTGTTCG
22340007 AGAATAACTATGTCC
1 AGAATAACTATGTCC
*
22340022 AGAATAACTATGTTC
1 AGAATAACTATGTCC
22340037 AGAA
1 AGAA
22340041 CAGGATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (15 bp):
AGAATAACTATGTCC
Found at i:22340176 original size:16 final size:16
Alignment explanation
Indices: 22340152--22340183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22340142 GACGTTTTAG
22340152 GAATAGTTGTTTAGAA
1 GAATAGTTGTTTAGAA
*
22340168 GAATCGTTGTTTAGAA
1 GAATAGTTGTTTAGAA
22340184 CAACTTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (16 bp):
GAATAGTTGTTTAGAA
Found at i:22340917 original size:11 final size:11
Alignment explanation
Indices: 22340901--22340927 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22340891 TGATACCAAA
22340901 AAAATAATTTT
1 AAAATAATTTT
22340912 AAAATAATTTT
1 AAAATAATTTT
22340923 AAAAT
1 AAAAT
22340928 TTAAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:22341282 original size:24 final size:24
Alignment explanation
Indices: 22341227--22341282 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
22341217 TTTATGTGTA
*
22341227 TTTTATATTTGAGATTTGCTTAATC
1 TTTT-TATTTGAGATTTGCTAAATC
* *
22341252 TTATTATTTGATATTTG-TAAATAC
1 TTTTTATTTGAGATTTGCTAAAT-C
22341276 TTTTTAT
1 TTTTTAT
22341283 ATACATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 19 0.73
25 3 0.12
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTTTATTTGAGATTTGCTAAATC
Found at i:22344281 original size:2 final size:2
Alignment explanation
Indices: 22344269--22344302 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22344259 TATTAAGTTT
22344269 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22344303 TTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:22344907 original size:21 final size:21
Alignment explanation
Indices: 22344879--22344923 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
22344869 ACTTTACCCT
22344879 TAATT-TTTTTAT-GATTTT-
1 TAATTATTTTTATAGATTTTC
22344897 TAATTATTTTTATAGATTTTC
1 TAATTATTTTTATAGATTTTC
22344918 TAATTA
1 TAATTA
22344924 GTTTAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 6 0.25
21 6 0.25
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (21 bp):
TAATTATTTTTATAGATTTTC
Found at i:22363528 original size:22 final size:22
Alignment explanation
Indices: 22363486--22363526 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22363476 AAAATTATAA
22363486 TTTTAAAAGTTTTATAATTTCT
1 TTTTAAAAGTTTTATAATTTCT
* *
22363508 TTTTATAATTTTTA-AATTT
1 TTTTAAAAGTTTTATAATTT
22363527 TCAAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAAAAGTTTTATAATTTCT
Found at i:22364943 original size:31 final size:31
Alignment explanation
Indices: 22364905--22365005 Score: 99
Period size: 31 Copynumber: 3.4 Consensus size: 31
22364895 TTAATATAAC
22364905 ATTTGGTACTTGAACTTGACACTTTTTTTTA
1 ATTTGGTACTTGAACTTGACACTTTTTTTTA
*
22364936 ATTTGGTA--T---C-T-AAACTTTTTTTGACTCA
1 ATTTGGTACTTGAACTTGACACTTTTTTT---T-A
*
22364964 ATTTGATACTTGAACTTGACACTTTTTTTTA
1 ATTTGGTACTTGAACTTGACACTTTTTTTTA
22364995 ATTTGGTACTT
1 ATTTGGTACTT
22365006 AAACCTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
24 10 0.18
25 1 0.02
26 1 0.02
27 1 0.02
28 8 0.15
29 1 0.02
30 1 0.02
31 19 0.35
32 1 0.02
33 1 0.02
34 1 0.02
35 10 0.18
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (31 bp):
ATTTGGTACTTGAACTTGACACTTTTTTTTA
Found at i:22364997 original size:59 final size:59
Alignment explanation
Indices: 22364905--22365095 Score: 244
Period size: 59 Copynumber: 3.2 Consensus size: 59
22364895 TTAATATAAC
22364905 ATTTGGTACTTGAACTTGACACTTTTTTTTAATTTGGTATCTAAACTTTTTTTGACTCA
1 ATTTGGTACTTGAACTTGACACTTTTTTTTAATTTGGTATCTAAACTTTTTTTGACTCA
* * *
22364964 ATTTGATACTTGAACTTGACACTTTTTTTTAATTTGGTA-CTTAAACCTTTTTTGGACCCA
1 ATTTGGTACTTGAACTTGACACTTTTTTTTAATTTGGTATC-TAAA-CTTTTTTTGACTCA
* * * *
22365024 ATTTGGTA-TATAAACTTGACA-TTTTTTCCTAATTTGGTATCTAAGCTTTGTTTTAGATTCA
1 ATTTGGTACT-TGAACTTGACACTTTTTT-TTAATTTGGTATCTAAACTTT-TTTT-GACTCA
22365085 ATTTGGTACTT
1 ATTTGGTACTT
22365096 AAATTTATTA
Statistics
Matches: 114, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
58 1 0.01
59 53 0.46
60 45 0.39
61 14 0.12
62 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.49
Consensus pattern (59 bp):
ATTTGGTACTTGAACTTGACACTTTTTTTTAATTTGGTATCTAAACTTTTTTTGACTCA
Found at i:22365280 original size:31 final size:31
Alignment explanation
Indices: 22365245--22365320 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
22365235 AAAAAAGATT
*
22365245 AGGTATCAAATTAGGAAAAAGAGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAGAGTCAAGTTC
* *
22365276 AGGTACCAAATTAGGGAAAAGTGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAGAGTCAAGTTC
*
22365307 AAGTACCAAATTAG
1 AGGTACCAAATTAG
22365321 ATCAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (31 bp):
AGGTACCAAATTAGGAAAAAGAGTCAAGTTC
Found at i:22367238 original size:2 final size:2
Alignment explanation
Indices: 22367231--22367261 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22367221 CCAGTTATTC
22367231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22367262 CAAGCATTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22367752 original size:550 final size:550
Alignment explanation
Indices: 22366712--22367811 Score: 2164
Period size: 550 Copynumber: 2.0 Consensus size: 550
22366702 GAGAACAAAA
22366712 CAAGCATTCCAAGCAGACGAGGGTCTCTTTGGCTAAAGAAAGAATCAGGGGATAGGAGAAATGTA
1 CAAGCATTCCAAGCAGACGAGGGTCTCTTTGGCTAAAGAAAGAATCAGGGGATAGGAGAAATGTA
22366777 AAAGGTTGTGAACGAAGTGTTTGAAGCCGATTCTTTCAAGAAAATTCCAAAAGGCAACGATATTC
66 AAAGGTTGTGAACGAAGTGTTTGAAGCCGATTCTTTCAAGAAAATTCCAAAAGGCAACGATATTC
22366842 ATGGAGGGGAGAGGGTCGAAACGGAGGGTTAAAACCAGTCTAGAATAAGCCATGCGATCGATGTT
131 ATGGAGGGGAGAGGGTCGAAACGGAGGGTTAAAACCAGTCTAGAATAAGCCATGCGATCGATGTT
22366907 GTGAAATTGTTGAAGTTGTTTAAGGGTAAGCTCTTCTGCAGGAAATGCCATGGCGTCCAACTGGA
196 GTGAAATTGTTGAAGTTGTTTAAGGGTAAGCTCTTCTGCAGGAAATGCCATGGCGTCCAACTGGA
*
22366972 TTAAACAAACAGAGATTATTAACTGGGAGGCAAAAAGCAAAAACAAAACCAAAACCAAAGGAACA
261 TTAAACAAACAGAGATTATTAACTGGGAGGCAAAAAGCAAAAACAAAACCAAAACCAAAAGAACA
22367037 GAGTGAGACTTGAAGAGATTGAACTACATTTAAAGAAAAAAATCAAGAAAATCTTTTGACCGTTG
326 GAGTGAGACTTGAAGAGATTGAACTACATTTAAAGAAAAAAATCAAGAAAATCTTTTGACCGTTG
22367102 TTGATAAAATAAAAATAAAAATAATAAATAATCAAGAAGGTTGTGGATTGCTGGGCTTCTTCTAT
391 TTGATAAAATAAAAATAAAAATAATAAATAATCAAGAAGGTTGTGGATTGCTGGGCTTCTTCTAT
*
22367167 TTCGGGCTTGGGCCCTTCCGTTTGTTGTGTGTTTTTACTATCATCAATAATAGCCCAGTTATTCT
456 TTCGGGCTTGGGCCCATCCGTTTGTTGTGTGTTTTTACTATCATCAATAATAGCCCAGTTATTCT
*
22367232 ATATATATATATATATATATATATATATAT
521 AAATATATATATATATATATATATATATAT
22367262 CAAGCATTCCAAGCAGACGAGGGTCTCTTTGGCTAAAGAAAGAATCAGGGGATAGGAGAAATGTA
1 CAAGCATTCCAAGCAGACGAGGGTCTCTTTGGCTAAAGAAAGAATCAGGGGATAGGAGAAATGTA
22367327 AAAGGTTGTGAACGAAGTGTTTGAAGCCGATTCTTTCAAGAAAATTCCAAAAGGCAACGATATTC
66 AAAGGTTGTGAACGAAGTGTTTGAAGCCGATTCTTTCAAGAAAATTCCAAAAGGCAACGATATTC
22367392 ATGGAGGGGAGAGGGTCGAAACGGAGGGTTAAAACCAGTCTAGAATAAGCCATGCGATCGATGTT
131 ATGGAGGGGAGAGGGTCGAAACGGAGGGTTAAAACCAGTCTAGAATAAGCCATGCGATCGATGTT
22367457 GTGAAATTGTTGAAGTTGTTTAAGGGTAAGCTCTTCTGCAGGAAATGCCATGGCGTCCAACTGGA
196 GTGAAATTGTTGAAGTTGTTTAAGGGTAAGCTCTTCTGCAGGAAATGCCATGGCGTCCAACTGGA
22367522 TTAAACAAACAGAGATTATTAACTGGGAGGCAAAAAGCAAAAACAAAACCAAAACCAAAAGAACA
261 TTAAACAAACAGAGATTATTAACTGGGAGGCAAAAAGCAAAAACAAAACCAAAACCAAAAGAACA
*
22367587 GAGTGAGACTTGAAGAGATTGAACTACATTTAAAGAAAGAAATCAAGAAAATCTTTTGACCGTTG
326 GAGTGAGACTTGAAGAGATTGAACTACATTTAAAGAAAAAAATCAAGAAAATCTTTTGACCGTTG
22367652 TTGATAAAATAAAAATAAAAATAATAAATAATCAAGAAGGTTGTGGATTGCTGGGCTTCTTCTAT
391 TTGATAAAATAAAAATAAAAATAATAAATAATCAAGAAGGTTGTGGATTGCTGGGCTTCTTCTAT
22367717 TTCGGGCTTGGGCCCATCCGTTTGTTGTGTGTTTTTACTATCATCAATAATAGCCCAGTTATTCT
456 TTCGGGCTTGGGCCCATCCGTTTGTTGTGTGTTTTTACTATCATCAATAATAGCCCAGTTATTCT
22367782 AAATATATATATATATATATATATATATAT
521 AAATATATATATATATATATATATATATAT
22367812 ATATATATAT
Statistics
Matches: 546, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
550 546 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (550 bp):
CAAGCATTCCAAGCAGACGAGGGTCTCTTTGGCTAAAGAAAGAATCAGGGGATAGGAGAAATGTA
AAAGGTTGTGAACGAAGTGTTTGAAGCCGATTCTTTCAAGAAAATTCCAAAAGGCAACGATATTC
ATGGAGGGGAGAGGGTCGAAACGGAGGGTTAAAACCAGTCTAGAATAAGCCATGCGATCGATGTT
GTGAAATTGTTGAAGTTGTTTAAGGGTAAGCTCTTCTGCAGGAAATGCCATGGCGTCCAACTGGA
TTAAACAAACAGAGATTATTAACTGGGAGGCAAAAAGCAAAAACAAAACCAAAACCAAAAGAACA
GAGTGAGACTTGAAGAGATTGAACTACATTTAAAGAAAAAAATCAAGAAAATCTTTTGACCGTTG
TTGATAAAATAAAAATAAAAATAATAAATAATCAAGAAGGTTGTGGATTGCTGGGCTTCTTCTAT
TTCGGGCTTGGGCCCATCCGTTTGTTGTGTGTTTTTACTATCATCAATAATAGCCCAGTTATTCT
AAATATATATATATATATATATATATATAT
Found at i:22367791 original size:2 final size:2
Alignment explanation
Indices: 22367784--22367821 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22367774 GTTATTCTAA
22367784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22367822 CGATATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22367921 original size:13 final size:13
Alignment explanation
Indices: 22367903--22367928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22367893 AACAAGATCT
22367903 GAATGCAATGCAC
1 GAATGCAATGCAC
22367916 GAATGCAATGCAC
1 GAATGCAATGCAC
22367929 TTTCAAAGTG
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:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
GAATGCAATGCAC
Found at i:22369907 original size:30 final size:31
Alignment explanation
Indices: 22369872--22370005 Score: 100
Period size: 32 Copynumber: 4.5 Consensus size: 31
22369862 CCAAAAAAGT
* * *
22369872 TTTAAGTACCAACTT-AAAATAAATCTTAAG
1 TTTAAGTACCAAATTAAAAAAAAATCTCAAG
* *
22369902 TTTAAGTGCCAAATTAGAAAAAAAATGTCAAG
1 TTTAAGTACCAAATTA-AAAAAAAATCTCAAG
* * *
22369934 TTTGAGTACCAAATTGGACAAAAAA----AA-
1 TTTAAGTACCAAATT-AAAAAAAAATCTCAAG
* *
22369961 TTTAGGTACCAAATTAAAAAAAAATGTCAAG
1 TTTAAGTACCAAATTAAAAAAAAATCTCAAG
* *
22369992 TTTAGGTATCAAAT
1 TTTAAGTACCAAAT
22370006 ATTATATTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
26 7 0.09
27 13 0.16
28 2 0.02
30 15 0.18
31 13 0.16
32 32 0.39
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (31 bp):
TTTAAGTACCAAATTAAAAAAAAATCTCAAG
Found at i:22387974 original size:22 final size:20
Alignment explanation
Indices: 22387935--22387974 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22387925 AACACTAAAG
*
22387935 AAGTTTGCATAACGTTCATT
1 AAGTTTGCATAACCTTCATT
22387955 AAGTTTGCACCTAACCTTCA
1 AAGTTTGCA--TAACCTTCA
22387975 GCTATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (20 bp):
AAGTTTGCATAACCTTCATT
Found at i:22393378 original size:25 final size:24
Alignment explanation
Indices: 22393342--22393388 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
22393332 AAGTTCACAC
22393342 TTTTTTCTAATTTGATACCTAATT
1 TTTTTTCTAATTTGATACCTAATT
*
22393366 TTTTTTCTCAATTTGGTACCTAA
1 TTTTTTCT-AATTTGATACCTAA
22393389 ACTTGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTTTTCTAATTTGATACCTAATT
Found at i:22402721 original size:10 final size:9
Alignment explanation
Indices: 22402698--22402722 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22402688 TTTTCTCATA
22402698 ATTTTTTAC
1 ATTTTTTAC
22402707 ATTTTTTAC
1 ATTTTTTAC
22402716 ATTTTTT
1 ATTTTTT
22402723 CTATACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTTTTAC
Found at i:22406793 original size:28 final size:28
Alignment explanation
Indices: 22406760--22406822 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
22406750 TTTATAGTAC
*
22406760 GCCACAAGGGCTATTCGTTCTAAAGTTT
1 GCCACAAGGGCCATTCGTTCTAAAGTTT
* * *
22406788 GCCACAAGGGCCATTCTTTTTAGAGTTT
1 GCCACAAGGGCCATTCGTTCTAAAGTTT
22406816 GCCACAA
1 GCCACAA
22406823 AGACTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (28 bp):
GCCACAAGGGCCATTCGTTCTAAAGTTT
Found at i:22408526 original size:46 final size:46
Alignment explanation
Indices: 22408454--22408557 Score: 181
Period size: 46 Copynumber: 2.3 Consensus size: 46
22408444 GACATTTTTG
*
22408454 TTGGGCCTTGAGGTAGTGTGAACCCATCACAATCATGGGTCTGAAT
1 TTGGGCCTTGAGGTAGTGTGAACCCATCACAACCATGGGTCTGAAT
* *
22408500 TTGGCCCTTGAGGTAGTGTGAACCCATCACAACCATGGGTTTGAAT
1 TTGGGCCTTGAGGTAGTGTGAACCCATCACAACCATGGGTCTGAAT
22408546 TTGGGCCTTGAG
1 TTGGGCCTTGAG
22408558 ACTCACATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TTGGGCCTTGAGGTAGTGTGAACCCATCACAACCATGGGTCTGAAT
Found at i:22411379 original size:25 final size:25
Alignment explanation
Indices: 22411328--22411384 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
22411318 TTATTAAGAT
22411328 TAAAA-TCGTCAAAATTTTATCGAGG
1 TAAAATTC-TCAAAATTTTATCGAGG
* *
22411353 TACAATTCTCAAAATTTTA-CTGGGG
1 TAAAATTCTCAAAATTTTATC-GAGG
22411378 TAAAATT
1 TAAAATT
22411385 AGGATGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 24 0.89
26 2 0.07
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (25 bp):
TAAAATTCTCAAAATTTTATCGAGG
Found at i:22420793 original size:22 final size:22
Alignment explanation
Indices: 22420765--22420810 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22420755 CACACCCCTC
22420765 CACTATGTCTAGGGTAAGTACG
1 CACTATGTCTAGGGTAAGTACG
22420787 CACTATGTCTAGGGTAAGTACG
1 CACTATGTCTAGGGTAAGTACG
22420809 CA
1 CA
22420811 TGCGAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (22 bp):
CACTATGTCTAGGGTAAGTACG
Found at i:22421924 original size:41 final size:41
Alignment explanation
Indices: 22421879--22422206 Score: 304
Period size: 41 Copynumber: 8.0 Consensus size: 41
22421869 GCAAAAGGTA
*
22421879 GAGCAATAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCG
1 GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCG
* * * * *
22421920 GAGCAACAGCGGCAC-TTACGATAAAGCGCCACTAAATGTCG
1 GAGCAACAGCGGCGCTTTTCCAT-AAGCGCCGCTAAAGGTCG
* * *
22421961 GAGCAACAGCGGCACTTTCCCATAAGCGCTGCTAAAGGTCG
1 GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCG
* **** *
22422002 GAGCAACAGCGGCGCTTATGGGCAGGCGCCGCTAAAGGTCG
1 GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCG
* * *
22422043 AAGCAACAACGGCGCTTATGTGC--AAGCGCCGCTAAAGGTCG
1 GAGCAACAGCGGCGCTT-T-TCCATAAGCGCCGCTAAAGGTCG
* * *
22422084 GAGCAACAGCGGCGCTTATCGAGAAGCGCCGCTAAAGGTCG
1 GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCG
* * *** *
22422125 GAGCAATAGCGACGCTTATAGGA-AAGCGCCGCTAAAGGTCA
1 GAGCAACAGCGGCGCTT-TTCCATAAGCGCCGCTAAAGGTCG
* * * *
22422166 GAGCAATAGCGACGCTTTCCCATAAGCGTCGCTAAAAGGTC
1 GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCT-AAAGGTC
22422207 TGATTTATTT
Statistics
Matches: 238, Mismatches: 40, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
39 1 0.00
40 7 0.03
41 214 0.90
42 14 0.06
43 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.30, T:0.16
Consensus pattern (41 bp):
GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCG
Found at i:22422031 original size:82 final size:81
Alignment explanation
Indices: 22421879--22422182 Score: 335
Period size: 82 Copynumber: 3.7 Consensus size: 81
22421869 GCAAAAGGTA
* * * *
22421879 GAGCAATAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCGGAGCAACAGCGGCACTTACGATAA
1 GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATGA-GA
* *
22421944 AGCGCCACTAAATGTCG
65 AGCGCCGCTAAAGGTCG
* * * *
22421961 GAGCAACAGCGGCACTTTCCCATAAGCGCTGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGGCA
1 GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATGAG-A
*
22422026 GGCGCCGCTAAAGGTCG
65 AGCGCCGCTAAAGGTCG
* * *
22422043 AAGCAACAACGGCGCTTATGTGC--AAGCGCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATCGA
1 GAGCAACAGCGGCGCTT-T-TCCATAAGCGCCGCTAAAGGTCGGAGCAACAGCGGCGCTTAT-GA
22422106 GAAGCGCCGCTAAAGGTCG
63 GAAGCGCCGCTAAAGGTCG
* * *** * * *
22422125 GAGCAATAGCGACGCTTATAGGA-AAGCGCCGCTAAAGGTCAGAGCAATAGCGACGCTT
1 GAGCAACAGCGGCGCTT-TTCCATAAGCGCCGCTAAAGGTCGGAGCAACAGCGGCGCTT
22422183 TCCCATAAGC
Statistics
Matches: 189, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
81 1 0.01
82 184 0.97
83 3 0.02
84 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.30, T:0.15
Consensus pattern (81 bp):
GAGCAACAGCGGCGCTTTTCCATAAGCGCCGCTAAAGGTCGGAGCAACAGCGGCGCTTATGAGAA
GCGCCGCTAAAGGTCG
Found at i:22422089 original size:22 final size:22
Alignment explanation
Indices: 22422064--22422130 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 22
22422054 GCGCTTATGT
22422064 GCAAGCGCCGCTAAAGGTCGGA
1 GCAAGCGCCGCTAAAGGTCGGA
* *
22422086 GCAACAGCGGCGCT-TA--TC-GA
1 GC-A-AGCGCCGCTAAAGGTCGGA
22422106 G-AAGCGCCGCTAAAGGTCGGA
1 GCAAGCGCCGCTAAAGGTCGGA
22422127 GCAA
1 GCAA
22422131 TAGCGACGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 8 0.24
18 2 0.06
20 5 0.15
21 5 0.15
22 4 0.12
23 2 0.06
24 8 0.24
ACGTcount: A:0.28, C:0.27, G:0.34, T:0.10
Consensus pattern (22 bp):
GCAAGCGCCGCTAAAGGTCGGA
Found at i:22422094 original size:24 final size:23
Alignment explanation
Indices: 22422066--22422140 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 23
22422056 GCTTATGTGC
22422066 AAGCGCCGCTAAAGGTCGGAGCA
1 AAGCGCCGCTAAAGGTCGGAGCA
* *
22422089 ACAGCGGCGCT-TA--TC-GAG--
1 A-AGCGCCGCTAAAGGTCGGAGCA
22422107 AAGCGCCGCTAAAGGTCGGAGCA
1 AAGCGCCGCTAAAGGTCGGAGCA
*
22422130 ATAGCGACGCT
1 A-AGCGCCGCT
22422141 TATAGGAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 15
0.66 0.08 0.25
Matches are distributed among these distances:
17 8 0.21
18 2 0.05
20 5 0.13
21 5 0.13
23 3 0.08
24 16 0.41
ACGTcount: A:0.28, C:0.27, G:0.33, T:0.12
Consensus pattern (23 bp):
AAGCGCCGCTAAAGGTCGGAGCA
Found at i:22422182 original size:123 final size:122
Alignment explanation
Indices: 22421902--22422182 Score: 350
Period size: 123 Copynumber: 2.3 Consensus size: 122
22421892 GCTTTTCCAT
* *
22421902 AAGCGCCGCTAAAGGTCGGAGCAACAGCGGCACTTACGATAAAGCGCCACTAAATGTCGGAGCAA
1 AAGCGCCGCTAAAGGTC-GAGCAACAGCGGCGCTTACGATAAAGCGCCACTAAAGGTCGGAGCAA
* * * * *
22421967 CAGCGGCACTTTCCCATAAGCGCTGCTAAAGGTCGGAGCAACAGCGGCGCTTATGGGC
65 CAGCGGCACTTTCCCAGAAGCGCCGCTAAAGGTCGGAGCAACAGCGACGCTTATAGGA
* * * * *
22422025 AGGCGCCGCTAAAGGTCGAAGCAACAACGGCGCTTATG-TGCAAGCGCCGCTAAAGGTCGGAGCA
1 AAGCGCCGCTAAAGGTCG-AGCAACAGCGGCGCTTACGAT-AAAGCGCCACTAAAGGTCGGAGCA
* * *
22422089 ACAGCGGCGCTTAT-CGAGAAGCGCCGCTAAAGGTCGGAGCAATAGCGACGCTTATAGGA
64 ACAGCGGCACTT-TCCCAGAAGCGCCGCTAAAGGTCGGAGCAACAGCGACGCTTATAGGA
* *
22422148 AAGCGCCGCTAAAGGTCAGAGCAATAGCGACGCTT
1 AAGCGCCGCTAAAGGTC-GAGCAACAGCGGCGCTT
22422183 TCCCATAAGC
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
122 2 0.01
123 131 0.97
124 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.31, T:0.14
Consensus pattern (122 bp):
AAGCGCCGCTAAAGGTCGAGCAACAGCGGCGCTTACGATAAAGCGCCACTAAAGGTCGGAGCAAC
AGCGGCACTTTCCCAGAAGCGCCGCTAAAGGTCGGAGCAACAGCGACGCTTATAGGA
Found at i:22426584 original size:8 final size:8
Alignment explanation
Indices: 22426573--22426656 Score: 60
Period size: 8 Copynumber: 10.1 Consensus size: 8
22426563 TTATTACTAA
22426573 TTAAATAT
1 TTAAATAT
22426581 TTAAATAT
1 TTAAATAT
*
22426589 TTAATTAT
1 TTAAATAT
*
22426597 TTAATTAT
1 TTAAATAT
* *
22426605 TAAAAAAAT
1 T-TAAATAT
*
22426614 TCAAATAT
1 TTAAATAT
* *
22426622 TTAATTAG
1 TTAAATAT
*
22426630 TTAATTAT
1 TTAAATAT
22426638 TTAATTATAT
1 TTAA--ATAT
*
22426648 TTAATTAT
1 TTAAATAT
22426656 T
1 T
22426657 AAAAATAACC
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
8 49 0.80
9 5 0.08
10 7 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (8 bp):
TTAAATAT
Found at i:22426698 original size:48 final size:47
Alignment explanation
Indices: 22426644--22426762 Score: 121
Period size: 48 Copynumber: 2.7 Consensus size: 47
22426634 TTATTTAATT
22426644 ATATTTAATTATTAAAAATAACCCAAATATTTAGTTATATATAATTAA
1 ATATTTAATTATTAAAAATAACCCAAATATTTA-TTATATATAATTAA
* * * **
22426692 ATATTTAATAATTTAAAACAATTCAAATATTTA--A-ATA-AA-T-A
1 ATATTTAATTATTAAAAATAACCCAAATATTTATTATATATAATTAA
22426733 A-A--TAATTATTAAAAATAACCCAAATATTTA
1 ATATTTAATTATTAAAAATAACCCAAATATTTA
22426763 ATTAAAAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
38 23 0.38
40 1 0.02
41 2 0.03
42 1 0.02
43 2 0.03
44 3 0.05
45 1 0.02
48 28 0.46
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.39
Consensus pattern (47 bp):
ATATTTAATTATTAAAAATAACCCAAATATTTATTATATATAATTAA
Found at i:22426731 original size:38 final size:38
Alignment explanation
Indices: 22426680--22426768 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
22426670 ATATTTAGTT
* ** * **
22426680 ATATATAATTAAATATTTAATAATTTAAAACAATTCAA
1 ATATTTAATTAAATAAATAATAATTAAAAACAACCCAA
* * *
22426718 ATATTTAAATAAATAAATAATTATTAAAAATAACCCAA
1 ATATTTAATTAAATAAATAATAATTAAAAACAACCCAA
22426756 ATATTTAATTAAA
1 ATATTTAATTAAA
22426769 AATATTTTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (38 bp):
ATATTTAATTAAATAAATAATAATTAAAAACAACCCAA
Found at i:22426734 original size:26 final size:25
Alignment explanation
Indices: 22426686--22426734 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
22426676 AGTTATATAT
*
22426686 AATTAAATATTTAATAATTTAAAAC
1 AATTAAATATTTAATAATATAAAAC
22426711 AATTCAAATATTTAAATAA-ATAAA
1 AATT-AAATATTT-AATAATATAAA
22426735 TAATTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 12 0.57
27 5 0.24
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
AATTAAATATTTAATAATATAAAAC
Found at i:22432561 original size:66 final size:66
Alignment explanation
Indices: 22432455--22432611 Score: 233
Period size: 66 Copynumber: 2.4 Consensus size: 66
22432445 CAAATTGCTC
* ** *
22432455 AACTTAAAGAGGAGGTTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAAAACTCCACCTA
22432520 A
66 A
* *
22432521 AACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAAAACTCCACCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAAAACTCCACCTA
*
22432586 C
66 A
* *
22432587 AACTTAAAGTGGAGGCAGCAGCGAG
1 AACTTAAAGAGGAGGCTGCAGCGAG
22432612 GCAAGCGGAG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 81 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAAAACTCCACCTA
A
Found at i:22432623 original size:21 final size:21
Alignment explanation
Indices: 22432597--22432638 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22432587 AACTTAAAGT
*
22432597 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAACGAGGCAAGC
22432618 GGAGGCAGCAACGAGGCAAGC
1 GGAGGCAGCAACGAGGCAAGC
22432639 AAAGGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.45, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAACGAGGCAAGC
Found at i:22432648 original size:21 final size:21
Alignment explanation
Indices: 22432603--22432649 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22432593 AAGTGGAGGC
* ** *
22432603 AGCAGCGAGGCAAGCGGAGGC
1 AGCAACGAGGCAAGCAAAGGA
22432624 AGCAACGAGGCAAGCAAAGGA
1 AGCAACGAGGCAAGCAAAGGA
22432645 AGCAA
1 AGCAA
22432650 AGTCTACAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.38, T:0.00
Consensus pattern (21 bp):
AGCAACGAGGCAAGCAAAGGA
Found at i:22432863 original size:15 final size:15
Alignment explanation
Indices: 22432843--22432871 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22432833 ATCTGAAGTT
22432843 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
22432858 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
22432872 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:22433014 original size:43 final size:43
Alignment explanation
Indices: 22432940--22433030 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
22432930 ATCTGTTATA
* * *
22432940 TTAGCGGCGCTTGTGGAGAAAGCGCCTCTAAAGAACATGGCTT
1 TTAGCGGCGCTTGTGGAGAAAGAGCCGCTAAAGAACATGGCCT
*
22432983 TTAGCGGCGCTTGTTGTA-AAAGAGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTG-TGGAGAAAGAGCCGCTAAAGAACATGGCCT
22433026 TTAGC
1 TTAGC
22433031 TGCATTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 40 0.93
44 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (43 bp):
TTAGCGGCGCTTGTGGAGAAAGAGCCGCTAAAGAACATGGCCT
Found at i:22439285 original size:51 final size:51
Alignment explanation
Indices: 22439220--22439339 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 51
22439210 ATCATTTTCA
* * * *
22439220 TTTTCCATTT-TCCATTTTTATTTTGGAGAAATCCACATTCATTTCCAAATG
1 TTTT-CATTTCTCCATTTTCATTTTGGAAAAACCCACAATCATTTCCAAATG
**
22439271 TTTTCATTTCTCCATTTTCATTTTGGAAAAACCCTTAATCATTTCCAAATG
1 TTTTCATTTCTCCATTTTCATTTTGGAAAAACCCACAATCATTTCCAAATG
*
22439322 TTTCTTATTTCTCCATTT
1 TTT-TCATTTCTCCATTT
22439340 CACAATTTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 5 0.08
51 42 0.70
52 13 0.22
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (51 bp):
TTTTCATTTCTCCATTTTCATTTTGGAAAAACCCACAATCATTTCCAAATG
Found at i:22440970 original size:14 final size:14
Alignment explanation
Indices: 22440951--22440977 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22440941 TTTTTTCGTT
22440951 ATATATATACATAC
1 ATATATATACATAC
22440965 ATATATATACATA
1 ATATATATACATA
22440978 TCCATTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATATATACATAC
Found at i:22441351 original size:8 final size:8
Alignment explanation
Indices: 22441318--22441350 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
22441308 TGGAGAGGGG
22441318 AATGAGAA
1 AATGAGAA
22441326 AATGAGAA
1 AATGAGAA
22441334 AATGAGAA
1 AATGAGAA
22441342 AATGA-AA
1 AATGAGAA
22441349 AA
1 AA
22441351 AATAGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (8 bp):
AATGAGAA
Found at i:22441685 original size:30 final size:30
Alignment explanation
Indices: 22441651--22442035 Score: 267
Period size: 30 Copynumber: 12.9 Consensus size: 30
22441641 AGAGGTCCTT
** *
22441651 AAACTTTTTAAAAATTTGATTTTAACCCTC
1 AAACTTTTCCAAAATTTCATTTTAACCCTC
*
22441681 AAACTTTTCCAAAATTACATTTTAACCCTCC
1 AAACTTTTCCAAAATTTCATTTTAACCCT-C
* * **
22441712 AAACATTTCTAAAATTAT-ATTTTAAGGCT-
1 AAACTTTTCCAAAATT-TCATTTTAACCCTC
22441741 AAACTTTTCCAAAATTTCATTTTAACCC-C
1 AAACTTTTCCAAAATTTCATTTTAACCCTC
* * *
22441770 TAAACTTTTCCAAAGTTACATTTTAACCCTT
1 -AAACTTTTCCAAAATTTCATTTTAACCCTC
** *
22441801 AAAAATTTCCAAAATTTCTTTTTAACCC-C
1 AAACTTTTCCAAAATTTCATTTTAACCCTC
* *
22441830 TAAACTTTCCCAAAATCAT-ATTTTAACCC-C
1 -AAACTTTTCCAAAAT-TTCATTTTAACCCTC
** * * *
22441860 TAAACTTTTCTTAGATTACATTTTGACCCTC
1 -AAACTTTTCCAAAATTTCATTTTAACCCTC
* ***
22441891 AAA-TATTCCTAAAACCACATTTTAA-CCTC
1 AAACTTTTCC-AAAATTTCATTTTAACCCTC
* * *
22441920 AAAC-TTCCCAAAATTACATTTTGACCC-C
1 AAACTTTTCCAAAATTTCATTTTAACCCTC
* *
22441948 TAAACTTTTCCAAAATTACATTTTTACCAC-C
1 -AAACTTTTCCAAAATTTCATTTTAACC-CTC
* * *
22441979 AAACTTTTCTAAAATTACATTTTAA-CCTT
1 AAACTTTTCCAAAATTTCATTTTAACCCTC
*
22442008 AAA-TTATT-CAAAACTTCATTTTCAACCC
1 AAACTT-TTCCAAAATTTCATTTT-AACCC
22442036 CATTTTTGCC
Statistics
Matches: 281, Mismatches: 54, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
28 28 0.10
29 50 0.18
30 175 0.62
31 28 0.10
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (30 bp):
AAACTTTTCCAAAATTTCATTTTAACCCTC
Found at i:22441754 original size:60 final size:59
Alignment explanation
Indices: 22441669--22442005 Score: 315
Period size: 60 Copynumber: 5.6 Consensus size: 59
22441659 TAAAAATTTG
* * *
22441669 ATTTTAACCCTCAAACTTTTCCAAAATTACATTTTAACCCTCCAAACATTTCTAAAATTAT
1 ATTTTAACCCT-AAACTTTTCCAAAATTACATTTTAACCC-CTAAACATTTCCAAAATTAC
** * * *
22441730 ATTTTAAGGCTAAACTTTTCCAAAATTTCATTTTAACCCCTAAACTTTTCCAAAGTTAC
1 ATTTTAACCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACATTTCCAAAATTAC
** * * * *
22441789 ATTTTAACCCTTAAAAATTTCCAAAATTTCTTTTTAACCCCTAAAC-TTTCCCAAAATCAT
1 ATTTTAACCC-TAAACTTTTCCAAAATTACATTTTAACCCCTAAACATTT-CCAAAATTAC
** * * * **
22441849 ATTTTAACCCCTAAACTTTTCTTAGATTACATTTTGA-CCCTCAA-ATATTCCTAAAACCAC
1 ATTTTAA-CCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACAT-TTCC-AAAATTAC
* * *
22441909 ATTTTAA-CCTCAAAC-TTCCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATTAC
1 ATTTTAACCCT-AAACTTTTCCAAAATTACATTTTAACCCCTAAACATTTCCAAAATTAC
* * *
22441967 ATTTTTACCACCAAACTTTTCTAAAATTACATTTTAACC
1 ATTTTAACC-CTAAACTTTTCCAAAATTACATTTTAACC
22442006 TTAAATTATT
Statistics
Matches: 224, Mismatches: 40, Indels: 25
0.78 0.14 0.09
Matches are distributed among these distances:
58 31 0.14
59 54 0.24
60 127 0.57
61 12 0.05
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (59 bp):
ATTTTAACCCTAAACTTTTCCAAAATTACATTTTAACCCCTAAACATTTCCAAAATTAC
Found at i:22441833 original size:90 final size:90
Alignment explanation
Indices: 22441661--22442005 Score: 346
Period size: 90 Copynumber: 3.9 Consensus size: 90
22441651 AAACTTTTTA
* * *
22441661 AAAATTTGATTTTAA-CCCTCAAACTTTTCCAAAATTACATTTTAACCCTCCAAACATTTCTAAA
1 AAAATTTCATTTTAACCCCT-AAACTTTTCCAAAATTACATTTTAACCCT-CAAAAATTTCCAAA
** *
22441725 ATTAT-ATTTTAA-GGCTAAACTTTTCC
64 ATT-TCATTTTAACCCCTAAACTTTCCC
* *
22441751 AAAATTTCATTTTAACCCCTAAACTTTTCCAAAGTTACATTTTAACCCTTAAAAATTTCCAAAAT
1 AAAATTTCATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAAAATTTCCAAAAT
*
22441816 TTCTTTTTAACCCCTAAACTTTCCC
66 TTCATTTTAACCCCTAAACTTTCCC
* ** * * *
22441841 AAAATCAT-ATTTTAACCCCTAAACTTTTCTTAGATTACATTTTGACCCTCAAATA-TTCCTAAA
1 AAAAT-TTCATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAAAATTTCC-AAA
*** *
22441904 ACCACATTTTAACCTC-AAAC-TTCCC
64 ATTTCATTTTAACCCCTAAACTTTCCC
* * * ** *
22441929 AAAATTACATTTTGACCCCTAAACTTTTCCAAAATTACATTTTTACCAC-CAAACTTTTCTAAAA
1 AAAATTTCATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACC-CTCAAAAATTTCCAAAA
*
22441993 TTACATTTTAACC
65 TTTCATTTTAACC
22442006 TTAAATTATT
Statistics
Matches: 213, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
88 64 0.30
89 32 0.15
90 112 0.53
91 5 0.02
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (90 bp):
AAAATTTCATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAAAATTTCCAAAAT
TTCATTTTAACCCCTAAACTTTCCC
Found at i:22441932 original size:28 final size:30
Alignment explanation
Indices: 22441877--22441943 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
22441867 TTCTTAGATT
* *
22441877 ACATTTTGACCCTCAAATATTCCTAAAACC
1 ACATTTTGAACCTCAAATATTCCCAAAACC
* **
22441907 ACATTTT-AACCTCAAA-CTTCCCAAAATT
1 ACATTTTGAACCTCAAATATTCCCAAAACC
22441935 ACATTTTGA
1 ACATTTTGA
22441944 CCCCTAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 15 0.48
29 9 0.29
30 7 0.23
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (30 bp):
ACATTTTGAACCTCAAATATTCCCAAAACC
Found at i:22445882 original size:22 final size:23
Alignment explanation
Indices: 22445855--22445897 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22445845 TTCTCTAGGG
**
22445855 TTTGGTTGTTTGTTGT-GTTTCT
1 TTTGGTTAATTGTTGTAGTTTCT
22445877 TTTGGTTAATTGTTGTAGTTT
1 TTTGGTTAATTGTTGTAGTTT
22445898 GGACTTGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.07, C:0.02, G:0.26, T:0.65
Consensus pattern (23 bp):
TTTGGTTAATTGTTGTAGTTTCT
Found at i:22449754 original size:36 final size:35
Alignment explanation
Indices: 22449697--22449875 Score: 241
Period size: 36 Copynumber: 5.0 Consensus size: 35
22449687 TACTTCGATG
22449697 GATTGCTTACGTCTCGATTAGAGCGTAATGCTATGT
1 GATTGCTTACGTCTCG-TTAGAGCGTAATGCTATGT
* *
22449733 GATTGTTTACATCTCAGTTAGAGCGTAATGCTATGT
1 GATTGCTTACGTCTC-GTTAGAGCGTAATGCTATGT
* * *
22449769 GATTGTTTACGTCTTGGTTAGAGCGTAATGATATGT
1 GATTGCTTACGTC-TCGTTAGAGCGTAATGCTATGT
* *
22449805 GATTGCTTACGTCTCGATTAGAGTGTAATACTATGT
1 GATTGCTTACGTCTCG-TTAGAGCGTAATGCTATGT
*
22449841 GATTGCTTACGTCTCGGTTAGAGCGTAATACTATG
1 GATTGCTTACGTCTC-GTTAGAGCGTAATGCTATG
22449876 AATAACTCGG
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
35 2 0.02
36 123 0.96
37 3 0.02
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (35 bp):
GATTGCTTACGTCTCGTTAGAGCGTAATGCTATGT
Found at i:22452664 original size:31 final size:31
Alignment explanation
Indices: 22452629--22452698 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
22452619 CATTAGCAAC
**
22452629 TCAATGATTTAAATAAAAACTTTCGAATAGT
1 TCAATGACATAAATAAAAACTTTCGAATAGT
* * *
22452660 TCAATTACATAAATGAAAACTTTTGAATAGT
1 TCAATGACATAAATAAAAACTTTCGAATAGT
*
22452691 TTAATGAC
1 TCAATGAC
22452699 CATTTTGTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
TCAATGACATAAATAAAAACTTTCGAATAGT
Found at i:22457636 original size:49 final size:49
Alignment explanation
Indices: 22457583--22457897 Score: 236
Period size: 49 Copynumber: 6.4 Consensus size: 49
22457573 TGGCAGCCTC
* *
22457583 AACCTTTCCCTTTATGTTTCTGAGGTATAAGGTTCGTCATTGCGACTTA
1 AACCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTA
* * * **
22457632 AACCTTTCCCTCCATATCTTC-GTGGTACT--GGATTCACCGTTGCGACTTA
1 AACCTTTCCCTTCATGT-TTCTGAGGTA-TAAGG-TTCGTCGTTGCGACTTA
* * *
22457681 AATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGTCGTTGTGACTTA
1 AACCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTA
* * * * *
22457730 AACCTTTCCC-TCTATATCTTC-GTGGTACT--GGATTTGCCATTGCGACTTA
1 AACCTTTCCCTTC-ATGT-TTCTGAGGTA-TAAGG-TTCGTCGTTGCGACTTA
* * * *
22457779 AATCTTTCCCTTCATGTTTCTAAGGTACAAGGTTCGTCGTTGCAACTTA
1 AACCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTA
* * * * * *
22457828 AACCTTTCCCTCCATATCTTC-GTGGTACT--GGATTCGCCGTTACGGCTTA
1 AACCTTTCCCTTCATGT-TTCTGAGGTA-TAAGG-TTCGTCGTTGCGACTTA
*
22457877 AATCTTTCCCTTCATGTTTCT
1 AACCTTTCCCTTCATGTTTCT
22457898 AAACATATCC
Statistics
Matches: 203, Mismatches: 45, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
48 17 0.08
49 170 0.84
50 16 0.08
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (49 bp):
AACCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTA
Found at i:22457689 original size:98 final size:98
Alignment explanation
Indices: 22457586--22457897 Score: 516
Period size: 98 Copynumber: 3.2 Consensus size: 98
22457576 CAGCCTCAAC
* * *
22457586 CTTTCCCTTTATGTTTCTGAGGTATAAGGTTCGTCATTGCGACTTAAACCTTTCCCTCCATATCT
1 CTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTCCATATCT
*
22457651 TCGTGGTACTGGATTCACCGTTGCGACTTAAAT
66 TCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
* *
22457684 CTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGTCGTTGTGACTTAAACCTTTCCCTCTATATCT
1 CTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTCCATATCT
* *
22457749 TCGTGGTACTGGATTTGCCATTGCGACTTAAAT
66 TCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
* *
22457782 CTTTCCCTTCATGTTTCTAAGGTACAAGGTTCGTCGTTGCAACTTAAACCTTTCCCTCCATATCT
1 CTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTCCATATCT
* *
22457847 TCGTGGTACTGGATTCGCCGTTACGGCTTAAAT
66 TCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
22457880 CTTTCCCTTCATGTTTCT
1 CTTTCCCTTCATGTTTCT
22457898 AAACATATCC
Statistics
Matches: 198, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 198 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (98 bp):
CTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTCCATATCT
TCGTGGTACTGGATTCGCCGTTGCGACTTAAAT
Found at i:22459005 original size:51 final size:51
Alignment explanation
Indices: 22458932--22459179 Score: 291
Period size: 51 Copynumber: 4.6 Consensus size: 51
22458922 TTTCATTTAA
* * * *
22458932 TACTCACGATGACA-TATTGTCATCAGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
*
22458983 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
*
22459034 TACTCACGATGACACTTAGTCACCAGACCTTTAATCCGTAAAGGATTCATTTACTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGG----A--T--TCATT
* *
22459093 TACTCACGATAACACTTAGTCACCACCGAACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCA--G-ACCTTTAATCCGTAAAGGATTCATT
*
22459147 AACTCACGATGACACTTAGTCATCAGACTCTTT
1 TACTCACGATGACACTTAGTCATCAGAC-CTTT
22459180 CGTTTATAGC
Statistics
Matches: 173, Mismatches: 11, Indels: 25
0.83 0.05 0.12
Matches are distributed among these distances:
51 88 0.51
52 6 0.03
54 27 0.16
55 1 0.01
56 1 0.01
57 1 0.01
58 1 0.01
59 29 0.17
61 1 0.01
62 18 0.10
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
Found at i:22459152 original size:62 final size:59
Alignment explanation
Indices: 22459029--22459152 Score: 203
Period size: 62 Copynumber: 2.1 Consensus size: 59
22459019 CGTAAAGGAT
* *
22459029 TCATTTACTCACGATGACACTTAGTCACCAGACCTTTAATCCGTAAAGGATTCATTTAC
1 TCATTTACTCACGATAACACTTAGTCACCAGACCTTTAATCCGTAAAGGATTCATTAAC
22459088 TCATTTACTCACGATAACACTTAGTCACCACCGAACCTTTAATCCGTAAAGGATTCATTAAC
1 TCATTTACTCACGATAACACTTAGTCACCA--G-ACCTTTAATCCGTAAAGGATTCATTAAC
22459150 TCA
1 TCA
22459153 CGATGACACT
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
59 29 0.48
61 1 0.02
62 30 0.50
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (59 bp):
TCATTTACTCACGATAACACTTAGTCACCAGACCTTTAATCCGTAAAGGATTCATTAAC
Found at i:22459174 original size:113 final size:111
Alignment explanation
Indices: 22458978--22459179 Score: 325
Period size: 113 Copynumber: 1.8 Consensus size: 111
22458968 CGTCATGGAT
* * * *
22458978 TCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGA
1 TCATTTACTCACGATAACACTTAGTCACCGAACCTTTAATCCGTAAAGGATTCATTAACTCACGA
22459043 TGACACTTAGTCACCAGAC-CTTTAATCCGTAAAGGATTCATTTAC
66 TGACACTTAGTCACCAGACTCTTTAATCCGTAAAGGATTCATTTAC
22459088 TCATTTACTCACGATAACACTTAGTCACCACCGAACCTTTAATCCGTAAAGGATTCATTAACTCA
1 TCATTTACTCACGATAACACTTAGT---CACCGAACCTTTAATCCGTAAAGGATTCATTAACTCA
*
22459153 CGATGACACTTAGTCATCAGACTCTTT
63 CGATGACACTTAGTCACCAGACTCTTT
22459180 CGTTTATAGC
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
110 24 0.29
113 55 0.66
114 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (111 bp):
TCATTTACTCACGATAACACTTAGTCACCGAACCTTTAATCCGTAAAGGATTCATTAACTCACGA
TGACACTTAGTCACCAGACTCTTTAATCCGTAAAGGATTCATTTAC
Found at i:22460247 original size:6 final size:6
Alignment explanation
Indices: 22460236--22460260 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22460226 AAAATCTGTC
22460236 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
22460261 ATTCTAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:22484285 original size:17 final size:17
Alignment explanation
Indices: 22484263--22484299 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22484253 AAGTTGTTTG
22484263 TTTATTTTTCCTATTTA
1 TTTATTTTTCCTATTTA
**
22484280 TTTATTTTTGTTATTTA
1 TTTATTTTTCCTATTTA
22484297 TTT
1 TTT
22484300 TTATCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTTTCCTATTTA
Found at i:22484293 original size:13 final size:13
Alignment explanation
Indices: 22484277--22484301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22484267 TTTTTCCTAT
22484277 TTATTTATTTTTG
1 TTATTTATTTTTG
22484290 TTATTTATTTTT
1 TTATTTATTTTT
22484302 ATCTTATTCA
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:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTATTTATTTTTG
Found at i:22485161 original size:81 final size:81
Alignment explanation
Indices: 22485026--22485187 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
22485016 TTCAGTTCAC
22485026 AGGGAGCATGGTTGAAGACCTGAATCAGCACTTGAAGCAATTTATTCAAGTATGCGACACTTTCA
1 AGGGAGCATGGTTGAAGACCTGAATCAGCACTTGAAGCAATTTATTCAAGTATGCGACACTTTCA
22485091 AGTACAACGGGATATT
66 AGTACAACGGGATATT
22485107 AGGGAGCATGGTTGAAGACCTGAATCAGCACTTGAAGCAATTTATTCAAGTATGCGACACTTTCA
1 AGGGAGCATGGTTGAAGACCTGAATCAGCACTTGAAGCAATTTATTCAAGTATGCGACACTTTCA
22485172 AGTACAACGGGATATT
66 AGTACAACGGGATATT
22485188 CGATGATGCC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (81 bp):
AGGGAGCATGGTTGAAGACCTGAATCAGCACTTGAAGCAATTTATTCAAGTATGCGACACTTTCA
AGTACAACGGGATATT
Done.