Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 73 of 163
Found at i:23899656 original size:221 final size:219
Alignment explanation
Indices: 23899160--23899666 Score: 660
Period size: 221 Copynumber: 2.3 Consensus size: 219
23899150 CCACCAGTAT
* * * * ** * *
23899160 GGAAGACAAGATCTGCTACCTTTGATATATTTCACGCCGATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGAGCTGCTATCTTTGATCTACTTCATACCAATACATGAAGACAAGATCTGCTATCT
*
23899225 TCTATCTACTTCGCCAATACACGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
66 TCTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
* *
23899290 GGGAAGACAAGATCTGCTATCTTCGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTATC
131 GGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATC
* * *
23899355 TTTTATCTACTTCACGCCAATACA
196 TTTGATCTACTTCACGACAACACA
* * *
23899379 TGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCT
1 GGAAGACAAGAGCTGCTATCTTTGATCTACTTCATACCAATACATGAAGACAAGATCTGCTATCT
* * *
23899444 T-TGATCTACTTCATGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
66 TCT-ATCTACTTC--GCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAG
*
23899508 TATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTACT
128 TATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACT
* *
23899573 TTCTTTGATCTACTTCACGACAACCCA
193 ATCTTTGATCTACTTCACGACAACACA
* * * * * * ** *
23899600 GGGAGGCAAG-GCTGGTGTCTTTGATCTGCTTCACTATCGGTAC-TGGAAGGCAAGATCTGCTAT
1 GGAAGACAAGAGCTGCTATCTTTGATCTACTTCA-TACCAATACAT-GAAGACAAGATCTGCTAT
23899663 CTTC
64 CTTC
23899667 AACCTGCTCC
Statistics
Matches: 251, Mismatches: 31, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
218 1 0.00
219 68 0.27
220 20 0.08
221 162 0.65
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (219 bp):
GGAAGACAAGAGCTGCTATCTTTGATCTACTTCATACCAATACATGAAGACAAGATCTGCTATCT
TCTATCTACTTCGCCAATACACGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTAT
GGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATC
TTTGATCTACTTCACGACAACACA
Found at i:23899696 original size:88 final size:88
Alignment explanation
Indices: 23899592--23900491 Score: 1126
Period size: 88 Copynumber: 10.2 Consensus size: 88
23899582 CTACTTCACG
* * * *
23899592 ACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTATCGGTACTGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
23899657 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* *
23899680 ACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACATGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* *
23899745 TGATATCTTCAACCTGCTCTACT
66 TGCTATCTTCAACCTGCTCCACT
* * * * * *
23899768 TCGACCCAAGGAGGCAAGGCTGGTATCTTCGATCTACTTCACTGTTGGTACAGGAAGGTAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
23899833 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* *
23899856 ACAACCCAGAGAGGCAAGGTTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
23899921 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * ** * * *
23899944 ACGACCAAAAGAGGCAAGGCTAGTATCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
23900009 TGTTAT-TCTCAACCTGCTCCACT
66 TGCTATCT-TCAACCTGCTCCACT
* * * *
23900032 ACGACCCAGTGAGGCAAGGCTGGTATCTTCGATCTGCCTCACTGTCGGTACAAGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
23900097 TGCTATCTTCAATCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * *
23900120 ACAACCCAGGGAGGCAAGGCTCGTATCTTCGATTTGCTTCGCTGTCGATGTA-A-GAAGGCAAGA
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCG--GTACAGGAAGGCAAGA
* * *
23900183 TCAGCTATCTTTAACTTGCTCCACT
64 TCTGCTATCTTCAACCTGCTCCACT
* * * * *
23900208 ACAACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
23900273 TGCTATTTTTAGCCTGCTCCGC-
66 TGCTATCTTCAACCTGCTCCACT
* * * * * * *
23900295 ATAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCCCTGTCGATGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
23900360 TACTATTTTCAGCCTGCTCCGCT
66 TGCTATCTTCAACCTGCTCCACT
* * * * * ** *
23900383 ACAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTATCGGTGTAGAAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * *
23900448 TG-TAATTTTTAACCTGCTCCGCT
66 TGCT-ATCTTCAACCTGCTCCACT
*
23900471 GCAACCCAGGGAGGCAAGGCT
1 ACAACCCAGGGAGGCAAGGCT
23900492 TTATGATTTC
Statistics
Matches: 716, Mismatches: 88, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.00
87 79 0.11
88 630 0.88
89 2 0.00
90 3 0.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (88 bp):
ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
TGCTATCTTCAACCTGCTCCACT
Found at i:23900426 original size:43 final size:43
Alignment explanation
Indices: 23900297--23900426 Score: 100
Period size: 44 Copynumber: 3.0 Consensus size: 43
23900287 TGCTCCGCAT
* * * *
23900297 AACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCCCTGTC
1 AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCT-AC
* ** * * * * * * *
23900341 GATGCAGGAAGGCAAGATCTACTAT-TTTCAGCCTGCTCCGCTAC
1 AACCCAGGGAGGCAAG-GCTAGTGTCTTTGA-TCTGCTTCGCTAC
23900385 AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTA
1 AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTA
23900427 TCGGTGTAGA
Statistics
Matches: 59, Mismatches: 24, Indels: 7
0.66 0.27 0.08
Matches are distributed among these distances:
43 15 0.25
44 32 0.54
45 12 0.20
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (43 bp):
AACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTAC
Found at i:23907035 original size:21 final size:21
Alignment explanation
Indices: 23906998--23907052 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
23906988 AATCATATCT
23906998 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
23907017 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
23907038 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
23907053 CCTTTAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:23909622 original size:97 final size:98
Alignment explanation
Indices: 23909504--23909681 Score: 288
Period size: 97 Copynumber: 1.8 Consensus size: 98
23909494 AGTTTGAGAA
* *
23909504 AAGATCAGTCACGTTTACCTTCCTTAGCTGAACTATGGCCGGAGCGTAAAATATATT-AAAAACA
1 AAGATCAGTCACGTTTACCTTCCTTAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
23909568 TTATACACGTGGAAATCATTGTTGGATTGAGGC
66 TTATACACGTGGAAATCATTGTTGGATTGAGGC
* *
23909601 AAGATC-GTTCACGTTTTCCTTCCTTAGCTGAACTATAGCAGGCGCGTAAAATATATTAAAAAAC
1 AAGATCAG-TCACGTTTACCTTCCTTAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAAC
*
23909665 ATTATACATGTGGAAAT
65 ATTATACACGTGGAAAT
23909682 AAAAATAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
96 1 0.01
97 51 0.69
98 22 0.30
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (98 bp):
AAGATCAGTCACGTTTACCTTCCTTAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
TTATACACGTGGAAATCATTGTTGGATTGAGGC
Found at i:23910077 original size:20 final size:20
Alignment explanation
Indices: 23910042--23910087 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
23910032 TTTCTATATA
*
23910042 TTTTTAAATTTATTATTGCAT
1 TTTTTAAATATATTA-TGCAT
*
23910063 TTTTTAAATAT-TTATGTAT
1 TTTTTAAATATATTATGCAT
23910082 TTTTTA
1 TTTTTA
23910088 TATTTCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 10 0.43
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTAAATATATTATGCAT
Found at i:23912294 original size:5 final size:5
Alignment explanation
Indices: 23912284--23912508 Score: 364
Period size: 5 Copynumber: 45.0 Consensus size: 5
23912274 GACTAGGGGG
23912284 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
23912334 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
23912384 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* * * *
23912434 ATGAT ATGAT ATGAT ATGAT -TCGAT ATAAC ATGAT ATGAT ACGAT -TCAAT
1 ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT ATGAT ATGAT AT-GAT
* *
23912484 ATGAT ATGAT ATGTT AAGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT
23912509 TCGTATAAAA
Statistics
Matches: 204, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
4 1 0.00
5 201 0.99
6 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:23912750 original size:20 final size:21
Alignment explanation
Indices: 23912711--23912750 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23912701 TTAAGCATCG
**
23912711 TGGACTTTTATTTGTTTATTA
1 TGGACTTTTATTACTTTATTA
23912732 TGGACTTTT-TTACTTTATT
1 TGGACTTTTATTACTTTATT
23912751 GGGTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.62
Consensus pattern (21 bp):
TGGACTTTTATTACTTTATTA
Found at i:23913243 original size:17 final size:16
Alignment explanation
Indices: 23913214--23913248 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
23913204 ATAAAATATG
23913214 TATAATAAAATTAAAA
1 TATAATAAAATTAAAA
*
23913230 TATATATAATATTAAAA
1 TATA-ATAAAATTAAAA
23913247 TA
1 TA
23913249 AAAATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATAATAAAATTAAAA
Found at i:23913250 original size:22 final size:20
Alignment explanation
Indices: 23913203--23913251 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
23913193 TGATGGAGGT
*
23913203 AATAAAATATGTATAATAAA
1 AATAAAATATATATAATAAA
*
23913223 ATTAAAATATATATAATATTAA
1 AATAAAATATATATAATA--AA
23913245 AATAAAA
1 AATAAAA
23913252 ATTTAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.67
22 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AATAAAATATATATAATAAA
Found at i:23922968 original size:16 final size:16
Alignment explanation
Indices: 23922947--23922979 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23922937 AAGTAAACTA
23922947 TGAAAATT-TTTCTAAG
1 TGAAAATTGTTT-TAAG
23922963 TGAAAATTGTTTTAAG
1 TGAAAATTGTTTTAAG
23922979 T
1 T
23922980 AAAGTTACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (16 bp):
TGAAAATTGTTTTAAG
Found at i:23923741 original size:15 final size:15
Alignment explanation
Indices: 23923721--23923749 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23923711 TAAAGTTAAC
23923721 ATATATATAATATAT
1 ATATATATAATATAT
23923736 ATATATATAATATA
1 ATATATATAATATA
23923750 CAAATGCATA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATATAATATAT
Found at i:23925914 original size:69 final size:70
Alignment explanation
Indices: 23925788--23925985 Score: 245
Period size: 69 Copynumber: 2.8 Consensus size: 70
23925778 AAATCATTGG
* * *** *
23925788 TGTGCCCAACACTAGTCAAACGAATCGACAAATTATTGTGCATGGCGCTAGTTGGATAACCAACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCAACG
*
23925853 ATAGT
66 ATAGC
* * * * *
23925858 TGTGCCCAGCACTAGTCGAAC-AATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCGACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCAACG
23925922 ATAGC
66 ATAGC
** * *
23925927 TGTGCCCAACACTAGTCGGGCGAATCAACAAATTATTGCGCCCAGCGCTAGTCAGATAA
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAA
23925986 TCGATGATAG
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
69 56 0.52
70 51 0.48
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (70 bp):
TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCAACG
ATAGC
Found at i:23925985 original size:70 final size:70
Alignment explanation
Indices: 23925788--23925995 Score: 247
Period size: 70 Copynumber: 3.0 Consensus size: 70
23925778 AAATCATTGG
* * *** * *
23925788 TGTGCCCAACACTAGTCAAACGAATCGACAAATTATTGTGCATGGCGCTAGTTGGATAACCAACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
*
23925853 ATAGT
66 ATAGC
* * * *
23925858 TGTGCCCAGCACTAGTCGAAC-AATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCGACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
23925922 ATAGC
66 ATAGC
** * * * *
23925927 TGTGCCCAACACTAGTCGGGCGAATCAACAAATTATTGCGCCCAGCGCTAGTCAGATAATCGATG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
23925992 ATAG
66 ATAG
23925996 TTACTCAATA
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
69 56 0.49
70 59 0.51
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (70 bp):
TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
ATAGC
Found at i:23926504 original size:13 final size:13
Alignment explanation
Indices: 23926486--23926562 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 13
23926476 ATTAAATCAC
23926486 AATTTAATCCTTG
1 AATTTAATCCTTG
*
23926499 AATTTATCATTCTCAT-
1 AATTTA--A-TC-CTTG
23926515 AATTTAATCCTTG
1 AATTTAATCCTTG
*
23926528 AATTTATCATTCTCAT-
1 AATTTA--A-TC-CTTG
23926544 AATTTAATCCTTG
1 AATTTAATCCTTG
23926557 AATTTA
1 AATTTA
23926563 TCATTCTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
12 4 0.08
13 22 0.44
14 2 0.04
15 2 0.04
16 16 0.32
17 4 0.08
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (13 bp):
AATTTAATCCTTG
Found at i:23926520 original size:16 final size:16
Alignment explanation
Indices: 23926499--23926578 Score: 68
Period size: 16 Copynumber: 5.4 Consensus size: 16
23926489 TTAATCCTTG
23926499 AATTTATCATTCTCAT
1 AATTTATCATTCTCAT
*
23926515 AATTTA--A-TC-CTT
1 AATTTATCATTCTCAT
23926527 GAATTTATCATTCTCAT
1 -AATTTATCATTCTCAT
*
23926544 AATTTA--A-TC-CTT
1 AATTTATCATTCTCAT
23926556 GAATTTATCATTCTCAT
1 -AATTTATCATTCTCAT
23926573 AATTTA
1 AATTTA
23926579 ATCCTTGAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
12 4 0.08
13 16 0.32
14 2 0.04
15 2 0.04
16 22 0.44
17 4 0.08
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.49
Consensus pattern (16 bp):
AATTTATCATTCTCAT
Found at i:23926528 original size:29 final size:29
Alignment explanation
Indices: 23926486--23926587 Score: 204
Period size: 29 Copynumber: 3.5 Consensus size: 29
23926476 ATTAAATCAC
23926486 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
23926515 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
23926544 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
23926573 AATTTAATCCTTGAA
1 AATTTAATCCTTGAA
23926588 CCTTAATAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (29 bp):
AATTTAATCCTTGAATTTATCATTCTCAT
Found at i:23927028 original size:19 final size:19
Alignment explanation
Indices: 23926978--23927031 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
23926968 AAAATAAAAT
23926978 AAAATAAAAATAAATTTGAA
1 AAAAT-AAAATAAATTTGAA
23926998 ATTAAA-AAAATAAATTT-AA
1 A--AAATAAAATAAATTTGAA
23927017 GAAAATAAAATAAAT
1 -AAAATAAAATAAAT
23927032 GGGTAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
18 3 0.10
19 11 0.37
20 13 0.43
22 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATAAAATAAATTTGAA
Found at i:23927901 original size:13 final size:13
Alignment explanation
Indices: 23927883--23927925 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
23927873 TAGATTTTTC
23927883 CTAAATATTATCA
1 CTAAATATTATCA
23927896 CTAAATA--ATC-
1 CTAAATATTATCA
23927906 CTAAATATTATCA
1 CTAAATATTATCA
23927919 CTAAATA
1 CTAAATA
23927926 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:23927908 original size:23 final size:23
Alignment explanation
Indices: 23927881--23927927 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
23927871 GCTAGATTTT
23927881 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
23927904 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
23927927 T
1 T
23927928 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:23927934 original size:23 final size:23
Alignment explanation
Indices: 23927885--23927934 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
23927875 GATTTTTCCT
*
23927885 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
23927908 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
23927931 AAAT
1 AAAT
23927935 TTACAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:23929906 original size:19 final size:19
Alignment explanation
Indices: 23929882--23929918 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23929872 CCTAGTGCCA
23929882 CCTTAGAGGAGTTATGATT
1 CCTTAGAGGAGTTATGATT
*
23929901 CCTTAGAGGCGTTATGAT
1 CCTTAGAGGAGTTATGAT
23929919 CCATATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (19 bp):
CCTTAGAGGAGTTATGATT
Found at i:23930704 original size:6 final size:6
Alignment explanation
Indices: 23930693--23930726 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
23930683 AAATATACTA
23930693 TTATTT TTATTT TTATTT ATATATTT TTATTT TT
1 TTATTT TTATTT TTATTT -T-TATTT TTATTT TT
23930727 TTCCAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:23937798 original size:23 final size:23
Alignment explanation
Indices: 23937768--23937817 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
23937758 GATTTTTCCT
*
23937768 AAATATTATCATTAAATAATCCA
1 AAATATTATCACTAAATAATCCA
*
23937791 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
23937814 AAAT
1 AAAT
23937818 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:23962269 original size:20 final size:21
Alignment explanation
Indices: 23962239--23962296 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
23962229 TAACTTTGTC
* *
23962239 TTTTGTTTTCTTTTC-CTCTT
1 TTTTTTTTTCTTTTCTCCCTT
23962259 TCTTTTTTTCTCTTTTCTCCC-T
1 T-TTTTTTT-TCTTTTCTCCCTT
23962281 TTTTTTTTTCTTTTCT
1 TTTTTTTTTCTTTTCT
23962297 TTTCATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 9 0.27
21 13 0.39
22 9 0.27
23 2 0.06
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTCTTTTCTCCCTT
Found at i:23962272 original size:22 final size:23
Alignment explanation
Indices: 23962237--23962291 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
23962227 TTTAACTTTG
*
23962237 TCTTTTGTTT-TCTTTTC-CTCTT
1 TCTTTT-TTTCTCTTTTCTCCCTT
23962259 TCTTTTTTTCTCTTTTCTCCCTT
1 TCTTTTTTTCTCTTTTCTCCCTT
23962282 T-TTTTTTTCT
1 TCTTTTTTTCT
23962292 TTTCTTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 3 0.10
22 22 0.73
23 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (23 bp):
TCTTTTTTTCTCTTTTCTCCCTT
Found at i:23973042 original size:19 final size:20
Alignment explanation
Indices: 23973011--23973054 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23973001 ATTCATAGTT
23973011 TTTTTGAATATTT-ATATAA
1 TTTTTGAATATTTCATATAA
*
23973030 TTTTT-AATAATTTCTTATAA
1 TTTTTGAAT-ATTTCATATAA
23973050 TTTTT
1 TTTTT
23973055 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 9 0.41
20 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTGAATATTTCATATAA
Found at i:23973419 original size:28 final size:29
Alignment explanation
Indices: 23973367--23973422 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
23973357 GATTGATGTA
*
23973367 ATTTTATAATTTTATTATTATTTTTTATG
1 ATTTTATAATTTTATTATTAATTTTTATG
23973396 ATTTTA-AATTTT-TTATTTAATTTTTAT
1 ATTTTATAATTTTATTA-TTAATTTTTAT
23973423 TAGACTGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 3 0.12
28 16 0.64
29 6 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (29 bp):
ATTTTATAATTTTATTATTAATTTTTATG
Found at i:23975543 original size:51 final size:51
Alignment explanation
Indices: 23975487--23975596 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 51
23975477 ACCCTTAAAG
* *
23975487 TTTACATATTCTGTCAACTTGGTCTTGTTTTAACAAATTCAGTCTT-CAACA
1 TTTACATATTCTATCAACTTGGTCTTGATTTAACAAATTCAG-CTTGCAACA
** * * *
23975538 TTTACATATTCTATCATTTTGGTTTTGATTTAACAAATTTAGCTTGTAACA
1 TTTACATATTCTATCAACTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
23975589 TTTACATA
1 TTTACATA
23975597 GGATATATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 3 0.06
51 48 0.94
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (51 bp):
TTTACATATTCTATCAACTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
Found at i:23977381 original size:15 final size:16
Alignment explanation
Indices: 23977361--23977408 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
23977351 TTAATTTTTG
23977361 TAATTTTTTTAGAAAT
1 TAATTTTTTTAGAAAT
* *
23977377 T-ATTTTTATAGTAAT
1 TAATTTTTTTAGAAAT
*
23977392 TAATATTTTTTATAAAT
1 TAAT-TTTTTTAGAAAT
23977409 ATAAATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 13 0.52
16 3 0.12
17 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TAATTTTTTTAGAAAT
Found at i:23980765 original size:6 final size:6
Alignment explanation
Indices: 23980756--23980797 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
23980746 GAACTTGATT
* *
23980756 TATAAA TATATA TATATA TATATA TATATA TATATA TTTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA
23980798 AATCAAGTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:23980770 original size:4 final size:4
Alignment explanation
Indices: 23980756--23980797 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
23980746 GAACTTGATT
* *
23980756 TATA AATA TATA TATA TATA TATA TATA TATA TATA TTTA TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TA
23980798 AATCAAGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:23984004 original size:29 final size:30
Alignment explanation
Indices: 23983972--23984033 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
23983962 GTTTCACATG
* * *
23983972 TATAATT-ATATTAATTTAAAATTTATATA
1 TATAATTAACATTAAATCAAAATTTATATA
23984001 TATAATTACACATTAAATCAAAATTTATATA
1 TATAATTA-ACATTAAATCAAAATTTATATA
23984032 TA
1 TA
23984034 ATTTTAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.25
31 21 0.75
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
TATAATTAACATTAAATCAAAATTTATATA
Found at i:23990599 original size:3 final size:3
Alignment explanation
Indices: 23990591--23990625 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23990581 AGGCGAAATT
23990591 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
23990626 CATCTTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:23990744 original size:13 final size:13
Alignment explanation
Indices: 23990726--23990769 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
23990716 TAAATTTAAT
23990726 AAATTTAATTATA
1 AAATTTAATTATA
23990739 AAATTT-A--AT-
1 AAATTTAATTATA
23990748 AAATTTAATTATA
1 AAATTTAATTATA
23990761 AAATTTAAT
1 AAATTTAAT
23990770 ATTATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 3 0.11
12 3 0.11
13 15 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTTAATTATA
Found at i:23990745 original size:22 final size:22
Alignment explanation
Indices: 23990713--23990770 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
23990703 ATTTTATATT
23990713 TTAT-AAATTTAATAAATTTAA
1 TTATAAAATTTAATAAATTTAA
23990734 TTATAAAATTTAATAAATTTAA
1 TTATAAAATTTAATAAATTTAA
23990756 TTATAAAATTTAATA
1 TTATAAAATTTAATA
23990771 TTATTTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.11
22 32 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTATAAAATTTAATAAATTTAA
Found at i:23995169 original size:11 final size:11
Alignment explanation
Indices: 23995153--23995179 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23995143 TCAAATGGTC
23995153 ATTTGCCAACA
1 ATTTGCCAACA
23995164 ATTTGCCAACA
1 ATTTGCCAACA
23995175 ATTTG
1 ATTTG
23995180 ATTTGCCAAA
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:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (11 bp):
ATTTGCCAACA
Found at i:23996268 original size:16 final size:17
Alignment explanation
Indices: 23996247--23996290 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
23996237 AGGTATTTGA
23996247 TATTTGGGTTAATT-TT
1 TATTTGGGTTAATTATT
*
23996263 TATTTGGGTTAGTTATT
1 TATTTGGGTTAATTATT
*
23996280 TAGTTGGGTTA
1 TATTTGGGTTA
23996291 TTGAAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (17 bp):
TATTTGGGTTAATTATT
Found at i:23996286 original size:17 final size:16
Alignment explanation
Indices: 23996250--23996290 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
23996240 TATTTGATAT
*
23996250 TTGGGTTAATTTTTAT
1 TTGGGTTAATTTTTAG
*
23996266 TTGGGTTAGTTATTTAG
1 TTGGGTTAATT-TTTAG
23996283 TTGGGTTA
1 TTGGGTTA
23996291 TTGAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (16 bp):
TTGGGTTAATTTTTAG
Found at i:23996784 original size:21 final size:21
Alignment explanation
Indices: 23996743--23996784 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
23996733 AGAGCCAAAG
* *
23996743 TAAACTTTAAAAATTGGAATT
1 TAAACTTTAAAAATAGAAATT
23996764 TAAA-TTTAAAAATAAGAAATT
1 TAAACTTTAAAAAT-AGAAATT
23996785 AGGGGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAACTTTAAAAATAGAAATT
Found at i:24003067 original size:20 final size:20
Alignment explanation
Indices: 24003016--24003061 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24003006 AATACAGAGA
*
24003016 AAAATGAGGATAACAGAAAAAG
1 AAAATGA-GA-AAAAGAAAAAG
*
24003038 GAAATGAGAAAAAGAAAAAG
1 AAAATGAGAAAAAGAAAAAG
24003058 AAAA
1 AAAA
24003062 ATAGAATAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.07
Consensus pattern (20 bp):
AAAATGAGAAAAAGAAAAAG
Found at i:24003925 original size:3 final size:3
Alignment explanation
Indices: 24003917--24003963 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
24003907 AATTAGTTAC
* * *
24003917 ATT ATT ATT ATC ATT GTT ATT ATT AGT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24003964 ATATCGATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:24004041 original size:23 final size:21
Alignment explanation
Indices: 24004015--24004067 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
24004005 TATTATAGAC
*
24004015 TATTATTTTAAGTTGTTTTATA
1 TATTATTTTAAGTT-TATTATA
24004037 TTATTA-TTTAAGTTTATTATA
1 -TATTATTTTAAGTTTATTATA
24004058 TATTATTTTA
1 TATTATTTTA
24004068 TTAAACCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.18
21 10 0.36
22 8 0.29
23 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
TATTATTTTAAGTTTATTATA
Found at i:24010865 original size:30 final size:29
Alignment explanation
Indices: 24010828--24010945 Score: 101
Period size: 30 Copynumber: 3.8 Consensus size: 29
24010818 TCAAATATTG
*
24010828 AGTCTTCTCAAGCTCCTGAACGAGATATC
1 AGTCTTCTCAAGCTCCTGAATGAGATATC
*
24010857 ATGTCTTCTCAATCCCAATATCCTGAATGAGATATC
1 A-GTCTTCTCAA--GC----TCCTGAATGAGATATC
* *
24010893 GAGTTTTCCCAAGCTCCTGAATGAGATATC
1 -AGTCTTCTCAAGCTCCTGAATGAGATATC
* *
24010923 AAGTTTTCTCAAGTTCCTGAATG
1 -AGTCTTCTCAAGCTCCTGAATG
24010946 TCCTCATAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
29 1 0.01
30 46 0.63
32 1 0.01
34 1 0.01
36 23 0.32
37 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (29 bp):
AGTCTTCTCAAGCTCCTGAATGAGATATC
Found at i:24012446 original size:2 final size:2
Alignment explanation
Indices: 24012439--24012483 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
24012429 TAAAATAAAA
24012439 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24012481 AG A
1 AG A
24012484 AAGCTCTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24012523 original size:2 final size:2
Alignment explanation
Indices: 24012516--24012540 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24012506 AGAAAAATGA
24012516 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
24012541 AAAGAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24019164 original size:11 final size:11
Alignment explanation
Indices: 24019145--24019184 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
24019135 ATTAATAGGT
24019145 ATTATAATAAA
1 ATTATAATAAA
*
24019156 ATTACAATAAA
1 ATTATAATAAA
24019167 ATTATAATAAA
1 ATTATAATAAA
*
24019178 ATAATAA
1 ATTATAA
24019185 AAACAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
ATTATAATAAA
Found at i:24027916 original size:43 final size:44
Alignment explanation
Indices: 24027830--24028095 Score: 180
Period size: 43 Copynumber: 6.0 Consensus size: 44
24027820 CGAAGAAAAT
* *
24027830 ATATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
1 ATATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAGC
* *
24027874 ATATCTTGTCTTCATGTA-TGGCATGAAGTAGATCAGATATAGC
1 ATATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAGC
* *** *** * **
24027917 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAA-AAAAA
1 ATATCTTGTCTTCATGTACTGG-CATGAAGTAGATCAAAGATAGC
* *
24027961 ATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AAC
1 AT--ATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAGC
* * *** ** * * **
24028006 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGAT-AGAAGAAAAT
1 ATATCTTGTCTTCATGTACTGG-CATGAAGTAGATCA-AAGATAGC
* * * *
24028051 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAATATAGC
1 ATATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAGC
24028095 A
1 A
24028096 GGTCATGTCT
Statistics
Matches: 172, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
43 53 0.31
44 52 0.30
45 49 0.28
46 18 0.10
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
ATATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAGC
Found at i:24028009 original size:89 final size:90
Alignment explanation
Indices: 24027876--24028189 Score: 343
Period size: 89 Copynumber: 3.5 Consensus size: 90
24027866 AAGATAGCAT
* * * *
24027876 ATCTTGTCTTCATGTA-TGGCATGAAGTAGATCAGATATAGCAGATCTTGTCTTCCCATACTGGT
1 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGT
*
24027940 GGCGAAGTAGATCAAAAAAAAATAG
66 GGCGAAGTAGATCAAAAGAAAATAG
*
24027965 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AACAGATCTTGTCTCCCCATACTGGT
1 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGT
* * *
24028029 GGTGGAGTAGAT-AGAAGAAAATAG
66 GGCGAAGTAGATCAAAAGAAAATAG
* * * * * *
24028053 ATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAATATAGCAGGTCATGTCTTCCTATA-TCGG
1 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT-GG
* * * *
24028117 TAGCGAAGTGGATC-AAAGATAACAG
65 TGGCGAAGTAGATCAAAAGAAAATAG
** * * *
24028142 ATCTTGTCTTCCCGTACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATC
1 ATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-CAGATC
24028190 GAAGATGGCG
Statistics
Matches: 187, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
88 47 0.25
89 103 0.55
90 37 0.20
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (90 bp):
ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGT
GGCGAAGTAGATCAAAAGAAAATAG
Found at i:24028168 original size:45 final size:45
Alignment explanation
Indices: 24027801--24028189 Score: 276
Period size: 45 Copynumber: 8.8 Consensus size: 45
24027791 TATCTCCCCA
* * * * * * *
24027801 TACTGGTGGTGGAA-TAGATCGAAGAAAATATATCTTATCTTCATG
1 TACTGGTCGT-GAAGTAGATCAAAGATAACAGATCTTGTCTTCCTG
* * *
24027846 TACTGG-CGTGAAGTAGATCAAAGATAGCATATCTTGTCTTCATG
1 TACTGGTCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTG
* * * * **
24027890 TA-TGG-CATGAAGTAGATCAGATATAGCAGATCTTGTCTTCCCA
1 TACTGGTCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTG
* * * * * *
24027933 TACTGGTGGCGAAGTAGATCAAAAAAAAATAGATCTTGTCTTCATG
1 TACTGGTCGTGAAGTAGATC-AAAGATAACAGATCTTGTCTTCCTG
* **
24027979 TACTGG-CGTGAAGTAGATCAAAGA-AACAGATCTTGTCTCCCCA
1 TACTGGTCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTG
* * * * * *
24028022 TACTGGTGGTGGAGTAGAT-AGAAGAAAATAGATCTTATCTTCATG
1 TACTGGTCGTGAAGTAGATCA-AAGATAACAGATCTTGTCTTCCTG
* * * * *
24028067 TACTGG-CGTGAAGTAGATCAAATATAGCAGGTCATGTCTTCCTA
1 TACTGGTCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTG
* * * *
24028111 TA-TCGGTAGCGAAGTGGATCAAAGATAACAGATCTTGTCTTCCCG
1 TACT-GGTCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTG
* * *
24028156 TACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATC
1 TACTGGTCGTGAAGTAGATCAAAGATAA-CAGATC
24028190 GAAGATGGCG
Statistics
Matches: 269, Mismatches: 63, Indels: 24
0.76 0.18 0.07
Matches are distributed among these distances:
43 61 0.23
44 82 0.30
45 102 0.38
46 24 0.09
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (45 bp):
TACTGGTCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTG
Found at i:24029714 original size:3 final size:3
Alignment explanation
Indices: 24029686--24029738 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
24029676 TGCTATACCC
*
24029686 TTA TT- TTA TT- TTA TT- GTA TATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
24029729 TTA TTA TTA T
1 TTA TTA TTA T
24029739 ACTTATACAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 5 0.11
3 36 0.82
4 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24030030 original size:15 final size:15
Alignment explanation
Indices: 24030010--24030040 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24030000 TTATTTTTTA
24030010 TACTTTATCTTTATT
1 TACTTTATCTTTATT
*
24030025 TACTTTATTTTTATT
1 TACTTTATCTTTATT
24030040 T
1 T
24030041 TGTAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (15 bp):
TACTTTATCTTTATT
Found at i:24031836 original size:3 final size:3
Alignment explanation
Indices: 24031830--24031859 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24031820 TGCGTATGTG
24031830 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24031860 CAACTTAATA
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):
TAA
Found at i:24033652 original size:50 final size:50
Alignment explanation
Indices: 24033594--24033960 Score: 153
Period size: 50 Copynumber: 7.3 Consensus size: 50
24033584 GCCGTCGTAA
* *
24033594 CTTCAATCTGTTCCACTACACTGCCAGAGAAGTAAGATTCATCGTTGCGG
1 CTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAGATTCACCGTTGCGG
* ** * * * *** ** * *
24033644 CTTCAATCTTTTTAATTGCAAT-ATTGGAGAAACAAGATTCATCGTCGTC-G
1 CTTCAATCTGTTCCACTACACTGCCAGG-GAAGTAAGATTCACCGTTG-CGG
* * * *
24033694 CTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAGATTCACCGTTGCGG
* ** * * * *** ** * * **
24033744 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAG
1 CTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAGATTCACCGTTGCGG
* * *
24033794 CTTCAGTCTGTTCCACTACACTGCCAGGGGAGTAAGATTCACCATTGCGG
1 CTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAGATTCACCGTTGCGG
* ** * * * *** *** * * **
24033844 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAG
1 CTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAGATTCACCGTTGCGG
* * * * * * *
24033894 CTTCATTCTATTCCACTACACCGCCAGGGGAGTAAGATTCGCCGTGGTGG
1 CTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAGATTCACCGTTGCGG
*
24033944 TTTCAATCTGTTCCACT
1 CTTCAATCTGTTCCACT
24033961 GTAATGCCAA
Statistics
Matches: 211, Mismatches: 102, Indels: 8
0.66 0.32 0.02
Matches are distributed among these distances:
49 1 0.00
50 207 0.98
51 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (50 bp):
CTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAGATTCACCGTTGCGG
Found at i:24033720 original size:100 final size:100
Alignment explanation
Indices: 24033544--24033952 Score: 593
Period size: 100 Copynumber: 4.1 Consensus size: 100
24033534 TATTCGCCAT
* * * *
24033544 CTTCAGTCTTTTAAATTGTAATGTTGGGGAAACAAGATTCGCCGTCGTAACTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* * * *
24033609 CTACACTGCCAGAGAAGTAAGATTCATCGTTGCGG
66 CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGG
* * ** *
24033644 CTTCAATCTTTTTAATTGCAATATTGGAGAAACAAGATTCATCGTCGTCGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* *
24033709 CTACACCGCCAGGGGAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGG
*
24033744 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAGTCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* *
24033809 CTACACTGCCAGGGGAGTAAGATTCACCATTGCGG
66 CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGG
* * *
24033844 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCATTCTATTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
24033909 CTACACCGCCAGGGGAGTAAGATTCGCCGTGGTGG
66 CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGG
*
24033944 TTTCAATCT
1 CTTCAATCT
24033953 GTTCCACTGT
Statistics
Matches: 275, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 275 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGG
Found at i:24034114 original size:50 final size:50
Alignment explanation
Indices: 24034030--24034124 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
24034020 TCCAAGCCTT
* * *
24034030 AACGCCAGGGAGATAAGATTCGCTGTCGTTGCTTCAATCTCTTCCGCTAC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTCTTCCGCTAC
* * *
24034080 AACGTCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTCTTCC
24034125 ATTGTAACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (50 bp):
AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTCTTCCGCTAC
Found at i:24034134 original size:50 final size:50
Alignment explanation
Indices: 24034029--24034136 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 50
24034019 ATCCAAGCCT
* * * * *
24034029 TAACGCCAGGGAGATAAGATTCGCTGTCGTTGCTTCAATCTCTTCCGCTA
1 TAACGTCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTCTTCCACTA
* * * * *
24034079 CAACGTCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCCATTG
1 TAACGTCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTCTTCCACTA
24034129 TAACGTCA
1 TAACGTCA
24034137 AGGCGGTAAG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (50 bp):
TAACGTCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTCTTCCACTA
Found at i:24034315 original size:44 final size:44
Alignment explanation
Indices: 24034188--24034316 Score: 125
Period size: 45 Copynumber: 2.9 Consensus size: 44
24034178 ACAGGAAGGT
* * *
24034188 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGAC
1 AAGATCTGCTATTTTCAACCTACTCTATTGCTGCTCAGGGAAAC
* * * * * * * ***
24034232 AAG-GCTGGTATCTTCGATCTACTTTGTTGCCAATACAGGGAAAC
1 AAGATCTGCTATTTTCAACCTACTCTATTGCTGCT-CAGGGAAAC
24034276 AAGATCTGCTATTTTCAACCTACTCTATTGCTGCTCAGGGA
1 AAGATCTGCTATTTTCAACCTACTCTATTGCTGCTCAGGGA
24034317 GATAGGATTC
Statistics
Matches: 60, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
43 19 0.32
44 20 0.33
45 21 0.35
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
AAGATCTGCTATTTTCAACCTACTCTATTGCTGCTCAGGGAAAC
Found at i:24034337 original size:44 final size:44
Alignment explanation
Indices: 24034289--24034793 Score: 664
Period size: 44 Copynumber: 11.7 Consensus size: 44
24034279 ATCTGCTATT
* * *
24034289 TTCAACCTACTCTATTGCTG-CTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
24034333 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
24034377 TTCAACCTATTCCA-T--TG--C------ATAGGGTTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
24034410 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
24034454 TTCAACCTATTCCACTGCTGACCAGGGAGAAAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
** *
24034498 TTCAACCTATTCCAACTGCTGACTGGGGAGATA-GATCTTACAATC
1 TTCAACCTATTCC-ACTGCTGACCAGGGAGATAGGAT-TCACAATC
*
24034543 TTCAACCTA-TCCACTGCTGACCAAGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
24034586 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * *
24034630 TTCAACCTATTCTACTGCTGACCAAGGAGATAAGACTCACAATT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
24034674 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
* *
24034718 TTCAACCTATTCCACTACTAACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
* * *
24034762 TTCAACATATTCCACTGTTGCCCAGGGAGATA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA
24034794 AAGCTTTGTG
Statistics
Matches: 408, Mismatches: 36, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
33 28 0.07
34 1 0.00
36 2 0.00
38 1 0.00
39 1 0.00
41 2 0.00
43 33 0.08
44 306 0.75
45 34 0.08
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:24045004 original size:15 final size:15
Alignment explanation
Indices: 24044984--24045059 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
24044974 TTTATGGAAA
24044984 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
24044999 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
24045013 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
24045029 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
24045043 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
24045059 A
1 A
24045060 CCGAGATATT
Statistics
Matches: 43, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:24045021 original size:30 final size:30
Alignment explanation
Indices: 24044980--24045059 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
24044970 CATATTTATG
*
24044980 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
24045010 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
24045040 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
24045060 CCGAGATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:24049913 original size:15 final size:15
Alignment explanation
Indices: 24049893--24049943 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
24049883 TTTATGGAAA
24049893 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
24049908 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
24049922 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
24049938 ATCAAA
1 ATCAAA
24049944 TATTGGAAAG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:24049930 original size:30 final size:30
Alignment explanation
Indices: 24049889--24049968 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
24049879 CATATTTATG
*
24049889 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
24049919 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
24049949 GAAAGTCAAATATATGGGTA
1 GAAAGTCAAAGATATGGGTA
24049969 CCGAGATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:24052434 original size:15 final size:15
Alignment explanation
Indices: 24052414--24052445 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24052404 TATTTCACTA
*
24052414 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
24052429 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
24052444 TT
1 TT
24052446 TGCATCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:24064417 original size:17 final size:16
Alignment explanation
Indices: 24064397--24064429 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
24064387 TTCTTGTAGA
24064397 AAAATAATTAATATTAT
1 AAAATAATTAA-ATTAT
24064414 AAAATAATTAAATTAT
1 AAAATAATTAAATTAT
24064430 GTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATAATTAAATTAT
Found at i:24067408 original size:62 final size:59
Alignment explanation
Indices: 24067267--24067460 Score: 198
Period size: 62 Copynumber: 3.2 Consensus size: 59
24067257 TCAAAAATAA
* * *
24067267 TATTATTTTAAT-ATTTTAATATTAAATTTAATTTAATACTTATCTTA-AT-AGTATTT
1 TATTATTTTAATAAATTTAATATTAAATTTAATTTAATATTTATCTTAGATAAATATTT
* * *
24067323 TATTAACATAATATAATCAATTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATT
1 TATT---AT--TTTAATAAATTTAATATTAAATTTAATTTAATATTTATC-T-TAGATAAATATT
24067388 T
59 T
* * *
24067389 TATTATTTTAATAAGATTTAATGTTAAATTTAATCTAATATTTATCTT-GATAAATATTA
1 TATTATTTTAATAA-ATTTAATATTAAATTTAATTTAATATTTATCTTAGATAAATATTT
*
24067448 TATTAATTTAATA
1 TATTATTTTAATA
24067461 TTAAAGTGAT
Statistics
Matches: 115, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
56 4 0.03
59 24 0.21
60 1 0.01
61 12 0.10
62 57 0.50
63 3 0.03
64 2 0.02
65 2 0.02
66 10 0.09
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (59 bp):
TATTATTTTAATAAATTTAATATTAAATTTAATTTAATATTTATCTTAGATAAATATTT
Found at i:24076674 original size:8 final size:8
Alignment explanation
Indices: 24076663--24076700 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
24076653 ATTTAGTTCT
24076663 TTTTTTTA
1 TTTTTTTA
24076671 TTTTTCTTA
1 TTTTT-TTA
*
24076680 TTTATTTA
1 TTTTTTTA
24076688 TTTTTTTA
1 TTTTTTTA
24076696 TTTTT
1 TTTTT
24076701 ATCTCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:24077885 original size:29 final size:29
Alignment explanation
Indices: 24077852--24077910 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
24077842 AGGAATAGGG
* *
24077852 AATTCTATTAGGATATCTTAGGTTAATTA
1 AATTCCATTAGGATATCTTAAGTTAATTA
* *
24077881 AATTCCATTAGGTTATTTTAAGTTAATTA
1 AATTCCATTAGGATATCTTAAGTTAATTA
24077910 A
1 A
24077911 TTTATTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.46
Consensus pattern (29 bp):
AATTCCATTAGGATATCTTAAGTTAATTA
Found at i:24078906 original size:29 final size:30
Alignment explanation
Indices: 24078844--24078908 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
24078834 CAATTAAAAA
* *
24078844 TAAATTTTGAAATCTAAAAAGTAAAAAGAT
1 TAAATTTTAAAATCTAAAAAGTAAAAAGAC
*
24078874 TAAATTTCTAAAAT-TAAAAA-TATAAAGAC
1 TAAATTT-TAAAATCTAAAAAGTAAAAAGAC
24078903 TAAATT
1 TAAATT
24078909 CTATATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.42
30 13 0.42
31 5 0.16
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (30 bp):
TAAATTTTAAAATCTAAAAAGTAAAAAGAC
Found at i:24079265 original size:53 final size:53
Alignment explanation
Indices: 24079185--24079291 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
24079175 AATGTGAATA
24079185 CCAAACTATAATGTTTTACATTTTTACCCCAAAATTCCAAACCTATTTATTTT
1 CCAAACTATAATGTTTTACATTTTTACCCCAAAATTCCAAACCTATTTATTTT
* *
24079238 CCAAACTATAATGTTTTACTTTTTTACCCCAAACTTCCAAACCTATTTATTTT
1 CCAAACTATAATGTTTTACATTTTTACCCCAAAATTCCAAACCTATTTATTTT
24079291 C
1 C
24079292 ACCCAAAACT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (53 bp):
CCAAACTATAATGTTTTACATTTTTACCCCAAAATTCCAAACCTATTTATTTT
Found at i:24079845 original size:16 final size:16
Alignment explanation
Indices: 24079826--24079866 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
24079816 ATCATAATAC
24079826 ATAAATTTTATTTAAG
1 ATAAATTTTATTTAAG
24079842 ATAAATTTTATTTAAG
1 ATAAATTTTATTTAAG
24079858 ATAAATTTT
1 ATAAATTTT
24079867 TTACATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
ATAAATTTTATTTAAG
Found at i:24084189 original size:20 final size:20
Alignment explanation
Indices: 24084164--24084205 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24084154 TAAAAACAAG
24084164 GTTGGTAGTGAAGGGATTCA
1 GTTGGTAGTGAAGGGATTCA
24084184 GTTGGTAGTGAAGGGATTCA
1 GTTGGTAGTGAAGGGATTCA
24084204 GT
1 GT
24084206 CAGAGGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.40, T:0.31
Consensus pattern (20 bp):
GTTGGTAGTGAAGGGATTCA
Found at i:24092934 original size:15 final size:15
Alignment explanation
Indices: 24092914--24092944 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24092904 GTTATGTAAG
24092914 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
24092929 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
24092944 T
1 T
24092945 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:24096915 original size:15 final size:15
Alignment explanation
Indices: 24096895--24096925 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24096885 GTTATGTAAG
24096895 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
24096910 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
24096925 T
1 T
24096926 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:24099632 original size:23 final size:24
Alignment explanation
Indices: 24099579--24099633 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
24099569 TGTTGCACAT
* * *
24099579 AATATATTTATTATCATTATATAT
1 AATATGTTTATTATCATTAGATAA
*
24099603 TAT-TGTTTATTAT-ATTAGATAA
1 AATATGTTTATTATCATTAGATAA
24099625 AATATGTTT
1 AATATGTTT
24099634 TAAGTCCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 9 0.36
23 14 0.56
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (24 bp):
AATATGTTTATTATCATTAGATAA
Found at i:24103344 original size:43 final size:42
Alignment explanation
Indices: 24103283--24103441 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 42
24103273 CCAGAGTACA
* *
24103283 TTGAATATAAAAGGGGTTGCTAAGTGCTGATTCCATCGTATCT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCA-CGTATCT
* *
24103326 TTGAATGTGAAAGGGGTTGCTAAGTGTTGATTTCC-CGAATCT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGA-TTCCACGTATCT
* *
24103368 TT--A-GT------GGTTTCTAAGTGTTGATTCCACTGTATCT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCAC-GTATCT
* * *
24103402 TTGAATGTGAAAGGGGTTGCTATGTGCTAATTCCCCGTAT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCACGTAT
24103442 TACTGAATAT
Statistics
Matches: 93, Mismatches: 11, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
32 4 0.04
33 16 0.17
34 7 0.08
36 1 0.01
37 2 0.02
39 2 0.02
40 1 0.01
42 12 0.13
43 44 0.47
44 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (42 bp):
TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCACGTATCT
Found at i:24105842 original size:47 final size:47
Alignment explanation
Indices: 24105791--24105890 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
24105781 TGGTTGGACC
** *
24105791 ATGGCAAC-ATGTGATATGTGATTTTCGTATAAGACCATATCTGGGAT
1 ATGGCAACGATGTGATATGTGATACT-GTATAAGACCATAGCTGGGAT
* * * * *
24105838 ATGGCATCGGTGTGATATGTGCTACTGTGTAAGACCATAGCTGGGCT
1 ATGGCAACGATGTGATATGTGATACTGTATAAGACCATAGCTGGGAT
24105885 ATGGCA
1 ATGGCA
24105891 TCAATATGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 31 0.70
48 13 0.30
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (47 bp):
ATGGCAACGATGTGATATGTGATACTGTATAAGACCATAGCTGGGAT
Found at i:24108765 original size:76 final size:76
Alignment explanation
Indices: 24108635--24108818 Score: 296
Period size: 76 Copynumber: 2.4 Consensus size: 76
24108625 CCGGAGTACA
* * * *
24108635 TTGAATATAAAAGGGGTTGCTAAGTGCTAATTCCTCGAATCATTGGTGGGTGCTAAGTGCTGATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGGTGCTAAGTGCTGATT
*
24108700 CCACCGTATCT
66 CCACCGTATCG
*
24108711 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGGTGCTAAGTGCTGATT
24108776 CCACCGTATCG
66 CCACCGTATCG
* *
24108787 TTGATTGTGAAAGGGGTTGCTATGTGCTGATT
1 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATT
24108819 GCCCATATTA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 100 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (76 bp):
TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGGTGCTAAGTGCTGATT
CCACCGTATCG
Found at i:24114559 original size:24 final size:24
Alignment explanation
Indices: 24114512--24114559 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24114502 ACAGTCCCTC
* * *
24114512 TGGTTTGTTTTTGGGCTTCAACTT
1 TGGTTTGTTCTCGGGCCTCAACTT
*
24114536 TGGTTTGTTCTCGGGCCTCTACTT
1 TGGTTTGTTCTCGGGCCTCAACTT
24114560 CCCATTATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.19, G:0.25, T:0.50
Consensus pattern (24 bp):
TGGTTTGTTCTCGGGCCTCAACTT
Found at i:24119072 original size:103 final size:103
Alignment explanation
Indices: 24118893--24119098 Score: 322
Period size: 103 Copynumber: 2.0 Consensus size: 103
24118883 TTCAAACACG
* *
24118893 CAATTCATTTCTAGTTTCAACGAGCTAGCGGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
1 CAATTCAGTTCTAGTTTCAACAAGCTAGCGGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
* *
24118958 ATGATTTATAATTAAGTTCCTACTTTTCGCCTATTAAT
66 ATGATATATAATTAAGTTCCTACTTTTCACCTATTAAT
* **
24118996 CAATTCAGTTCTGGTTTCAACAAGCTAGCGGAGGGACCGATTAAACATATGTAGTTTAGGCTCAA
1 CAATTCAGTTCTAGTTTCAACAAGCTAGCGGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
* * *
24119061 ATGGTATATAATTAATTTCCTGCTTTTCACCTATTAAT
66 ATGATATATAATTAAGTTCCTACTTTTCACCTATTAAT
24119099 TATAAACTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (103 bp):
CAATTCAGTTCTAGTTTCAACAAGCTAGCGGAGGGACCGATTAAACATATGTAGTTTAGAATCAA
ATGATATATAATTAAGTTCCTACTTTTCACCTATTAAT
Found at i:24124969 original size:10 final size:10
Alignment explanation
Indices: 24124956--24124994 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
24124946 AGCTCAAATC
24124956 AGCTCATTTG
1 AGCTCATTTG
*
24124966 AGCTTC-TTTC
1 AGC-TCATTTG
24124976 AGCTCATTTG
1 AGCTCATTTG
24124986 AGCTCATTT
1 AGCTCATTT
24124995 CAATTTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:24124969 original size:20 final size:20
Alignment explanation
Indices: 24124946--24124991 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
24124936 AGCTCTGTTC
24124946 AGCTCAAATCAGCTCATTTG
1 AGCTCAAATCAGCTCATTTG
**
24124966 AGCTTC-TTTCAGCTCATTTG
1 AGC-TCAAATCAGCTCATTTG
24124986 AGCTCA
1 AGCTCA
24124992 TTTCAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (20 bp):
AGCTCAAATCAGCTCATTTG
Found at i:24130741 original size:12 final size:12
Alignment explanation
Indices: 24130724--24130767 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
24130714 TTCCATTTTT
24130724 ATTTTTATTATA
1 ATTTTTATTATA
24130736 ATTTTTAGTT-TA
1 ATTTTTA-TTATA
24130748 ATTTTTACATTATA
1 ATTTTT--ATTATA
24130762 ATTTTT
1 ATTTTT
24130768 CTTTTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 15 0.54
13 4 0.14
14 9 0.32
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (12 bp):
ATTTTTATTATA
Found at i:24130773 original size:26 final size:24
Alignment explanation
Indices: 24130700--24130773 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
24130690 GGAACACTCG
*
24130700 ATTTTTA-T-TAATTTTTCCATTTTT
1 ATTTTTATTATAATTTTT-C-TTTTA
**
24130724 ATTTTTATTATAATTTTTAGTTTA
1 ATTTTTATTATAATTTTTCTTTTA
24130748 ATTTTTACATTATAATTTTTCTTTTA
1 ATTTTT--ATTATAATTTTTCTTTTA
24130774 TTTGTTTCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
24 16 0.39
25 1 0.02
26 24 0.59
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (24 bp):
ATTTTTATTATAATTTTTCTTTTA
Found at i:24133275 original size:42 final size:43
Alignment explanation
Indices: 24133167--24133338 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
24133157 AGCTCATACA
* * *
24133167 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
* * * **
24133210 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATAT-TTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
* * *
24133252 ATGTCAATGTCCCAGACATGGTCTTGCACATAAATCACAA-ATA-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AATA-ACG
* * * * *
24133296 ATGCCAACGTCCCTGACGTGCTCTTACACG-ATATCACATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTA-ATCAAATAACG
24133339 GAATCCTATG
Statistics
Matches: 99, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
42 30 0.30
43 44 0.44
44 25 0.25
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
Found at i:24136756 original size:19 final size:19
Alignment explanation
Indices: 24136732--24136769 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24136722 TATAAATACC
24136732 CATTAGAAGAAGACATAAG
1 CATTAGAAGAAGACATAAG
24136751 CATTAGAAGAAGACATAAG
1 CATTAGAAGAAGACATAAG
24136770 AGGGTAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.21, T:0.16
Consensus pattern (19 bp):
CATTAGAAGAAGACATAAG
Found at i:24144281 original size:143 final size:143
Alignment explanation
Indices: 24144023--24144308 Score: 572
Period size: 143 Copynumber: 2.0 Consensus size: 143
24144013 TAAATATAAA
24144023 GTACATAAAATGATCATCATTTGGAATGACCTTGGTTGGAAAAATATTTAAACTTATCCTTGGTT
1 GTACATAAAATGATCATCATTTGGAATGACCTTGGTTGGAAAAATATTTAAACTTATCCTTGGTT
24144088 CACTTGATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
66 CACTTGATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
24144153 TTTTTTGCAAAAC
131 TTTTTTGCAAAAC
24144166 GTACATAAAATGATCATCATTTGGAATGACCTTGGTTGGAAAAATATTTAAACTTATCCTTGGTT
1 GTACATAAAATGATCATCATTTGGAATGACCTTGGTTGGAAAAATATTTAAACTTATCCTTGGTT
24144231 CACTTGATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
66 CACTTGATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
24144296 TTTTTTGCAAAAC
131 TTTTTTGCAAAAC
24144309 TGTCGAAAAT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (143 bp):
GTACATAAAATGATCATCATTTGGAATGACCTTGGTTGGAAAAATATTTAAACTTATCCTTGGTT
CACTTGATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
TTTTTTGCAAAAC
Found at i:24144386 original size:143 final size:142
Alignment explanation
Indices: 24144023--24144361 Score: 364
Period size: 143 Copynumber: 2.4 Consensus size: 142
24144013 TAAATATAAA
* * * * * * * * **
24144023 GTACATAAAATGATCATCATTTGGAATGACCTTGGTTGGAAAAATATTTAAACTTATCCTTGGTT
1 GTACAGAAAATAATCATAATTTGGAA-GACATTGATTAGAAAAATAATTAAAATTATAATTGGTT
* *
24144088 CACTTGATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
65 AACTTAATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
24144153 TTTTTTGCAAAAC
130 TTTTTTGCAAAAC
* * * * * * * * **
24144166 GTACATAAAATGATCATCATTTGGAATGACCTTGGTTGGAAAAATATTTAAACTTATCCTTGGTT
1 GTACAGAAAATAATCATAATTTGGAA-GACATTGATTAGAAAAATAATTAAAATTATAATTGGTT
* *
24144231 CACTTGATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
65 AACTTAATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACC
24144296 TTTTTTGCAAAAC
130 TTTTTTGCAAAAC
* *
24144309 TGT-C-GAAAATAAATCA-AATTTGTGAA-A-ATTTATTATAAAAATAATTAAAATTA
1 -GTACAGAAAAT-AATCATAATTTG-GAAGACATTGATTAGAAAAATAATTAAAATTA
24144362 AATATGTTAA
Statistics
Matches: 183, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
140 19 0.10
141 1 0.01
142 10 0.05
143 151 0.83
144 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (142 bp):
GTACAGAAAATAATCATAATTTGGAAGACATTGATTAGAAAAATAATTAAAATTATAATTGGTTA
ACTTAATGCAAAAATTCCCCAACAATTCAAACCTTTCAAGGTGTCTACCGAGCCAATTTTCACCT
TTTTTGCAAAAC
Found at i:24144415 original size:27 final size:28
Alignment explanation
Indices: 24144356--24144409 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
24144346 AAAATAATTA
*
24144356 AAATTAAATATGTTAATAATTTAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
24144384 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAAATATGTTAATAATTAAAGTG
24144410 TGAATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:24149586 original size:16 final size:16
Alignment explanation
Indices: 24149565--24149605 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
24149555 TTGAATTACT
24149565 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
24149581 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
24149597 ATTACAGCT
1 ATTACAGCT
24149606 AGGGGTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:24149738 original size:5 final size:5
Alignment explanation
Indices: 24149730--24149755 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24149720 GAGATGGAAT
24149730 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
24149756 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:24149755 original size:26 final size:26
Alignment explanation
Indices: 24149704--24149755 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
24149694 TGAAGTTTTC
* * *
24149704 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
24149730 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
24149756 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:24149939 original size:19 final size:19
Alignment explanation
Indices: 24149906--24149953 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
24149896 TAAACAATTC
24149906 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
24149923 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
24149942 AATAATATAAAT
1 AATAATATAAAT
24149954 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:24150211 original size:30 final size:31
Alignment explanation
Indices: 24150172--24150231 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
24150162 AGAGGTGGGA
*
24150172 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
24150203 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
24150232 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:24150459 original size:9 final size:9
Alignment explanation
Indices: 24150445--24150481 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24150435 TATAGTTTGA
24150445 TATTCGAAT
1 TATTCGAAT
24150454 TATTCGAAT
1 TATTCGAAT
*
24150463 TATTCGAGT
1 TATTCGAAT
*
24150472 TATTCAAAT
1 TATTCGAAT
24150481 T
1 T
24150482 TGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24150552 original size:9 final size:9
Alignment explanation
Indices: 24150535--24150565 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24150525 TCGAGTTGAT
24150535 TCGAATAAC
1 TCGAATAAC
*
24150544 TCGATTAAC
1 TCGAATAAC
24150553 TCGAATAAC
1 TCGAATAAC
24150562 TCGA
1 TCGA
24150566 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24159431 original size:10 final size:10
Alignment explanation
Indices: 24159416--24159478 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
24159406 TTTAGAATAC
24159416 TTTTTTTAAA
1 TTTTTTTAAA
24159426 TTTTTTT-AA
1 TTTTTTTAAA
*
24159435 --TTTTAAAA
1 TTTTTTTAAA
*
24159443 TATTTTTAAAA
1 T-TTTTTTAAA
*
24159454 TACTTTTTAAA
1 T-TTTTTTAAA
*
24159465 TTTTTTTTAA
1 TTTTTTTAAA
24159475 TTTT
1 TTTT
24159479 AAAATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 4 0.09
8 2 0.05
9 2 0.05
10 18 0.41
11 18 0.41
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:24159432 original size:41 final size:41
Alignment explanation
Indices: 24159395--24159510 Score: 184
Period size: 40 Copynumber: 2.9 Consensus size: 41
24159385 TTTTTTTAAT
* *
24159395 TTTAAAATACTTTTAGAATACTTTTTTTAAATTTTTTTAAT
1 TTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTAAT
24159436 TTTAAAATATTTTTAAAATAC--TTTTTAAATTTTTTTTAAT
1 TTTAAAATATTTTTAAAATACTTTTTTTAAA-TTTTTTTAAT
24159476 TTTAAAATATTTTTAAAATACTTTTTTT-AATTTTT
1 TTTAAAATATTTTTAAAATACTTTTTTTAAATTTTT
24159511 AAAATAAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
39 8 0.11
40 36 0.51
41 21 0.30
42 5 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (41 bp):
TTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTAAT
Found at i:24159489 original size:11 final size:11
Alignment explanation
Indices: 24159435--24159501 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
24159425 ATTTTTTTAA
24159435 TTTTAAAATAT
1 TTTTAAAATAT
24159446 TTTTAAAATACT
1 TTTTAAAATA-T
24159458 TTTT-AAAT-T
1 TTTTAAAATAT
* *
24159467 TTTT---TTAA
1 TTTTAAAATAT
24159475 TTTTAAAATAT
1 TTTTAAAATAT
24159486 TTTTAAAATACT
1 TTTTAAAATA-T
24159498 TTTT
1 TTTT
24159502 TTAATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 5 0.11
11 26 0.57
12 10 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:24159522 original size:21 final size:21
Alignment explanation
Indices: 24159484--24159523 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24159474 ATTTTAAAAT
**
24159484 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
24159505 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
24159524 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:24159530 original size:22 final size:20
Alignment explanation
Indices: 24159483--24159537 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
24159473 AATTTTAAAA
* *
24159483 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
24159503 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
24159526 TATTTATTAAAA
1 TATTT-TTAAAA
24159538 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:24160111 original size:54 final size:57
Alignment explanation
Indices: 24160043--24160345 Score: 225
Period size: 65 Copynumber: 4.9 Consensus size: 57
24160033 TGGATTTGAT
* * * *
24160043 TAGGTTTTATGAAAAATTAAATTAGGGTATTATGTTTTTAATTGTATAGGGTTTT-A
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAA
24160099 -A-GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCTGGGCTTAA
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGG--T-T----TTAA
*
24160161 TTAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGGTTTGA
1 -TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTT-A-------GGGTTTTA
*
24160226 T
57 A
*** * * *
24160227 TAGGGTTTAGGAACTTTTAAATTACGGTATTAAGTTTTTAATTGTTTAGGGTTTTTGGGTTTGAT
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGG----T---TTT-AA
* * * *
24160292 TAAGGATTAGAAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
1 TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTT
24160346 AATTACTTTT
Statistics
Matches: 199, Mismatches: 21, Indels: 52
0.73 0.08 0.19
Matches are distributed among these distances:
54 44 0.22
55 1 0.01
56 1 0.01
57 4 0.02
58 2 0.01
61 4 0.02
62 1 0.01
64 4 0.02
65 130 0.65
66 3 0.02
70 1 0.01
71 1 0.01
73 3 0.02
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (57 bp):
TAGGGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAA
Found at i:24160175 original size:65 final size:64
Alignment explanation
Indices: 24160100--24160345 Score: 357
Period size: 65 Copynumber: 3.8 Consensus size: 64
24160090 AGGGTTTTAA
* * *
24160100 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCTGGGCTTAATTAG
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT-TGGGTTTGATTAG
24160165 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGGTTTGATTAG
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTT-GGGTTTGATTAG
*** * * * *
24160230 GGTTTAGGAACTTTTAAATTACGGTATTAAGTTTTTAATTGTTTAGGGTTTTTGGGTTTGATTAA
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGG-TTTTGGGTTTGATTAG
* *
24160295 GGATTAGAAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
1 GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTT
24160346 AATTACTTTT
Statistics
Matches: 161, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
64 4 0.02
65 153 0.95
66 4 0.02
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (64 bp):
GGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAAGGTTTTGGGTTTGATTAG
Found at i:24165168 original size:365 final size:366
Alignment explanation
Indices: 24164497--24165232 Score: 1411
Period size: 365 Copynumber: 2.0 Consensus size: 366
24164487 TCCTAAAAGT
24164497 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
1 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
* *
24164562 AAGAAAGAGCATATCAGCTGAAGAAGAGGACCCAAAGAAAGCTTTGGGTTGGGCAGCCCTGGGAC
66 AAGAAAGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAGCCCAGGGAC
24164627 TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
131 TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
24164692 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
196 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
*
24164757 GGAGAGAGATGAGGCCTTCAAGGTGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
261 GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
24164822 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
326 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
*
24164863 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGTATCAAAGAGAAGAAAAA
1 TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
*
24164928 AAGAATGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAG-CCAGGGAC
66 AAGAAAGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAGCCCAGGGAC
*
24164992 TCATCTGCTCACCTCTCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
131 TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
24165057 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
196 TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
24165122 GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
261 GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
24165187 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
326 AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
24165228 TAATT
1 TAATT
24165233 AATTTCTCTT
Statistics
Matches: 364, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
365 246 0.68
366 118 0.32
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (366 bp):
TAATTCTATAAATAAGAAGCTTTTGTTTTGACTCAAACTCACCAAAGCATCAAAGAGAAGAAAAA
AAGAAAGAGCATATCAGCTGAAGAAGAGCACCCAAAGAAAGCTTTGGGTTGGGCAGCCCAGGGAC
TCATCTGCTCACCTCGCTCCTTTTACATTCTCCAGAAGGTTTAAATTATTTACGGTGTTTTGTTT
TCATAAGTAGTTCTTTTTTACTGCATTTGAACAAGATGATTATGATGAGAAATTGCAGGGAAACA
GGAGAGAGATGAGGCCTTCAAGATGCTCTATTGTGGGATATGCCACTCTGATTTTCATATGATCA
AGAATGAATGGGGTAACACTGTTCATCCTTTTCTTCCTGGG
Found at i:24165783 original size:112 final size:113
Alignment explanation
Indices: 24165586--24165913 Score: 405
Period size: 113 Copynumber: 2.9 Consensus size: 113
24165576 AAAATAAGCA
* * * * *
24165586 TTAGCGGCGTTTTCGAGAAAGCGCCGCAAAACACCTAATCCCAACGACGCCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTCAACAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
* * *
24165651 TGGGGAATTAGCGGCGTTTTTTCTGAAGCGACGCTAATACCCA-GGCT
66 CGGGGATTTAGCGGCGTTTTTTCTGAAGCGCCGCTAATACCCAGGGCT
* * *
24165698 TTAGCGGCGTTTTCAACAAAGCGCCACAAAAAAAACTGAGCCCAACGATGCCGTTTTC-GAGCTT
1 TTAGCGGCGTTTTCAACAAAGCGCCAC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
24165762 TCGGGGATTTAGCGGCG-TTTTTCAAGTAAGCGCCGCTAATATCCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTTC-TG-AAGCGCCGCTAATACCCAGGGCT
* * * *
24165812 TTAGCGGCATTTT-AGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCA-ACAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
24165876 TC-GGGATTTAGTGGCGTTTTTTGTAAAGCGCCGCTAAT
65 TCGGGGATTTAGCGGCGTTTTTTCTGAAGCGCCGCTAAT
24165914 GCTCAGTAAT
Statistics
Matches: 185, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
111 6 0.03
112 59 0.32
113 80 0.43
114 40 0.22
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTCAACAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTTCTGAAGCGCCGCTAATACCCAGGGCT
Found at i:24166480 original size:15 final size:14
Alignment explanation
Indices: 24166460--24166534 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
24166450 AAGTTTTATA
24166460 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
24166475 GATTATGGATTAGG
1 GATTATGGATTAAG
* *
24166489 GATTCTGGTTTAAG
1 GATTATGGATTAAG
*
24166503 GGTTAATGTGATTTAAG
1 GATT-ATG-GA-TTAAG
* *
24166520 GTTTATGGGTTAAG
1 GATTATGGATTAAG
24166534 G
1 G
24166535 GTTAGGGGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 25 0.52
15 11 0.23
16 4 0.08
17 8 0.17
ACGTcount: A:0.28, C:0.01, G:0.32, T:0.39
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:24166534 original size:14 final size:14
Alignment explanation
Indices: 24166515--24166554 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24166505 TTAATGTGAT
* *
24166515 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
24166529 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
24166543 TTAGGGGTTAGG
1 TTAAGGGTTAGG
24166555 TTAGGGGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:24166571 original size:14 final size:12
Alignment explanation
Indices: 24166527--24166565 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
24166517 AAGGTTTATG
*
24166527 GGTTAAGGGTTA
1 GGTTAGGGGTTA
24166539 GGGGTTAGGGGTTA
1 --GGTTAGGGGTTA
24166553 GGTTAGGGGTTA
1 GGTTAGGGGTTA
24166565 G
1 G
24166566 ATGTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:24166571 original size:19 final size:19
Alignment explanation
Indices: 24166534--24166571 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24166524 ATGGGTTAAG
*
24166534 GGTTAGGGGTTAGGGGTTA
1 GGTTAGGGGTTAGAGGTTA
*
24166553 GGTTAGGGGTTAGATGTTA
1 GGTTAGGGGTTAGAGGTTA
24166572 AGAGTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.34
Consensus pattern (19 bp):
GGTTAGGGGTTAGAGGTTA
Found at i:24166779 original size:42 final size:42
Alignment explanation
Indices: 24166694--24166858 Score: 278
Period size: 42 Copynumber: 3.9 Consensus size: 42
24166684 TTTTGTATAA
24166694 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT-TTCT
*
24166737 AAGCGCCGCTAAAGAACAT-GTCTTTAGAGGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAG-CGGCGTTTTTTTCT
* *
24166779 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
24166821 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
24166859 GTTTGTAAAT
Statistics
Matches: 114, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
42 79 0.69
43 35 0.31
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
Found at i:24166787 original size:85 final size:84
Alignment explanation
Indices: 24166694--24166858 Score: 278
Period size: 85 Copynumber: 2.0 Consensus size: 84
24166684 TTTTGTATAA
* *
24166694 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTTCTAAGCGCCGCTAAAGAACAT-GT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTT-TTCTAAGCGCCGCTAAAGAACATGGT
*
24166758 CTTTAGAGGGCGTTTTTTTCT
65 CTTTAG-CGGCGTTTTTTTCT
24166779 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
24166844 TTTAGCGGCGTTTTT
66 TTTAGCGGCGTTTTT
24166859 GTTTGTAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
84 32 0.42
85 44 0.58
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
TTTAGCGGCGTTTTTTTCT
Found at i:24167575 original size:16 final size:16
Alignment explanation
Indices: 24167526--24167566 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
24167516 GTTTGGTTCA
24167526 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
24167542 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
24167558 CTGTAATGG
1 CTGTAATGG
24167567 GATAAAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:24169674 original size:26 final size:26
Alignment explanation
Indices: 24169642--24170010 Score: 427
Period size: 26 Copynumber: 14.2 Consensus size: 26
24169632 GTGTTGACCA
*
24169642 AAATACCCTCGATGGGTAAATTACCA
1 AAATACCCTCGATGGGTAAATTACCG
*
24169668 AAATACCCTCGATGGGTAAATTACTG
1 AAATACCCTCGATGGGTAAATTACCG
*
24169694 AAATACCCTCAATGGGTAAATTACCG
1 AAATACCCTCGATGGGTAAATTACCG
* * ** *
24169720 AAATATCCTCAATGGGTATGTTATCG
1 AAATACCCTCGATGGGTAAATTACCG
*
24169746 AAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCG
* * *
24169772 AAATATCGTCGATGGGTAAATTACTG
1 AAATACCCTCGATGGGTAAATTACCG
* *
24169798 AAATACCCTCAATCGGTAAATTACCG
1 AAATACCCTCGATGGGTAAATTACCG
* ** * *
24169824 AAATACCTTTAATAGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCG
* *
24169850 AATTACCCTCGAT-GGTAAATTGCCG
1 AAATACCCTCGATGGGTAAATTACCG
*
24169875 AAATACCCTCGATGGGTAAATTACCA
1 AAATACCCTCGATGGGTAAATTACCG
** *
24169901 AAATACCCTCGATGGGTAAAGAATCG
1 AAATACCCTCGATGGGTAAATTACCG
** * *
24169927 AAATACCCTTAATGGGTAAAGTACCA
1 AAATACCCTCGATGGGTAAATTACCG
* *
24169953 AAATATCCTCGATGGGTAAATTACTG
1 AAATACCCTCGATGGGTAAATTACCG
*
24169979 AAATA-CCTCCGATGGGTAAATTACTG
1 AAATACCCT-CGATGGGTAAATTACCG
24170005 AAATAC
1 AAATAC
24170011 GCCCAAAAGG
Statistics
Matches: 291, Mismatches: 49, Indels: 5
0.84 0.14 0.01
Matches are distributed among these distances:
25 25 0.09
26 266 0.91
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (26 bp):
AAATACCCTCGATGGGTAAATTACCG
Found at i:24170216 original size:27 final size:27
Alignment explanation
Indices: 24170165--24170229 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
24170155 TGTTATGAAG
* *
24170165 TACTGTTTCTGGTGGCTCGGCCACAGT-
1 TACTGTTACTGGTGGCTAGGCCACA-TA
* *
24170192 TACTGTTACTGGTGGCTATGTCACATA
1 TACTGTTACTGGTGGCTAGGCCACATA
24170219 TACTG-TACTGG
1 TACTGTTACTGG
24170230 CAGCTTGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTAGGCCACATA
Found at i:24177448 original size:26 final size:26
Alignment explanation
Indices: 24177411--24177634 Score: 322
Period size: 26 Copynumber: 8.6 Consensus size: 26
24177401 GTGTTGATCA
*
24177411 AAATACCCTCGATGGGTAAATTATCA
1 AAATACCCTCGATGGGTAAATTATCG
***
24177437 AAATAAATTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTATCG
* *
24177463 AAATACCTTCGATGGGTAAATTACCG
1 AAATACCCTCGATGGGTAAATTATCG
*
24177489 CAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTATCG
* *
24177515 AAATACCCTCGATGGGTAAATTACCA
1 AAATACCCTCGATGGGTAAATTATCG
*
24177541 AAATACCCTCGATGGGTAAATTATTG
1 AAATACCCTCGATGGGTAAATTATCG
*
24177567 AAATACCCTCGATTGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTATCG
* *
24177593 AAATACCCTCGATGGATAAAGTATCG
1 AAATACCCTCGATGGGTAAATTATCG
*
24177619 AAATACCTTCGATGGG
1 AAATACCCTCGATGGG
24177635 ACCCTCGATG
Statistics
Matches: 175, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 175 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (26 bp):
AAATACCCTCGATGGGTAAATTATCG
Found at i:24177475 original size:52 final size:52
Alignment explanation
Indices: 24177411--24177731 Score: 331
Period size: 52 Copynumber: 5.9 Consensus size: 52
24177401 GTGTTGATCA
* ***
24177411 AAATACCCTCGATGGGTAAATTATCAAAATAAATTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
* **
24177463 AAATACCTTCGATGGGTAAATTACCGCAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
*
24177515 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATTG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
* * * * *
24177567 AAATACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGATAAAGTATCG
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
* ** *
24177619 AAATACCTTCGATGGGACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTA-CTG
1 --A-A------AT---ACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATC-G
**
24177683 AAATACCCTCGATGGGTAAATTACTGAAATACCC-CTGATGGGTAAATTA
1 AAATACCCTCGATGGGTAAATTACCAAAATACCCTC-GATGGGTAAATTA
24177732 CTAAAATACC
Statistics
Matches: 229, Mismatches: 26, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
51 1 0.00
52 180 0.79
54 1 0.00
55 3 0.01
61 3 0.01
62 1 0.00
63 1 0.00
64 39 0.17
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (52 bp):
AAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGGTAAATTATCG
Found at i:24177545 original size:78 final size:78
Alignment explanation
Indices: 24177411--24177742 Score: 337
Period size: 78 Copynumber: 4.1 Consensus size: 78
24177401 GTGTTGATCA
* ***
24177411 AAATACCCTCGATGGGTAAATTATCAAAATAAATTCGATGGGTAAATTATCGAAATACCTTCGAT
1 AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATACCTTCGAT
24177476 GGGTAAATTACCG
66 GGGTAAATTACCG
* * * *
24177489 CAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGAT
1 AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATACCTTCGAT
**
24177554 GGGTAAATTATTG
66 GGGTAAATTACCG
* * *
24177567 AAATACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCTTCGAT
1 AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATA-C--C--T
* *
24177632 GGGACCCTCGATGGGTAAAGTACTG
61 -------TCGATGGGTAAATTACCG
* *
24177657 AAATACCCTCGATAGGTAAATTA-CTGAAATACCCTCGATGGGTAAATTA-CTGAAATACC-CCT
1 AAATACCCTCGATGGGTAAATTATC-GAAATACCCTCGATGGGTAAATTATC-GAAATACCTTC-
**
24177719 GATGGGTAAATTACTA
63 GATGGGTAAATTACCG
24177735 AAATACCC
1 AAATACCC
24177743 CAAAAGGGTA
Statistics
Matches: 214, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
77 1 0.00
78 141 0.66
79 1 0.00
81 1 0.00
87 1 0.00
89 3 0.01
90 66 0.31
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (78 bp):
AAATACCCTCGATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTATCGAAATACCTTCGAT
GGGTAAATTACCG
Found at i:24177651 original size:38 final size:38
Alignment explanation
Indices: 24177597--24177669 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
24177587 TTATCGAAAT
*
24177597 ACCCTCGATGGATAAAGTA-TCGAAATACCTTCGATGGG
1 ACCCTCGATGGATAAAGTACT-GAAATACCCTCGATGGG
*
24177635 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGAT
1 ACCCTCGATGGATAAAGTACTGAAATACCCTCGAT
24177670 AGGTAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (38 bp):
ACCCTCGATGGATAAAGTACTGAAATACCCTCGATGGG
Found at i:24177686 original size:64 final size:64
Alignment explanation
Indices: 24177571--24177698 Score: 172
Period size: 64 Copynumber: 2.0 Consensus size: 64
24177561 TTATTGAAAT
* * *
24177571 ACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCTTCGATGGG
1 ACCCTCGATGGGTAAAGTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCCTCGATGGG
*
24177635 ACCCTCGATGGGTAAAGTA-CTGAAATACCCTCGATAGG-TAAATTA-CTGAAATACCCTCGATG
1 ACCCTCGATGGGTAAAGTATC-GAAATACCCTCGAT-GGATAAAGTATC-GAAATACCCTCGATG
24177697 GG
63 GG
24177699 TAAATTACTG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
63 2 0.04
64 53 0.93
65 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (64 bp):
ACCCTCGATGGGTAAAGTATCGAAATACCCTCGATGGATAAAGTATCGAAATACCCTCGATGGG
Found at i:24177712 original size:90 final size:90
Alignment explanation
Indices: 24177545--24177715 Score: 265
Period size: 90 Copynumber: 1.9 Consensus size: 90
24177535 TTACCAAAAT
* * *
24177545 ACCCTCGATGGGTAAATTATTGAAATACCCTCGATTGGTAAATTATCGAAATACCCTCGATGGAT
1 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTATCGAAATACCCTCGATGGAT
24177610 AAAGTATCGAAATACCTTCGATGGG
66 AAAGTATCGAAATACCTTCGATGGG
*
24177635 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTA-CTGAAATACCCTCGATGGG
1 ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTATC-GAAATACCCTCGATGGA
*
24177699 TAAATTA-CTGAAATACC
65 TAAAGTATC-GAAATACC
24177716 CCTGATGGGT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
89 2 0.03
90 72 0.97
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (90 bp):
ACCCTCGATGGGTAAAGTACTGAAATACCCTCGATAGGTAAATTATCGAAATACCCTCGATGGAT
AAAGTATCGAAATACCTTCGATGGG
Done.