Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003162.1 Hibiscus syriacus cultivar Beakdansim tig00006655_pilon, whole genome shotgun sequence
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: 162325
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:336 original size:21 final size:20
Alignment explanation
Indices: 296--336 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
286 TTCTGGGTTG
*
296 TGTGCATCGATGCATCTCAA
1 TGTGCATCAATGCATCTCAA
*
316 TGTGTATCAATGCACTCTCAA
1 TGTGCATCAATGCA-TCTCAA
337 ATAAATGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTGCATCAATGCATCTCAA
Found at i:987 original size:17 final size:20
Alignment explanation
Indices: 951--988 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
941 TATAAGTGTT
951 ATATGAAATGTGACTATGTG
1 ATATGAAATGTGACTATGTG
971 ATATG-AATG-GA-TATGTG
1 ATATGAAATGTGACTATGTG
988 A
1 A
989 ACATAAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 4 0.22
20 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (20 bp):
ATATGAAATGTGACTATGTG
Found at i:1386 original size:31 final size:32
Alignment explanation
Indices: 1305--1407 Score: 88
Period size: 31 Copynumber: 3.3 Consensus size: 32
1295 GAGGGTTTAA
* *
1305 CTATGTTCTACGGAACATATGGGCAGAATTAC
1 CTATGTTCTAAGGAACATATGGACAGAATTAC
* * *
1337 CTATG-TCTTTA-GAGACATATGGATAGTA-TAC
1 CTATGTTC-TAAGGA-ACATATGGACAGAATTAC
* *
1368 CTATGTTCTAAGGAACATATGAACA-ATTTAC
1 CTATGTTCTAAGGAACATATGGACAGAATTAC
*
1399 CTAGGTTCT
1 CTATGTTCT
1408 TCGGGACCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
31 34 0.62
32 21 0.38
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (32 bp):
CTATGTTCTAAGGAACATATGGACAGAATTAC
Found at i:2356 original size:17 final size:17
Alignment explanation
Indices: 2334--2412 Score: 72
Period size: 17 Copynumber: 4.7 Consensus size: 17
2324 GGGTGTTACA
* *
2334 CGACCCGTTGACTGACC
1 CGACCCATTGACTGAAC
*
2351 CGACCCATTGACTAAAC
1 CGACCCATTGACTGAAC
* * *
2368 CAACTCGTTGACT-AAC
1 CGACCCATTGACTGAAC
*
2384 CGACCCATTGA-TCGATC
1 CGACCCATTGACT-GAAC
2401 CGACCCATTGAC
1 CGACCCATTGAC
2413 CTTGACAGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
15 1 0.02
16 11 0.22
17 37 0.76
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.20
Consensus pattern (17 bp):
CGACCCATTGACTGAAC
Found at i:6861 original size:26 final size:27
Alignment explanation
Indices: 6830--6888 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
6820 AATTTTCAAG
6830 TTTTCTTTTA-TATTTTCAAAA-ATAGT
1 TTTTCTTTTATTATTTTCAAAATA-AGT
6856 TTTTC-TTTATTATTTTCAAAATAAGT
1 TTTTCTTTTATTATTTTCAAAATAAGT
6882 TTTTCTT
1 TTTTCTT
6889 CTACTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 4 0.13
26 24 0.80
27 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (27 bp):
TTTTCTTTTATTATTTTCAAAATAAGT
Found at i:17761 original size:32 final size:32
Alignment explanation
Indices: 17704--17805 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 32
17694 GATCAATTAT
* * * *
17704 TTTTCGGTTCAGATCAATATTAGATCGATTGA
1 TTTTCGGGTCGGATTAATATAAGATCGATTGA
* *
17736 TTTTTGGGTCGGATTAATATAAGATCGGTTAGA
1 TTTTCGGGTCGGATTAATATAAGATCGATT-GA
* *
17769 -TTTCGGGTCGGGTTAATATCAGATCGATTGA
1 TTTTCGGGTCGGATTAATATAAGATCGATTGA
17800 TTTTCG
1 TTTTCG
17806 ATTTGGGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
31 2 0.03
32 54 0.93
33 2 0.03
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.40
Consensus pattern (32 bp):
TTTTCGGGTCGGATTAATATAAGATCGATTGA
Found at i:18030 original size:32 final size:32
Alignment explanation
Indices: 17994--18054 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
17984 TTGCTTTCAT
* *
17994 TTCGGATTAATTTTGGA-TCGAGTTAAATTCGG
1 TTCGGATTAA-ATTCGATTCGAGTTAAATTCGG
*
18026 TTCGGGTTAAATTCGATTCGAGTTAAATT
1 TTCGGATTAAATTCGATTCGAGTTAAATT
18055 GGATATTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (32 bp):
TTCGGATTAAATTCGATTCGAGTTAAATTCGG
Found at i:18034 original size:16 final size:16
Alignment explanation
Indices: 18011--18054 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
18001 TAATTTTGGA
*
18011 TCGAGTTAAATTCGGT
1 TCGAGTTAAATTCGAT
*
18027 TCGGGTTAAATTCGAT
1 TCGAGTTAAATTCGAT
18043 TCGAGTTAAATT
1 TCGAGTTAAATT
18055 GGATATTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (16 bp):
TCGAGTTAAATTCGAT
Found at i:18360 original size:21 final size:21
Alignment explanation
Indices: 18319--18360 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18309 TAATAATAGA
* *
18319 ATATGTTTAATTACGCTTAAT
1 ATATATTTAATTACACTTAAT
18340 ATATATTTAA-TACACTATAAT
1 ATATATTTAATTACACT-TAAT
18361 TTCTTTACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (21 bp):
ATATATTTAATTACACTTAAT
Found at i:23666 original size:33 final size:35
Alignment explanation
Indices: 23589--23675 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 35
23579 ACGTTTAGTC
* ** *
23589 CAATTCACGTTTTACGTGCATTTTAACCATAGTCA
1 CAATTTACGTTTTATATGCATTTTAACCATAGACA
*
23624 -AATTTACGTTTTATATGCATTTTAGCC-TA-ACA
1 CAATTTACGTTTTATATGCATTTTAACCATAGACA
23656 CAATTTACGTTTTATATGCA
1 CAATTTACGTTTTATATGCA
23676 ATGAAGTCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.04
33 21 0.46
34 23 0.50
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.41
Consensus pattern (35 bp):
CAATTTACGTTTTATATGCATTTTAACCATAGACA
Found at i:24270 original size:42 final size:42
Alignment explanation
Indices: 24204--24317 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
24194 ATATTGAATA
24204 TTATTGATGTTGATTT-TATTTAGACTTATTAAAACTTATTAGTG
1 TTATTG-TGTT-ATTTAT-TTTAGACTTATTAAAACTTATTAGTG
* *
24248 TTATTGTGTTATTTATTTTAGACTTATTGAGACTTATTAGTG
1 TTATTGTGTTATTTATTTTAGACTTATTAAAACTTATTAGTG
*
24290 TTATGGTGTTATTTATTTTAGACTTATT
1 TTATTGTGTTATTTATTTTAGACTTATT
24318 GCGACTTAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
42 55 0.83
43 5 0.08
44 6 0.09
ACGTcount: A:0.25, C:0.04, G:0.15, T:0.55
Consensus pattern (42 bp):
TTATTGTGTTATTTATTTTAGACTTATTAAAACTTATTAGTG
Found at i:24318 original size:42 final size:42
Alignment explanation
Indices: 24218--24325 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
24208 TGATGTTGAT
* * *
24218 TTTA-TTTAGACTTATTAAAACTTATTAGTGTTATTGTGTTA
1 TTTATTTTAGACTTATTGAGACTTATTAGTGTTATGGTGTTA
24259 TTTATTTTAGACTTATTGAGACTTATTAGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTATTAGTGTTATGGTGTTA
*
24301 TTTATTTTAGACTTATTGCGACTTA
1 TTTATTTTAGACTTATTGAGACTTA
24326 ATGATGTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 4 0.06
42 58 0.94
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (42 bp):
TTTATTTTAGACTTATTGAGACTTATTAGTGTTATGGTGTTA
Found at i:25038 original size:18 final size:19
Alignment explanation
Indices: 25005--25041 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
24995 AGTTTGAACT
25005 TAAAATATAGATTTAATATA
1 TAAAATATA-ATTTAATATA
25025 TAAAATAT-ATTTAATAT
1 TAAAATATAATTTAATAT
25042 TTTGGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TAAAATATAATTTAATATA
Found at i:32419 original size:17 final size:17
Alignment explanation
Indices: 32397--32431 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
32387 CTTTTTGCAA
32397 AGCGTGTGACAGATGCC
1 AGCGTGTGACAGATGCC
32414 AGCGTGTGACAGATGCC
1 AGCGTGTGACAGATGCC
32431 A
1 A
32432 ACGCACTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.23, G:0.34, T:0.17
Consensus pattern (17 bp):
AGCGTGTGACAGATGCC
Found at i:33769 original size:21 final size:21
Alignment explanation
Indices: 33740--33780 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33730 ACGTTTCCAC
*
33740 CTTTCACTTTCTATCTTTTTA
1 CTTTCACTTTCTATCATTTTA
*
33761 CTTTTACTTTCTATCATTTT
1 CTTTCACTTTCTATCATTTT
33781 CTTCTCCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (21 bp):
CTTTCACTTTCTATCATTTTA
Found at i:42877 original size:19 final size:19
Alignment explanation
Indices: 42853--42917 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
42843 AAGTTTGAAA
42853 ACGTCCCTTATAATTCAAC
1 ACGTCCCTTATAATTCAAC
* *
42872 ACGTCCC-T-T-ATTGAAA
1 ACGTCCCTTATAATTCAAC
*
42888 ACGTTCCTTATAATTCAAC
1 ACGTCCCTTATAATTCAAC
*
42907 ATGTCCCTTAT
1 ACGTCCCTTAT
42918 TGAAAACGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
16 11 0.31
17 2 0.06
18 2 0.06
19 21 0.58
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (19 bp):
ACGTCCCTTATAATTCAAC
Found at i:42897 original size:35 final size:35
Alignment explanation
Indices: 42847--42927 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
42837 TGTCCAAAGT
*
42847 TTGAAAACGTCCCTTATAATTCAACACGTCCCTTA
1 TTGAAAACGTTCCTTATAATTCAACACGTCCCTTA
*
42882 TTGAAAACGTTCCTTATAATTCAACATGTCCCTTA
1 TTGAAAACGTTCCTTATAATTCAACACGTCCCTTA
42917 TTGAAAACGTT
1 TTGAAAACGTT
42928 TGCTAATGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (35 bp):
TTGAAAACGTTCCTTATAATTCAACACGTCCCTTA
Found at i:45648 original size:19 final size:20
Alignment explanation
Indices: 45623--45713 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
45613 CTTATTTTGG
45623 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
45643 -TTTTTCACTATCGCAACAACAC
1 ATTTTTCACTATCG---CAACAC
*
45665 ATTTTTCAAACTCTCGCAACAC
1 ATTTTTC--ACTATCGCAACAC
*
45687 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
45706 ATTTTTCA
1 ATTTTTCA
45714 AAATCGCGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 26 0.43
20 5 0.08
21 4 0.07
22 13 0.22
23 6 0.10
25 6 0.10
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:45685 original size:44 final size:41
Alignment explanation
Indices: 45634--45715 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
45624 TTTTTCACTA
* *
45634 TCGCAACACTTTTTCACTATCGCAACAACACATTTTTCAAACTC
1 TCGCAACACATTTTAACTATCG---CAACACATTTTTCAAACTC
45678 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
1 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
45716 ATCGCGTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 16 0.44
44 20 0.56
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (41 bp):
TCGCAACACATTTTAACTATCGCAACACATTTTTCAAACTC
Found at i:47026 original size:18 final size:18
Alignment explanation
Indices: 47003--47040 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
46993 AATAACCACA
47003 ATTTCCTCATTAAGAGGG
1 ATTTCCTCATTAAGAGGG
*
47021 ATTTCCTCATTCAGAGGG
1 ATTTCCTCATTAAGAGGG
47039 AT
1 AT
47041 ATTTTAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (18 bp):
ATTTCCTCATTAAGAGGG
Found at i:65052 original size:24 final size:24
Alignment explanation
Indices: 64989--65055 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
64979 GCACTGCATG
64989 TATAAATATAACAATAACAGTAAC
1 TATAAATATAACAATAACAGTAAC
* * *
65013 TAAAAAGTA-AAAAATAACAGT-TC
1 TATAAA-TATAACAATAACAGTAAC
*
65036 TTTTAAATATAACAATAACA
1 -TATAAATATAACAATAACA
65056 CAAAAAACAC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
23 3 0.09
24 29 0.85
25 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.27
Consensus pattern (24 bp):
TATAAATATAACAATAACAGTAAC
Found at i:67916 original size:330 final size:330
Alignment explanation
Indices: 66908--68606 Score: 2124
Period size: 330 Copynumber: 5.2 Consensus size: 330
66898 CAATTCTTTG
* * *** * * * *
66908 AAGGTCTCTGACATCCAAAGAATGATTGAAGAAACACAAGCCCTTAAGCCCGATGAAAGGCAAAG
1 AAGGTCTCAGACATCCAAAGTATGATTGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAG
** * * * * **
66973 GCTCTCAGGAAGCCACTACT-AATGATCGAAGCAACACAAACCCACAAGCCTCGCCAATGGAGAA
66 GCTCTCAGGCGGCTACTA-TGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAA
* * * * * * *
67037 AGCTCTTGGGTGGCTATTGTGAATGTTTTGACAAACAAGTCATTGGATTTTTCATCATCAACCAA
130 AGCTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAA
* * * * * * * * *
67102 ATCGTAAAAAAACACGAATACAATGATGTTAATAGATTCTAATTACACGCAATATTGTAATATCA
195 ACCATTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAACACTATAATAACA
* * * * * * * * ** *
67167 TGCAAGTATAAAGTACTAAATACAGTTGAAGCCATTAAAAATGCAAAAACGATTTAAAATGCAGC
260 TGCAAGTATAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGG
67232 TCTTAT
325 TCTTAT
* *
67238 AAGGTCTCAAACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAG
1 AAGGTCTCAGACATCCAAAGTATGATTGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAG
67303 GCTCTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAAA
66 GCTCTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAAA
*
67368 ACTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGA-TT-T-ATCATCAACCAAA
131 GCTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAA
* * * * *
67430 CCATTAAAAAACATGAATACATTAATGTTAACAGATTCTAATTACATGCAAAACTATAATAATAT
196 CCATTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAACACTATAATAACAT
* * *
67495 GCAGGTATAGAATACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACAAAGGT
261 GCAAGTATAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGT
67560 CTTAT
326 CTTAT
* * * * *
67565 AAGGTCTCAAATATCCAAAGTATGATTGAAGCAGCACAGGCCCTTAAGCCCCGTAAAAGGCAAAG
1 AAGGTCTCAGACATCCAAAGTATGATTGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAG
* * * *
67630 GCTTTCTGGCGGCTACTACGAATGATTGAAGCAGCACAAGTCCACAAGCCTCGCCAACAGAGAAA
66 GCTCTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAAA
* * *
67695 GGTCTTGGGCGGCCACTCTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAA
131 GCTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAA
*
67760 CCATTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAATACTATAATAACAT
196 CCATTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAACACTATAATAACAT
* * *
67825 GCAAATATAGAGTACTAAATCAAATAGAAGCCATTAAAAATACGAAAATAATTCAAAACACAGGT
261 GCAAGTATAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGT
67890 CTTAT
326 CTTAT
* * * *
67895 AAAGTCTCAGACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGACCGGTAAAAAGCAAAG
1 AAGGTCTCAGACATCCAAAGTATGATTGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAG
* * * * * ** *
67960 GCTCTCATGCGGTTACTATGAATGATTAAAGCAACACAAGCCCACAAGCCTTGCCAATGGAGAGA
66 GCTCTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAAA
*
68025 G--CT----------C--T-AA----TT-ACAAACAAGGCTTTGGATTTGTCATCATCAACCAAA
131 GCTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAA
* * * * *
68070 CCA-TAAAAAACACAAATACAAAT-ATGTTAACAGCTTCTAATTACATGTAACACTAAAATAGCA
196 CCATTAAAAAACACGAATAC-AATGATGTTAACAGATTCTAATTACATGCAACACTATAATAACA
68133 TGCTAA-TATAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAG
260 TGC-AAGTATAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAG
68197 GTCTTAT
324 GTCTTAT
* * *
68204 AAAGTCTCAGACATCCAAAGTATGATTGAAGCGGCATAGGCCCTCAAGACCGGTAAAAGGCAAAG
1 AAGGTCTCAGACATCCAAAGTATGATTGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAG
* * * *
68269 GCTCTCGGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTTGCCAACGGAGAGA
66 GCTCTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAAA
* * *
68334 GCTCTCGGACGACCACTGTGAATGTTTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAA
131 GCTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAA
* * ** * * * *
68399 CCA-TAAAAAACACAAATACAAAGATGTTAACACCTTCTAATTATATGTAACACTAAAATAGCAT
196 CCATTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAACACTATAATAACAT
* ** *
68463 GCAAGTATAGAGTACTAAATAAAATAGAAGCCATTTAAAATACGAAAATGATTTGAAACATAGGT
261 GCAAGTATAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGT
68528 CTTAT
326 CTTAT
* * * *
68533 AAGGTTTCAGACATCCAAAGTATGATTGAAGCGGCACATGCCCTTAAGCCCGGTGAAAGG-AGAA
1 AAGGTCTCAGACATCCAAAGTATGATTGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCA-AA
68597 GGCTCTCAGG
65 GGCTCTCAGG
68607 TAGCCACTAC
Statistics
Matches: 1209, Mismatches: 131, Indels: 59
0.86 0.09 0.04
Matches are distributed among these distances:
309 238 0.20
310 43 0.04
311 4 0.00
315 2 0.00
316 1 0.00
318 1 0.00
321 1 0.00
323 1 0.00
324 2 0.00
327 284 0.23
328 12 0.01
329 225 0.19
330 395 0.33
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (330 bp):
AAGGTCTCAGACATCCAAAGTATGATTGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAG
GCTCTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAAA
GCTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAA
CCATTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAACACTATAATAACAT
GCAAGTATAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGT
CTTAT
Found at i:68288 original size:309 final size:314
Alignment explanation
Indices: 67063--68606 Score: 1629
Period size: 327 Copynumber: 4.8 Consensus size: 314
67053 TTGTGAATGT
* * * * * *
67063 TTTGACAAACAAGTCATTGGATTTTTCATCATCAACCAAATCGTAAAAAAACACGAATAC-AATG
1 TTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCAT-AAAAAACACAAATACAAAT-
* * * * * * ** * * * *
67127 ATGTTAATAGATTCTAATTACACGCAATATTGTAATATCATGCAAGTATAAAGTACTAAATACAG
64 ATGTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGCAA-TATAGAGTACTAAATAAAA
* * * * * ** * * *
67192 TTGAAGCCATTAAAAATGCAAAAACGATTTAAAATGCAGCTCTTATAAGGTCTCAAACATCCAAA
128 TAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAAAGTCTCAGACATCCAAA
* *
67257 GTATGAATGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCAAAGGCTCTCAGGCGGCTACTAT
193 GTATGATTGAAGCGGCACAGGCCCTCAAGACCGGTAAAAGGCAAAGGCTCTCAGGCGGCTACTAT
* * * * * *
67322 GAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAGAAAACTCTCGGGCGGCCACTGT
258 GAATGATTAAAGCAACACAAGCCCACAAGCCTTGCCAACGGAGAGAGC-CT--------C-C-GT
67387 GAA
312 GAA
* **
67390 TGTTTTGACAAACAAGCCTTTGGA-TT-T-ATCATCAACCAAACCATTAAAAAACATGAATAC-A
1 ---TTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCA-TAAAAAACACAAATACAA
* * * * * ** * *
67451 TTAATGTTAACAGATTCTAATTACATGCAAAACTATAATAATATGCAGGTATAGAATACTAAATA
62 AT-ATGTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGCA-ATATAGAGTACTAAATA
* * * *
67516 AAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACAAAGGTCTTATAAGGTCTCAAATATCC
125 AAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAAAGTCTCAGACATCC
* * * * * *
67581 AAAGTATGATTGAAGCAGCACAGGCCCTTAAGCCCCGTAAAAGGCAAAGGCTTTCTGGCGGCTAC
190 AAAGTATGATTGAAGCGGCACAGGCCCTCAAGACCGGTAAAAGGCAAAGGCTCTCAGGCGGCTAC
* * * * * * * *
67646 TACGAATGATTGAAGCAGCACAAGTCCACAAGCCTCGCCAACAGAGAAAGGTCTTGGGCGGCCAC
255 TATGAATGATTAAAGCAACACAAGCCCACAAGCCTTGCCAACGGAGAGA-G-C-----C--TC-C
*
67711 TCTGAA
310 -GTGAA
* *
67717 TGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAACCATTAAAAAACACGAATAC-A
1 ---TTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCA-TAAAAAACACAAATACAA
* * * * * *
67781 ATGATGTTAACAGATTCTAATTACATGCAATACTATAATAACATGCAAATATAGAGTACTAAATC
62 AT-ATGTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGC-AATATAGAGTACTAAATA
*
67846 AAATAGAAGCCATTAAAAATACGAAAATAATTCAAAACACAGGTCTTATAAAGTCTCAGACATCC
125 AAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAAAGTCTCAGACATCC
* * * *
67911 AAAGTATGAATGAAGCGGCACAGGCCCTCAAGACCGGTAAAAAGCAAAGGCTCTCATGCGGTTAC
190 AAAGTATGATTGAAGCGGCACAGGCCCTCAAGACCGGTAAAAGGCAAAGGCTCTCAGGCGGCTAC
*
67976 TATGAATGATTAAAGCAACACAAGCCCACAAGCCTTGCCAATGGAGAGAG-CT-C-T-AA
255 TATGAATGATTAAAGCAACACAAGCCCACAAGCCTTGCCAACGGAGAGAGCCTCCGTGAA
68032 -TT-ACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCATAAAAAACACAAATACAAATAT
1 TTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCATAAAAAACACAAATACAAATAT
68095 GTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGCTAATATAGAGTACTAAATAAAATA
66 GTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGC-AATATAGAGTACTAAATAAAATA
68160 GAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAAAGTCTCAGACATCCAAAGT
130 GAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAAAGTCTCAGACATCCAAAGT
* *
68225 ATGATTGAAGCGGCATAGGCCCTCAAGACCGGTAAAAGGCAAAGGCTCTCGGGCGGCTACTATGA
195 ATGATTGAAGCGGCACAGGCCCTCAAGACCGGTAAAAGGCAAAGGCTCTCAGGCGGCTACTATGA
* *
68290 ATGATTGAAGCAGCACAAGCCCACAAGCCTTGCCAACGGAGAGAGCTCTCGGACGACCACTGTGA
260 ATGATTAAAGCAACACAAGCCCACAAGCCTTGCCAACGGAGAGAGC-CT--------C-C-GTGA
68355 A
314 A
68356 TGTTTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCATAAAAAACACAAATACAAA
1 ---TTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCATAAAAAACACAAATACAAA
* * *
68421 GATGTTAACACCTTCTAATTATATGTAACACTAAAATAGCATGCAAGTATAGAGTACTAAATAAA
63 TATGTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGCAA-TATAGAGTACTAAATAAA
* ** * * *
68486 ATAGAAGCCATTTAAAATACGAAAATGATTTGAAACATAGGTCTTATAAGGTTTCAGACATCCAA
127 ATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAAAGTCTCAGACATCCAA
* * * *
68551 AGTATGATTGAAGCGGCACATGCCCTTAAGCCCGGTGAAAGG-AGAAGGCTCTCAGG
192 AGTATGATTGAAGCGGCACAGGCCCTCAAGACCGGTAAAAGGCA-AAGGCTCTCAGG
68607 TAGCCACTAC
Statistics
Matches: 1070, Mismatches: 107, Indels: 75
0.85 0.09 0.06
Matches are distributed among these distances:
309 240 0.22
310 41 0.04
311 4 0.00
315 2 0.00
316 1 0.00
318 1 0.00
321 1 0.00
322 1 0.00
323 1 0.00
324 2 0.00
327 272 0.25
328 9 0.01
329 229 0.21
330 264 0.25
331 1 0.00
333 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (314 bp):
TTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCATAAAAAACACAAATACAAATAT
GTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGCAATATAGAGTACTAAATAAAATAG
AAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAAAGTCTCAGACATCCAAAGTA
TGATTGAAGCGGCACAGGCCCTCAAGACCGGTAAAAGGCAAAGGCTCTCAGGCGGCTACTATGAA
TGATTAAAGCAACACAAGCCCACAAGCCTTGCCAACGGAGAGAGCCTCCGTGAA
Found at i:68383 original size:639 final size:645
Alignment explanation
Indices: 66911--68606 Score: 2144
Period size: 657 Copynumber: 2.6 Consensus size: 645
66901 TTCTTTGAAG
* * * * * * *
66911 GTCTCTGACATCCAAAGAATGATTGAAGAAACACAAGCCCTTAAGCCCGATGAAAGGCAAAGGCT
1 GTCTCAGACATCCAAAGTATGATTGAAGCAGCACAGGCCCTTAAGCCCGGTAAAAGGCAAAGGCT
** * * * * *
66976 CTCAGGAAGCCACTACT-AATGATCGAAGCAACACAAACCCACAAGCCTCGCCAATGGAGAAAGC
66 CTCAGGCGGCTACTA-TGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACGGAGAAAGC
* * * * * * *
67040 TCTTGGGTGGCTATTGTGAATGTTTTGACAAACAAGTCATTGGATTTTTCATCATCAACCAAATC
130 TCTTGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAACC
* * * * * * *
67105 GTAAAAAAACACGAATACAATGATGTTAATAGATTCTAATTACACGCAATATTGTAATATCATGC
195 ATTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAATACTATAATAACATGC
* * * * * * ** *
67170 AAGTATAAAGTACTAAATACAGTTGAAGCCATTAAAAATGCAAAAACGATTTAAAATGCAGCTCT
260 AAGTATAGAGTACTAAATA-AATAGAAGCCATTAAAAATACGAAAATGATTTAAAACACAGGTCT
* *
67235 TATAAGGTCTCAAACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAGGCA
324 TATAAGGTCTCAGACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAAGCA
* *
67300 AAGGCTCTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACAGAG
389 AAGGCTCTCAGGCGGCTACTATGAATGATTAAAGCAACACAAGCCCACAAGCCTCGCCAACAGAG
* * *
67365 AAAACTCTCGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTATCATCAACCAAA
454 --AA----CGAGCAG-C-CTCTGAA---TTTGACAAACAAGCCTTTGGATTTATCATCAACCAAA
** * * *
67430 CCATTAAAAAACATGAATACATTAATGTTAACAGATTCTAATTACATGCAAAACTATAATAATAT
508 CCATTAAAAAACACAAATACAATAATGTTAACAGATTCTAATTACATGCAAAACTAAAATAACAT
*
67495 GCAGGTATAGAATACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACAAAGGT
573 GCAGATATAGAATACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACAAAGGT
*
67560 CTTATAAG
638 CTTATAAA
* * *
67568 GTCTCAAATATCCAAAGTATGATTGAAGCAGCACAGGCCCTTAAGCCCCGTAAAAGGCAAAGGCT
1 GTCTCAGACATCCAAAGTATGATTGAAGCAGCACAGGCCCTTAAGCCCGGTAAAAGGCAAAGGCT
* * * * * *
67633 TTCTGGCGGCTACTACGAATGATTGAAGCAGCACAAGTCCACAAGCCTCGCCAACAGAGAAAGGT
66 CTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACGGAGAAAGCT
*
67698 CTTGGGCGGCCACTCTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAACCA
131 CTTGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAACCA
67763 TTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAATACTATAATAACATGCA
196 TTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAATACTATAATAACATGCA
* * *
67828 AATATAGAGTACTAAATCAAATAGAAGCCATTAAAAATACGAAAATAATTCAAAACACAGGTCTT
261 AGTATAGAGTACTAAAT-AAATAGAAGCCATTAAAAATACGAAAATGATTTAAAACACAGGTCTT
* *
67893 ATAAAGTCTCAGACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGACCGGTAAAAAGCAA
325 ATAAGGTCTCAGACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAAGCAA
* * * *
67958 AGGCTCTCATGCGGTTACTATGAATGATTAAAGCAACACAAGCCCACAAGCCTTGCCAA-TG-G-
390 AGGCTCTCAGGCGGCTACTATGAATGATTAAAGCAACACAAGCCCACAAGCCTCGCCAACAGAGA
*
68020 A-GAG-AG-CTCT-AA-TT-ACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCA-TAAAA
455 ACGAGCAGCCTCTGAATTTGACAAACAAGCCTTTGGA-TT-T-ATCATCAACCAAACCATTAAAA
* * * *
68078 AACACAAATACAA-ATATGTTAACAGCTTCTAATTACATGTAACACTAAAATAGCATGCTA-ATA
517 AACACAAATACAATA-ATGTTAACAGATTCTAATTACATGCAAAACTAAAATAACATGC-AGATA
* *
68141 TAGAGTACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACACAGGTCTTATAA
580 TAGAATACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACAAAGGTCTTATAA
68206 A
645 A
* * * *
68207 GTCTCAGACATCCAAAGTATGATTGAAGCGGCATAGGCCCTCAAGACCGGTAAAAGGCAAAGGCT
1 GTCTCAGACATCCAAAGTATGATTGAAGCAGCACAGGCCCTTAAGCCCGGTAAAAGGCAAAGGCT
* * *
68272 CTCGGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTTGCCAACGGAGAGAGCT
66 CTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACGGAGAAAGCT
* * * *
68337 CTCGGACGACCACTGTGAATGTTTTGACAAACAAGGCTTTGGATTTGTCATCATCAACCAAACCA
131 CTTGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAACCA
* * ** * * * * *
68402 -TAAAAAACACAAATACAAAGATGTTAACACCTTCTAATTATATGTAACACTAAAATAGCATGCA
196 TTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAATACTATAATAACATGCA
* * *
68466 AGTATAGAGTACTAAATAAAATAGAAGCCATTTAAAATACGAAAATGATTTGAAACATAGGTCTT
261 AGTATAGAGTACTAAAT-AAATAGAAGCCATTAAAAATACGAAAATGATTTAAAACACAGGTCTT
* * * * * *
68531 ATAAGGTTTCAGACATCCAAAGTATGATTGAAGCGGCACATGCCCTTAAGCCCGGT-GAAAGGAG
325 ATAAGGTCTCAGACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAAGCA-
68595 AAGGCTCTCAGG
389 AAGGCTCTCAGG
68607 TAGCCACTAC
Statistics
Matches: 909, Mismatches: 122, Indels: 35
0.85 0.11 0.03
Matches are distributed among these distances:
637 21 0.02
638 179 0.20
639 293 0.32
640 17 0.02
642 2 0.00
643 3 0.00
646 1 0.00
647 2 0.00
652 1 0.00
655 1 0.00
656 1 0.00
657 387 0.43
658 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (645 bp):
GTCTCAGACATCCAAAGTATGATTGAAGCAGCACAGGCCCTTAAGCCCGGTAAAAGGCAAAGGCT
CTCAGGCGGCTACTATGAATGATTGAAGCAGCACAAGCCCACAAGCCTCGCCAACGGAGAAAGCT
CTTGGGCGGCCACTGTGAATGTTTTGACAAACAAGCCTTTGGATTTGTCATCATCAACCAAACCA
TTAAAAAACACGAATACAATGATGTTAACAGATTCTAATTACATGCAATACTATAATAACATGCA
AGTATAGAGTACTAAATAAATAGAAGCCATTAAAAATACGAAAATGATTTAAAACACAGGTCTTA
TAAGGTCTCAGACATCCAAAGTATGAATGAAGCGGCACAGGCCCTCAAGCCCGGTAAAAAGCAAA
GGCTCTCAGGCGGCTACTATGAATGATTAAAGCAACACAAGCCCACAAGCCTCGCCAACAGAGAA
CGAGCAGCCTCTGAATTTGACAAACAAGCCTTTGGATTTATCATCAACCAAACCATTAAAAAACA
CAAATACAATAATGTTAACAGATTCTAATTACATGCAAAACTAAAATAACATGCAGATATAGAAT
ACTAAATAAAATAGAAGCCATTAAAAATACGAAAATGATTCAAAACAAAGGTCTTATAAA
Found at i:71101 original size:21 final size:21
Alignment explanation
Indices: 71075--71131 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
71065 TAAATCAATA
71075 GATTTTTCAAGAAGAATTGTT
1 GATTTTTCAAGAAGAATTGTT
71096 GATTTTTCAAGAAGAATTGTT
1 GATTTTTCAAGAAGAATTGTT
71117 GATTTTTCAAGAAGA
1 GATTTTTCAAGAAGA
71132 TGGACGTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
GATTTTTCAAGAAGAATTGTT
Found at i:71901 original size:21 final size:21
Alignment explanation
Indices: 71875--71923 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
71865 ATCTAATATT
71875 ACAATGTCAAAATTAGGTGCA
1 ACAATGTCAAAATTAGGTGCA
71896 ACAATGTCAAAATTAGGTGCA
1 ACAATGTCAAAATTAGGTGCA
*
71917 ATAATGT
1 ACAATGT
71924 TTGAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (21 bp):
ACAATGTCAAAATTAGGTGCA
Found at i:76562 original size:22 final size:22
Alignment explanation
Indices: 76534--76575 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
76524 TTGCAATATC
76534 AAAATTAGGTGCAACAATGTCA
1 AAAATTAGGTGCAACAATGTCA
*
76556 AAAATTAGGTGCAATAATGT
1 AAAATTAGGTGCAACAATGT
76576 TTGAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (22 bp):
AAAATTAGGTGCAACAATGTCA
Found at i:80356 original size:29 final size:29
Alignment explanation
Indices: 80314--80398 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
80304 AACCCAACCA
*
80314 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACGCCCAGCGACCTCC
* * **
80343 TAGGTCGCCATGCACGCCCGGCGACATGG
1 TAGGTCGCCATGCACGCCCAGCGACCTCC
*
80372 TAGGTCGCCATGCACGCCCCGCGACCT
1 TAGGTCGCCATGCACGCCCAGCGACCT
80399 TGTCTTTGGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.16, C:0.41, G:0.27, T:0.15
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACCTCC
Found at i:80805 original size:17 final size:17
Alignment explanation
Indices: 80783--80818 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
80773 TTATTAGTTT
80783 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
80800 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
80817 GT
1 GT
80819 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GTTAGTTTAGGGTTAGG
Found at i:81021 original size:30 final size:30
Alignment explanation
Indices: 80958--81057 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
80948 AATTAGTTTT
* * *
80958 TTTAGTAG-TGAA-TTATAATTAAAAAATAT
1 TTTATTAGTTGAAGTTAT-ATTAAAGAATAG
*
80987 TTTATTAGTTTAAGTTATATTAAAGAATAG
1 TTTATTAGTTGAAGTTATATTAAAGAATAG
81017 TTTATTAGTTGAAGTTATATTAAAGAATAG
1 TTTATTAGTTGAAGTTATATTAAAGAATAG
81047 TTTATTAGTTG
1 TTTATTAGTTG
81058 TTTAAAGAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.11
30 53 0.83
31 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (30 bp):
TTTATTAGTTGAAGTTATATTAAAGAATAG
Found at i:81052 original size:15 final size:16
Alignment explanation
Indices: 80999--81053 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
80989 TATTAGTTTA
80999 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
**
81015 AGTT-TATTAGTTG-A-
1 AGTTATATTA-AAGAAT
81029 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
81045 AGTT-TATTA
1 AGTTATATTA
81054 GTTGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:81138 original size:15 final size:16
Alignment explanation
Indices: 81110--81143 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
81100 GTTTGTTACT
81110 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
81126 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
81141 TTA
1 TTA
81144 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:83509 original size:59 final size:59
Alignment explanation
Indices: 83373--83509 Score: 149
Period size: 59 Copynumber: 2.3 Consensus size: 59
83363 AATATTTAGT
* * *
83373 AATTCGACTATTTTTAAATCATTAGTATCAAATAATTAAATATTAATAATAAATCATTATT
1 AATTCAACTA-TTATAAATCATTAGTATCAAATAATTAAATATT-ATAATAAATCATTATA
*
83434 AA-T-AA-TAATTAGTAAATCATTAGTATCAAATCATTAAATATT-TAA-AAATCATTAATA
1 AATTCAACT-ATTA-TAAATCATTAGTATCAAATAATTAAATATTATAATAAATCATT-ATA
83491 AATTCAACTATGTATAAAT
1 AATTCAACTAT-TATAAAT
83510 TTAAACTCGA
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
56 8 0.12
57 7 0.11
58 4 0.06
59 40 0.62
60 4 0.06
61 2 0.03
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (59 bp):
AATTCAACTATTATAAATCATTAGTATCAAATAATTAAATATTATAATAAATCATTATA
Found at i:83593 original size:14 final size:14
Alignment explanation
Indices: 83574--83614 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
83564 TAGTAATAAT
83574 TATTAAATCATTAA
1 TATTAAATCATTAA
* *
83588 TATTAAATTATTAT
1 TATTAAATCATTAA
*
83602 TATAAAATCATTA
1 TATTAAATCATTA
83615 CTAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
TATTAAATCATTAA
Found at i:83652 original size:11 final size:11
Alignment explanation
Indices: 83572--83759 Score: 88
Period size: 11 Copynumber: 15.0 Consensus size: 11
83562 ATTAGTAATA
83572 ATTATTAAATC
1 ATTATTAAATC
*
83583 ATTAATATTAAATT
1 A-T--TATTAAATC
83597 ATTATTATAAAATC
1 ATTA-T-T-AAATC
* *
83611 ATTACTAAATA
1 ATTATTAAATC
* *
83622 ATTACTAAATA
1 ATTATTAAATC
83633 ATTACTATTAAATC
1 A-T--TATTAAATC
*
83647 ATTATTATCATTATT
1 ATTATTA--A--ATC
83662 ATTATTAAATC
1 ATTATTAAATC
*
83673 ATTATTATCATTATT
1 ATTATTA--A--ATC
83688 ATTATTAAATC
1 ATTATTAAATC
*
83699 ATTATTATCATTATT
1 ATTATTA--A--ATC
83714 ATTATTAAATTC
1 ATTATTAAA-TC
83726 ATTATTAAATC
1 ATTATTAAATC
*
83737 ATTATTTAAATT
1 ATTA-TTAAATC
83749 ATTATTAAATC
1 ATTATTAAATC
83760 CTTTTTATGG
Statistics
Matches: 140, Mismatches: 14, Indels: 46
0.70 0.07 0.23
Matches are distributed among these distances:
11 55 0.39
12 24 0.17
13 9 0.06
14 25 0.18
15 27 0.19
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:83658 original size:9 final size:9
Alignment explanation
Indices: 83644--83742 Score: 96
Period size: 9 Copynumber: 11.0 Consensus size: 9
83634 TTACTATTAA
83644 ATCATTATT
1 ATCATTATT
83653 ATCATTATT
1 ATCATTATT
* *
83662 ATTATTA-A
1 ATCATTATT
83670 ATCATTATT
1 ATCATTATT
83679 ATCATTATT
1 ATCATTATT
* *
83688 ATTATTA-A
1 ATCATTATT
83696 ATCATTATT
1 ATCATTATT
83705 ATCATTATT
1 ATCATTATT
* *
83714 ATTATTA-A
1 ATCATTATT
83722 ATTCATTATT
1 A-TCATTATT
83732 AAATCATTATT
1 --ATCATTATT
83743 TAAATTATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
8 13 0.18
9 50 0.69
11 8 0.11
12 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (9 bp):
ATCATTATT
Found at i:83680 original size:29 final size:26
Alignment explanation
Indices: 83633--83742 Score: 184
Period size: 26 Copynumber: 4.1 Consensus size: 26
83623 TTACTAAATA
*
83633 ATTACTATTAAATCATTATTATCATT
1 ATTATTATTAAATCATTATTATCATT
83659 ATTATTATTAAATCATTATTATCATT
1 ATTATTATTAAATCATTATTATCATT
83685 ATTATTATTAAATCATTATTATCATT
1 ATTATTATTAAATCATTATTATCATT
83711 ATTATTATTAAATTCATTATTAAATCATT
1 ATTATTATTAAA-TCATTATT--ATCATT
83740 ATT
1 ATT
83743 TAAATTATTA
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
26 63 0.79
27 8 0.10
29 9 0.11
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATCATT
Found at i:83732 original size:3 final size:3
Alignment explanation
Indices: 83647--83720 Score: 71
Period size: 3 Copynumber: 25.3 Consensus size: 3
83637 CTATTAAATC
* * * *
83647 ATT ATT ATC ATT ATT ATT ATT A-A ATC ATT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
83694 A-A ATC ATT ATT ATC ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
83721 AATTCATTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:83755 original size:26 final size:25
Alignment explanation
Indices: 83588--83755 Score: 110
Period size: 26 Copynumber: 6.6 Consensus size: 25
83578 AAATCATTAA
*
83588 TATTAAATTATTATTATAAAATCAT
1 TATTAAATTATTATTATCAAATCAT
* * * * * *
83613 TACTAAATAATTACTA-AATAATTAC
1 TATTAAATTATTATTATCA-AATCAT
* * *
83638 TATTAAATCATTATTATCATTATTAT
1 TATTAAATTATTATTATCA-AATCAT
* * *
83664 TATTAAATCATTATTATCATTATTAT
1 TATTAAATTATTATTATCA-AATCAT
* * *
83690 TATTAAATCATTATTATCATTATTAT
1 TATTAAATTATTATTATCA-AATCAT
83716 TATTAAATTCATTA-T-T-AAATCAT
1 TATTAAATT-ATTATTATCAAATCAT
83739 TATTTAAATTATTATTA
1 TA-TTAAATTATTATTA
83756 AATCCTTTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
23 10 0.08
24 11 0.09
25 31 0.25
26 67 0.54
27 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAAATTATTATTATCAAATCAT
Found at i:83959 original size:17 final size:18
Alignment explanation
Indices: 83937--83971 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
83927 TATGAGTAAA
83937 TCATTATTATT-ATAATT
1 TCATTATTATTAATAATT
83954 TCATTATTATTAATAATT
1 TCATTATTATTAATAATT
83972 ACTTTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTATTATTAATAATT
Found at i:83978 original size:23 final size:24
Alignment explanation
Indices: 83952--83996 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
83942 ATTATTATAA
* *
83952 TTTCATTATTAT-TAATAATTACT
1 TTTCATTACTATCAAATAATTACT
83975 TTTCATTACTATCAAATAATTA
1 TTTCATTACTATCAAATAATTA
83997 AATATTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTCATTACTATCAAATAATTACT
Found at i:84036 original size:49 final size:49
Alignment explanation
Indices: 83977--84205 Score: 422
Period size: 49 Copynumber: 4.7 Consensus size: 49
83967 TAATTACTTT
* *
83977 TCATTACTATCAAATAATTAAATATTAATAATAATTTTATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
*
84026 TCATTACTATCAAATAATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
*
84075 TCATTACTATCGAATCATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
84124 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
84173 TCATTACTATCAAATCATTAAATATTAATAATA
1 TCATTACTATCAAATCATTAAATATTAATAATA
84206 GATGGGTGCC
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 176 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (49 bp):
TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
Found at i:84114 original size:22 final size:22
Alignment explanation
Indices: 84089--84165 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
84079 TACTATCGAA
84089 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
* *
84111 TCATTATTACTAATCATTACT-ATCAA-A
1 TC---ATTA--AAT-ATTAATAAT-AATT
84138 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
84160 TCATTA
1 TCATTA
84166 TTACTAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 7 0.17
22 13 0.31
24 4 0.10
25 4 0.10
27 7 0.17
28 7 0.17
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTAAATATTAATAATAATT
Found at i:87468 original size:15 final size:16
Alignment explanation
Indices: 87448--87477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87438 AACAACACTA
87448 AATA-TTTTTAAACAC
1 AATATTTTTTAAACAC
87463 AATATTTTTTAAACA
1 AATATTTTTTAAACA
87478 AAAAATTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATTTTTTAAACAC
Found at i:88049 original size:21 final size:21
Alignment explanation
Indices: 88016--88064 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
88006 AATATAATAT
88016 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
88037 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
88058 ATTAACT
1 A-TAACT
88065 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:88646 original size:29 final size:30
Alignment explanation
Indices: 88604--88663 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
88594 CCACAGCTTG
*
88604 GTCGCTGGGACTCCATGGCGACCTAC-CAT
1 GTCGCCGGGACTCCATGGCGACCTACACAT
88633 GTCGCCGGGACTCCATGGCGACCTACACAT
1 GTCGCCGGGACTCCATGGCGACCTACACAT
88663 G
1 G
88664 CACGATCTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.18, C:0.35, G:0.28, T:0.18
Consensus pattern (30 bp):
GTCGCCGGGACTCCATGGCGACCTACACAT
Found at i:88721 original size:36 final size:36
Alignment explanation
Indices: 88681--88799 Score: 130
Period size: 36 Copynumber: 3.0 Consensus size: 36
88671 TCCCCAATCT
88681 CCCCATGCATGAACCGATCCTTGGTCGCCCCGAGTG
1 CCCCATGCATGAACCGATCCTTGGTCGCCCCGAGTG
88717 CCCCATGCATGAACCGATCCTTGGTCATCCTTGGTCGCCTCGAGTG
1 CCCCATGCATGAACCGATCCTTGG---T-C---G-C-CC-CGAGTG
* *
88763 CCCCATGCATGAACCGATCCTTGGTCACCCCAAGTG
1 CCCCATGCATGAACCGATCCTTGGTCGCCCCGAGTG
88799 C
1 C
88800 ATGGCGACCT
Statistics
Matches: 71, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
36 30 0.42
37 2 0.03
38 1 0.01
39 1 0.01
40 1 0.01
42 1 0.01
43 2 0.03
44 1 0.01
45 2 0.03
46 30 0.42
ACGTcount: A:0.18, C:0.38, G:0.23, T:0.22
Consensus pattern (36 bp):
CCCCATGCATGAACCGATCCTTGGTCGCCCCGAGTG
Found at i:88750 original size:46 final size:46
Alignment explanation
Indices: 88697--88789 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
88687 GCATGAACCG
88697 ATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTC
1 ATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTC
*
88743 ATCCTTGGTCGCCTCGAGTGCCCCATGCATGAACCGATCCTTGGTC
1 ATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTC
88789 A
1 A
88790 CCCCAAGTGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.16, C:0.35, G:0.24, T:0.25
Consensus pattern (46 bp):
ATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTC
Found at i:88828 original size:29 final size:29
Alignment explanation
Indices: 88796--88875 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
88786 GTCACCCCAA
*
88796 GTGCATGGCGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCTTTGGTCGTTGGGC
88825 GTGCATGGCGACCTCTTTGGTCGTTGGGC
1 GTGCATGGCGACCTCTTTGGTCGTTGGGC
88854 GTGCATGGCGACCTCTTTGGTC
1 GTGCATGGCGACCTCTTTGGTC
88876 ACTGTACAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.07, C:0.26, G:0.36, T:0.30
Consensus pattern (29 bp):
GTGCATGGCGACCTCTTTGGTCGTTGGGC
Found at i:89824 original size:41 final size:42
Alignment explanation
Indices: 89591--89872 Score: 157
Period size: 43 Copynumber: 6.6 Consensus size: 42
89581 TTTGTTAAAT
* * * *
89591 TAGGGGTTTAAACTATAAAAGTAAAAAGT-ATGATTGAAAAAAT
1 TAGGGGTCTAAATTATAAAGGTAAAAAGTGA-GATT-AAAAAAA
** ** * *
89634 TAGGGACCCCAATTATAAAGGTAAAAAGTGATATTAAAAATA
1 TAGGGGTCTAAATTATAAAGGTAAAAAGTGAGATTAAAAAAA
* *
89676 CAGGGGTGTAAAATT-TAAAGG-AAAAAGGTGAGATTGAAAAAAA
1 TAGGGGTCT-AAATTATAAAGGTAAAAA-GTGAGATT-AAAAAAA
* * * * *
89719 TTATGGGCCTAAATTAT-ATGAGTGAAAAATTGA-ATTGAAAAAAT
1 -TAGGGGTCTAAATTATAAAG-GT-AAAAAGTGAGATT-AAAAAAA
*
89763 TAGGGGTCTCAATTAT--AGGTAAAAAGTGAGATTAAAAAAA
1 TAGGGGTCTAAATTATAAAGGTAAAAAGTGAGATTAAAAAAA
* * * * * *
89803 TAGGAGT-TTAATTATAAAGGTACAAGGTGGGATTGAAAAAATT
1 TAGGGGTCTAAATTATAAAGGTAAAAAGTGAGATT-AAAAAA-A
* ** *
89846 TAAGGGTCTCCATTATAAAGATAAAAA
1 TAGGGGTCTAAATTATAAAGGTAAAAA
89873 ACATGATTAC
Statistics
Matches: 180, Mismatches: 44, Indels: 29
0.71 0.17 0.11
Matches are distributed among these distances:
39 7 0.04
40 20 0.11
41 24 0.13
42 29 0.16
43 60 0.33
44 32 0.18
45 3 0.02
46 5 0.03
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (42 bp):
TAGGGGTCTAAATTATAAAGGTAAAAAGTGAGATTAAAAAAA
Found at i:89873 original size:126 final size:128
Alignment explanation
Indices: 89599--89909 Score: 303
Period size: 126 Copynumber: 2.4 Consensus size: 128
89589 ATTAGGGGTT
* * *
89599 TAAACTATAAAAGTAAAAAGTATG-ATTGAAAAAATTAGGGACCCCAATTATAAAGGTAAAAAGT
1 TAAATTATAAGAGTAAAAAAT-TGAATTGAAAAAATTAGGGACCCCAATTAT-AAGGTAAAAAGT
* * * *
89663 GATATTAAAAATACAGGGGTGTAAAATTTAAAGGAAAAAGGTGAGATTGAAAAAAATTATGGGCC
64 GAGATTAAAAAAACAGGAGTGTAAAATTTAAAGGAAAAAGGTGAGATTGAAAAAAATTAAGGGCC
* * ** *
89728 TAAATTATATGAGTGAAAAATTGAATTGAAAAAATTAGGGGTCTCAATTAT-AGGTAAAAAGTGA
1 TAAATTATAAGAGTAAAAAATTGAATTGAAAAAATTAGGGACCCCAATTATAAGGTAAAAAGTGA
* * * * * * *
89792 GATTAAAAAAATAGGAGT-T-TAATTATAAAGGTACAAGGTGGGATTGAAAAAATTTAAGGGTC
66 GATTAAAAAAACAGGAGTGTAAAATT-TAAAGGAAAAAGGTGAGATTGAAAAAAATTAAGGGCC
** * *
89854 TCCATTATAA-AGATAAAAAACATG-ATT-ACAAAAATTAAGGGACCTCAATTATAAGG
1 TAAATTATAAGAG-TAAAAAA-TTGAATTGA-AAAAATT-AGGGACCCCAATTATAAGG
89910 ATGAAAAACT
Statistics
Matches: 149, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
125 7 0.05
126 55 0.37
127 42 0.28
128 5 0.03
129 40 0.27
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (128 bp):
TAAATTATAAGAGTAAAAAATTGAATTGAAAAAATTAGGGACCCCAATTATAAGGTAAAAAGTGA
GATTAAAAAAACAGGAGTGTAAAATTTAAAGGAAAAAGGTGAGATTGAAAAAAATTAAGGGCC
Found at i:90086 original size:15 final size:15
Alignment explanation
Indices: 90066--90099 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
90056 AAAGGGAAAA
90066 ATAATTAAATTTAAT
1 ATAATTAAATTTAAT
* *
90081 ATAATTTATTTTAAT
1 ATAATTAAATTTAAT
90096 ATAA
1 ATAA
90100 AATGGATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATTAAATTTAAT
Found at i:94385 original size:2 final size:2
Alignment explanation
Indices: 94378--94419 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
94368 TTATTCTTTA
94378 AT AT 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 AT AT
94420 TTAAGATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99754 original size:14 final size:14
Alignment explanation
Indices: 99735--99804 Score: 94
Period size: 14 Copynumber: 5.3 Consensus size: 14
99725 CGTTCGTGAA
99735 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
99749 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
99763 CGTTTGGTTATGTT
1 CGTTCGGTTATGTT
99777 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
99787 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
99801 CGTT
1 CGTT
99805 TATGTTCATT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
10 9 0.18
11 1 0.02
13 1 0.02
14 40 0.78
ACGTcount: A:0.09, C:0.13, G:0.26, T:0.53
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:99777 original size:24 final size:24
Alignment explanation
Indices: 99750--99824 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
99740 GGTTATGTTC
* * *
99750 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCGTTCGATTAT
99774 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
99798 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
99822 GTT
1 GTT
99825 TAACCCAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:99821 original size:38 final size:37
Alignment explanation
Indices: 99742--99824 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
99732 GAACGTTCGG
* *
99742 TTATGTTCGTTCGGTTATGTTCGTTTGGTTATGTTCGT
1 TTATGTTCGTTCGATTATGTTCGTTTGGTTA-GTTCAT
*
99780 TTATGTTCGTTCGATTATGTTCGTTTATGTTCA-TTCAT
1 TTATGTTCGTTCGATTATGTTCGTTT-GGTT-AGTTCAT
99818 TTATGTT
1 TTATGTT
99825 TAACCCAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
38 36 0.90
39 3 0.08
40 1 0.03
ACGTcount: A:0.12, C:0.11, G:0.20, T:0.57
Consensus pattern (37 bp):
TTATGTTCGTTCGATTATGTTCGTTTGGTTAGTTCAT
Found at i:100585 original size:16 final size:16
Alignment explanation
Indices: 100560--100602 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
100550 CCAACGTTTA
*
100560 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTACG
*
100576 TGTTCATTTATGTACG
1 TGTTCGTTTATGTACG
100592 TGTTCGTTTAT
1 TGTTCGTTTAT
100603 TTATTAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTACG
Found at i:100689 original size:16 final size:17
Alignment explanation
Indices: 100668--100701 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
100658 AAAAAAATTT
100668 TGTTCG-TTTATGTTCG
1 TGTTCGTTTTATGTTCG
100684 TGTTCGTTTTATGTTCG
1 TGTTCGTTTTATGTTCG
100701 T
1 T
100702 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.59
Consensus pattern (17 bp):
TGTTCGTTTTATGTTCG
Found at i:101260 original size:19 final size:18
Alignment explanation
Indices: 101236--101272 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
101226 ATTTTAAAAT
*
101236 AATTATTTTTATATATTTA
1 AATTATTTTAATAT-TTTA
101255 AATTATTTTAATATTTTA
1 AATTATTTTAATATTTTA
101273 TTTCGAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTATTTTAATATTTTA
Found at i:103321 original size:2 final size:2
Alignment explanation
Indices: 103314--103340 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
103304 ACCAATATGA
103314 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
103341 AAGTAGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107337 original size:20 final size:20
Alignment explanation
Indices: 107314--107394 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
107304 TAAAATTTCT
* *
107314 GAATTTGCAACTCGAATTTG
1 GAATTCGCAACACGAATTTG
* *
107334 GAATTCGCAACACAGAA-GTC
1 GAATTCGCAACAC-GAATTTG
* *
107354 GAATTCGCAACTCAAATTTG
1 GAATTCGCAACACGAATTTG
*
107374 ACAATTTCGCAACACGAATTT
1 -GAA-TTCGCAACACGAATTT
107395 CCTTTTCGCA
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.04
20 25 0.54
21 5 0.11
22 14 0.30
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (20 bp):
GAATTCGCAACACGAATTTG
Found at i:107403 original size:20 final size:20
Alignment explanation
Indices: 107378--107447 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
107368 AATTTGACAA
107378 TTTCGCAACACGAATTTCCT
1 TTTCGCAACACGAATTTCCT
107398 TTTCGCAACTA--AATTT--T
1 TTTCGCAAC-ACGAATTTCCT
107415 TAAATTCGCAACACGAATTTCCT
1 T---TTCGCAACACGAATTTCCT
107438 TTTCGCAACA
1 TTTCGCAACA
107448 AGATCTTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
17 2 0.05
19 6 0.14
20 26 0.62
21 6 0.14
23 2 0.05
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (20 bp):
TTTCGCAACACGAATTTCCT
Found at i:107430 original size:40 final size:42
Alignment explanation
Indices: 107357--107446 Score: 141
Period size: 40 Copynumber: 2.2 Consensus size: 42
107347 AGAAGTCGAA
107357 TTCGCAACTCAAATTTGACAATTTCGCAACACGAATTTCCTT
1 TTCGCAACTCAAATTTGACAATTTCGCAACACGAATTTCCTT
*
107399 TTCGCAACT-AAATTTTTA-AA-TTCGCAACACGAATTTCCTT
1 TTCGCAACTCAAA-TTTGACAATTTCGCAACACGAATTTCCTT
107439 TTCGCAAC
1 TTCGCAAC
107447 AAGATCTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
40 28 0.61
41 5 0.11
42 13 0.28
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (42 bp):
TTCGCAACTCAAATTTGACAATTTCGCAACACGAATTTCCTT
Found at i:107461 original size:40 final size:40
Alignment explanation
Indices: 107357--107462 Score: 128
Period size: 40 Copynumber: 2.6 Consensus size: 40
107347 AGAAGTCGAA
*
107357 TTCGCAACTCAAATTTGAC-AATTTCGCAACACGAATTTCCTT
1 TTCGCAACT-AAATTT--CTAAATTCGCAACACGAATTTCCTT
*
107399 TTCGCAACTAAATTTTTAAATTCGCAACACGAATTTCCTT
1 TTCGCAACTAAATTTCTAAATTCGCAACACGAATTTCCTT
107439 TTCGCAAC-AAGATCTTCT-AATTCG
1 TTCGCAACTAA-AT-TTCTAAATTCG
107463 TAACGCGAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 2 0.03
40 38 0.66
41 9 0.16
42 9 0.16
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (40 bp):
TTCGCAACTAAATTTCTAAATTCGCAACACGAATTTCCTT
Found at i:107535 original size:20 final size:20
Alignment explanation
Indices: 107489--107535 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
107479 TTCTCAATAA
* * *
107489 GAATTTCGTTTTCGCAACTC
1 GAATTTTGTATTCGCAACGC
*
107509 GATTTTTGTATTCGCAACGC
1 GAATTTTGTATTCGCAACGC
107529 GAATTTT
1 GAATTTT
107536 AATTTCGCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (20 bp):
GAATTTTGTATTCGCAACGC
Found at i:107721 original size:16 final size:16
Alignment explanation
Indices: 107700--107734 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
107690 CCATCTTTAA
107700 TTTTTTT-TACATAAT
1 TTTTTTTCTACATAAT
*
107715 TTTTTTTCTATATAAT
1 TTTTTTTCTACATAAT
107731 TTTT
1 TTTT
107735 CAATGATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTCTACATAAT
Found at i:109206 original size:20 final size:20
Alignment explanation
Indices: 109181--109237 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
109171 AATTCGCAAC
*
109181 TCAAATTTGCAACTCGAAAA
1 TCAAATTCGCAACTCGAAAA
109201 TCAAATTCGCAACTCGAAAA
1 TCAAATTCGCAACTCGAAAA
* *
109221 TGAAATTCACAACTCGA
1 TCAAATTCGCAACTCGA
109238 TTTCGTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.23
Consensus pattern (20 bp):
TCAAATTCGCAACTCGAAAA
Found at i:111432 original size:21 final size:21
Alignment explanation
Indices: 111403--111540 Score: 141
Period size: 21 Copynumber: 6.5 Consensus size: 21
111393 TATATAGTAC
111403 GGAATGTGGATCCTGAACGATG
1 GGAA-GTGGATCCTGAACGATG
111425 GGAAGTGGATCCTGAACGATG
1 GGAAGTGGATCCTGAACGATG
111446 GGAAGTGGATCCTGAACGATG
1 GGAAGTGGATCCTGAACGATG
***** *
111467 GGAACAACCTCTTGAACGATG
1 GGAAGTGGATCCTGAACGATG
* * * *
111488 AGAGGTGAATCCTGAACAATG
1 GGAAGTGGATCCTGAACGATG
* *
111509 GGATGTGGATCCTGAACAATG
1 GGAAGTGGATCCTGAACGATG
* *
111530 GTAGGTGGATC
1 GGAAGTGGATC
111541 AGGCTTCTTC
Statistics
Matches: 96, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
21 92 0.96
22 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.21
Consensus pattern (21 bp):
GGAAGTGGATCCTGAACGATG
Found at i:111865 original size:21 final size:21
Alignment explanation
Indices: 111841--111989 Score: 120
Period size: 21 Copynumber: 7.1 Consensus size: 21
111831 TGAAACAATC
*
111841 TCACGTAGAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* *
111862 TCACGTAAAGCAGCTGCCTCA
1 TCACGTAAAGCACCTACCTCA
* **
111883 CCACGTAAAGCACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
** **
111904 TCACGTAAAGCAGTTATATCA
1 TCACGTAAAGCACCTACCTCA
* * **
111925 CCGCGTAAAGCGTCTACCTCA
1 TCACGTAAAGCACCTACCTCA
*
111946 TCACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCTACCTCA
* * *
111967 TTACGTAAAGTACCTAACTCA
1 TCACGTAAAGCACCTACCTCA
111988 TC
1 TC
111990 CCATGGAGGT
Statistics
Matches: 97, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
21 96 0.99
22 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (21 bp):
TCACGTAAAGCACCTACCTCA
Found at i:112143 original size:42 final size:42
Alignment explanation
Indices: 112091--112216 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 42
112081 GATGGAATAG
* * *
112091 GTGATGGATCTTGGTGTCGAGGTGTAGAATCGGCTCGATGAA
1 GTGATGGATCTTGGTGTCGAAGTGGAGAATCGACTCGATGAA
* * *
112133 GTGATAGATCTTGGTGTCGAAGTGGAGAATCGACTCAATGAG
1 GTGATGGATCTTGGTGTCGAAGTGGAGAATCGACTCGATGAA
* *
112175 GTGATGGATCTCGGTGTCGAAGTGGAGAATCGACTCGTTGAA
1 GTGATGGATCTTGGTGTCGAAGTGGAGAATCGACTCGATGAA
112217 AAAGTGGGGG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.27
Consensus pattern (42 bp):
GTGATGGATCTTGGTGTCGAAGTGGAGAATCGACTCGATGAA
Found at i:113631 original size:21 final size:21
Alignment explanation
Indices: 113607--113663 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
113597 TCTGAAACTT
113607 AAATTCGCAACTCGAAAAATG
1 AAATTCGCAACTCGAAAAATG
* ***
113628 AAATTCGCAAGTCGAATTTTG
1 AAATTCGCAACTCGAAAAATG
113649 -AATTCGCAACTCGAA
1 AAATTCGCAACTCGAA
113664 TTTCATTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (21 bp):
AAATTCGCAACTCGAAAAATG
Found at i:113654 original size:20 final size:20
Alignment explanation
Indices: 113608--113666 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
113598 CTGAAACTTA
***
113608 AATTCGCAACTCGAAAAATG
1 AATTCGCAACTCGAATTTTG
*
113628 AAATTCGCAAGTCGAATTTTG
1 -AATTCGCAACTCGAATTTTG
113649 AATTCGCAACTCGAATTT
1 AATTCGCAACTCGAATTT
113667 CATTTTCGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (20 bp):
AATTCGCAACTCGAATTTTG
Found at i:113674 original size:20 final size:20
Alignment explanation
Indices: 113651--113695 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
113641 GAATTTTGAA
113651 TTCGCAACT-CGAATTTCATT
1 TTCG-AACTACGAATTTCATT
**
113671 TTCGAGTTACGAATTTCATT
1 TTCGAACTACGAATTTCATT
113691 TTCGA
1 TTCGA
113696 GTTGCGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (20 bp):
TTCGAACTACGAATTTCATT
Found at i:113707 original size:20 final size:20
Alignment explanation
Indices: 113660--113698 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
113650 ATTCGCAACT
113660 CGAATTTCATTTTCGAGTTA
1 CGAATTTCATTTTCGAGTTA
113680 CGAATTTCATTTTCGAGTT
1 CGAATTTCATTTTCGAGTT
113699 GCGATTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
CGAATTTCATTTTCGAGTTA
Found at i:114922 original size:60 final size:60
Alignment explanation
Indices: 114806--114927 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
114796 GAACATATGA
* * * *
114806 ATAGTTGAATGATCATTTTATAATTTTTAATGGTTAGAAGACTTAACAAAATAATATCTT
1 ATAGTTGAATGATCATTTTATAATTTTTAATAGTCAGAAAACTTAACAAAACAATATCTT
* * *
114866 ATAG-TGAATAGATTATTTTATAATTTTTAATAGTCA-AACAATTTAATAAAACAATATCTT
1 ATAGTTGAAT-GATCATTTTATAATTTTTAATAGTCAGAA-AACTTAACAAAACAATATCTT
114926 AT
1 AT
114928 CTGTTTTTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 7 0.13
60 46 0.87
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.42
Consensus pattern (60 bp):
ATAGTTGAATGATCATTTTATAATTTTTAATAGTCAGAAAACTTAACAAAACAATATCTT
Found at i:114955 original size:44 final size:44
Alignment explanation
Indices: 114905--115050 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 44
114895 ATAGTCAAAC
114905 AATTTAATAAAACAATATCTTATCTGTTTTTGTACTTAATCCTA
1 AATTTAATAAAACAATATCTTATCTGTTTTTGTACTTAATCCTA
** * * * * **
114949 AATTTAA-AATACATCGTGAATAGATTAT-TTTATAATTTTTA-ATAGTCAAA
1 AATTTAATAA-A-A-C---AATATCTTATCTGT-T--TTTGTACTTAATCCTA
114999 CAATTTAATAAAACAATATCTTATCTGTTTTTGTACTTAATCCTA
1 -AATTTAATAAAACAATATCTTATCTGTTTTTGTACTTAATCCTA
115044 AATTTAA
1 AATTTAA
115051 AATACATCGT
Statistics
Matches: 73, Mismatches: 16, Indels: 26
0.63 0.14 0.23
Matches are distributed among these distances:
43 2 0.03
44 20 0.27
45 6 0.08
46 10 0.14
47 2 0.03
48 2 0.03
49 10 0.14
50 6 0.08
51 13 0.18
52 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (44 bp):
AATTTAATAAAACAATATCTTATCTGTTTTTGTACTTAATCCTA
Found at i:115032 original size:95 final size:95
Alignment explanation
Indices: 114869--115060 Score: 384
Period size: 95 Copynumber: 2.0 Consensus size: 95
114859 ATATCTTATA
114869 GTGAATAGATTATTTTATAATTTTTAATAGTCAAACAATTTAATAAAACAATATCTTATCTGTTT
1 GTGAATAGATTATTTTATAATTTTTAATAGTCAAACAATTTAATAAAACAATATCTTATCTGTTT
114934 TTGTACTTAATCCTAAATTTAAAATACATC
66 TTGTACTTAATCCTAAATTTAAAATACATC
114964 GTGAATAGATTATTTTATAATTTTTAATAGTCAAACAATTTAATAAAACAATATCTTATCTGTTT
1 GTGAATAGATTATTTTATAATTTTTAATAGTCAAACAATTTAATAAAACAATATCTTATCTGTTT
115029 TTGTACTTAATCCTAAATTTAAAATACATC
66 TTGTACTTAATCCTAAATTTAAAATACATC
115059 GT
1 GT
115061 CGGTGAATTA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (95 bp):
GTGAATAGATTATTTTATAATTTTTAATAGTCAAACAATTTAATAAAACAATATCTTATCTGTTT
TTGTACTTAATCCTAAATTTAAAATACATC
Found at i:119335 original size:2 final size:2
Alignment explanation
Indices: 119328--119361 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
119318 TTCCTAATTC
119328 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
119362 TTGTTGATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125662 original size:18 final size:17
Alignment explanation
Indices: 125632--125677 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
125622 AATTAGAAAA
125632 TTTATTTATTTTTATT-
1 TTTATTTATTTTTATTG
*
125648 TTTATATTATATTTTGTTG
1 TTTAT-TTAT-TTTTATTG
125667 TTTATTTATTT
1 TTTATTTATTT
125678 ATTTAGGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.19
17 6 0.23
18 10 0.38
19 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTTTATTG
Found at i:126705 original size:24 final size:25
Alignment explanation
Indices: 126678--126736 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
126668 AGTTTTTTAC
126678 TATTAAATT-ATTATTAGTAATAAT
1 TATTAAATTCATTATTAGTAATAAT
*
126702 TATTATAATTTCATTATTAGTAATCAT
1 TATTA-AA-TTCATTATTAGTAATAAT
*
126729 TAATAAAT
1 TATTAAAT
126737 CTTTTGTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 3 0.10
26 4 0.13
27 18 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTAAATTCATTATTAGTAATAAT
Found at i:126787 original size:15 final size:15
Alignment explanation
Indices: 126757--126797 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
126747 AAATCATTAA
*
126757 ATTAATAATT-AATC
1 ATTAATTATTAAATC
126771 ATTAATTATTAAATC
1 ATTAATTATTAAATC
126786 ATTAATTATTAA
1 ATTAATTATTAA
126798 TAAATCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATTATTAAATC
Found at i:126796 original size:18 final size:18
Alignment explanation
Indices: 126747--126807 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
126737 CTTTTGTATC
*
126747 AAATCATTAAATTAATAATT
1 AAATCATT-AATT-ATTATT
126767 -AATCATT-A--ATTATT
1 AAATCATTAATTATTATT
*
126781 AAATCATTAATTATTAAT
1 AAATCATTAATTATTATT
126799 AAATCATTA
1 AAATCATTA
126808 GCAATCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 7 0.20
16 1 0.03
17 1 0.03
18 14 0.40
19 7 0.20
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATCATTAATTATTATT
Found at i:126804 original size:33 final size:34
Alignment explanation
Indices: 126722--126807 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 34
126712 TCATTATTAG
* *
126722 TAATCATTAATAAATC-TT-TTGTATCAAATCAT
1 TAATTATTAATAAATCATTAATGTATCAAATCAT
* * *
126754 TAAATTAATAATTAATCATTAAT-TATTAAATCAT
1 T-AATTATTAATAAATCATTAATGTATCAAATCAT
126788 TAATTATTAATAAATCATTA
1 TAATTATTAATAAATCATTA
126808 GCAATCATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 1 0.02
33 29 0.66
34 13 0.30
35 1 0.02
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (34 bp):
TAATTATTAATAAATCATTAATGTATCAAATCAT
Found at i:126807 original size:26 final size:26
Alignment explanation
Indices: 126747--126816 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
126737 CTTTTGTATC
* * *
126747 AAATCATTAAATTAATAATTAATCAT
1 AAATCATTAAATCATTAATTAATAAT
* * *
126773 TAATTATTAAATCATTAATTATTAAT
1 AAATCATTAAATCATTAATTAATAAT
126799 AAATCATTAGCAATCATT
1 AAATCATTA--AATCATT
126817 TGTATCAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 27 0.79
28 7 0.21
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (26 bp):
AAATCATTAAATCATTAATTAATAAT
Found at i:127126 original size:27 final size:27
Alignment explanation
Indices: 127096--127151 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
127086 ATCGAATATA
127096 ATATAATCTACAAATTTATTATAAATC
1 ATATAATCTACAAATTTATTATAAATC
127123 ATATAATCTACAAATTTATTATAAATC
1 ATATAATCTACAAATTTATTATAAATC
127150 AT
1 AT
127152 TATTATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATAATCTACAAATTTATTATAAATC
Found at i:127172 original size:25 final size:25
Alignment explanation
Indices: 127140--127319 Score: 149
Period size: 25 Copynumber: 7.2 Consensus size: 25
127130 CTACAAATTT
127140 ATTA-TAAATCATTATTATCAAATC
1 ATTATTAAATCATTATTATCAAATC
* *
127164 ATTATTAAATTATTAGTATCAAATC
1 ATTATTAAATCATTATTATCAAATC
127189 ---ATTAAATCATTATTAAT-AAATC
1 ATTATTAAATCATTATT-ATCAAATC
* * * *
127211 ATATGATTACAT-A-AATCATTAAATC
1 AT-T-ATTAAATCATTATTATCAAATC
**
127236 ATTATTACTAATCATTAAAATTCAAATC
1 ATTATTA--AATCATTATTA-TCAAATC
127264 ATTATTAATAATCATTATTATCAAATC
1 ATTATT-A-AATCATTATTATCAAATC
* *
127291 ATTATTAAATTATTAGTATCAAATC
1 ATTATTAAATCATTATTATCAAATC
127316 ATTA
1 ATTA
127320 AATCATTGAA
Statistics
Matches: 126, Mismatches: 16, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
22 17 0.13
23 6 0.05
24 7 0.06
25 49 0.39
26 3 0.02
27 21 0.17
28 22 0.17
29 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATTAAATCATTATTATCAAATC
Found at i:127226 original size:17 final size:14
Alignment explanation
Indices: 127191--127918 Score: 169
Period size: 14 Copynumber: 53.0 Consensus size: 14
127181 ATCAAATCAT
127191 TAAATCATTATTAA
1 TAAATCATTATTAA
127205 TAAATCATATGATTACA
1 TAAATCAT-T-ATTA-A
127222 TAAATC---A-T--
1 TAAATCATTATTAA
*
127230 TAAATCATTATTAC
1 TAAATCATTATTAA
*
127244 T-AATCATTA-AAA
1 TAAATCATTATTAA
127256 TTCAAATCATTATTAA
1 -T-AAATCATTATTAA
127272 T-AATCATTATT-A
1 TAAATCATTATTAA
127284 TCAAATCATTA-T--
1 T-AAATCATTATTAA
* *
127296 TAAATTATTAGT-A
1 TAAATCATTATTAA
* *
127309 TCAAATCATTAAATCAT
1 T-AAATCATT--ATTAA
* *
127326 TGAATTATTATTAA
1 TAAATCATTATTAA
127340 TAAATCATATAATTACA
1 TAAATCAT-T-ATTA-A
127357 CTTAAATCATTATTAA
1 --TAAATCATTATTAA
127373 TAAATCATATAATTACA
1 TAAATCAT-T-ATTA-A
127390 TAAATC---A-T--
1 TAAATCATTATTAA
*
127398 TAAATCATTATTAT
1 TAAATCATTATTAA
*
127412 TAAATCATTA-AAA
1 TAAATCATTATTAA
127425 TTCAAATCATTATTAA
1 -T-AAATCATTATTAA
127441 T-AATCATTATT-A
1 TAAATCATTATTAA
127453 TCAAATCATTA-T--
1 T-AAATCATTATTAA
* *
127465 TAAATTATTAGT-A
1 TAAATCATTATTAA
* *
127478 TCAAATCATTAAATCAT
1 T-AAATCATT--ATTAA
*
127495 TGAATCATTATTAA
1 TAAATCATTATTAA
* *
127509 TAAATCA-TATGAT
1 TAAATCATTATTAA
* * *
127522 TACA-C-TTAAATCAT
1 TAAATCATT--ATTAA
127536 TAAATCATTATTAA
1 TAAATCATTATTAA
127550 TAAATCATATGATTACA
1 TAAATCAT-T-ATTA-A
127567 TAAATC---A-T--
1 TAAATCATTATTAA
*
127575 TAAATCATTATTAT
1 TAAATCATTATTAA
*
127589 TAAATCATTA-AAA
1 TAAATCATTATTAA
127602 TTCAAATCATTATTAA
1 -T-AAATCATTATTAA
127618 T-AATCATTATT-A
1 TAAATCATTATTAA
127630 TCAAATCATTATTAA
1 T-AAATCATTATTAA
* * * *
127645 -ATTATTAGTATCAA
1 TA-AATCATTATTAA
* * *
127659 -AAAT-ACTAAATCAT
1 TAAATCA-T-TATTAA
127673 TAAATCATTATTAA
1 TAAATCATTATTAA
*
127687 TAAATCATATGATTGCA
1 TAAATCAT-T-ATT-AA
127704 TAAATC---A-T--
1 TAAATCATTATTAA
*
127712 TAAATCATTATTAC
1 TAAATCATTATTAA
*
127726 T-AATCATTA-AAA
1 TAAATCATTATTAA
*
127738 TTCAAATCATTATTAG
1 -T-AAATCATTATTAA
127754 T-AATCATTATT-A
1 TAAATCATTATTAA
127766 TCAAATCATTA-T--
1 T-AAATCATTATTAA
* *
127778 TAAATTATTAGT-A
1 TAAATCATTATTAA
* *
127791 TCAAATCATTAAATCAT
1 T-AAATCATT--ATTAA
* *
127808 TGAATCATTATTTA
1 TAAATCATTATTAA
127822 TAAATCATATGATTACA
1 TAAATCAT-T-ATTA-A
* *
127839 CTTAAATCATTAGTAC
1 --TAAATCATTATTAA
127855 TAAATCATTA--AA
1 TAAATCATTATTAA
* * **
127867 T-CATTAAAATT--
1 TAAATCATTATTAA
127878 TAAATCATTATTAA
1 TAAATCATTATTAA
127892 T-AATCATTATTAGA
1 TAAATCATTATTA-A
127906 -AAATCATTATTAA
1 TAAATCATTATTAA
127919 ATTATTAATA
Statistics
Matches: 535, Mismatches: 75, Indels: 209
0.65 0.09 0.26
Matches are distributed among these distances:
8 24 0.04
11 37 0.07
12 34 0.06
13 88 0.16
14 187 0.35
15 51 0.10
16 56 0.10
17 40 0.07
18 2 0.00
19 16 0.03
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.41
Consensus pattern (14 bp):
TAAATCATTATTAA
Found at i:127227 original size:39 final size:39
Alignment explanation
Indices: 127184--127419 Score: 160
Period size: 39 Copynumber: 5.7 Consensus size: 39
127174 TATTAGTATC
*
127184 AAATCATTAAATCATTATTAATAAATCATATGATTACAT
1 AAATCATTAAATCATTATTAATAAATCATATAATTACAT
* *
127223 AAATCATTAAATCATTATTACT-AATCATTAAAATT-CA-
1 AAATCATTAAATCATTATTAATAAATCA-TATAATTACAT
* *
127260 AATCATTATTAATAATCATTATT-ATCAAATCATTATTAAATTATTAGTAT
1 AA--ATCATT-A-AATCATTATTAAT-AAATCA-TA-T--A--ATTA-CAT
* * * * *
127310 CAAATCATTAAATCATTGAATT-ATTATTAATA-AATCATAT
1 -AAATCATTAAATCATT--ATTAATAAATCATATAATTACAT
*
127350 AATTACACTTAAATCATTATTAATAAATCATATAATTACAT
1 AAAT-CA-TTAAATCATTATTAATAAATCATATAATTACAT
*
127391 AAATCATTAAATCATTATTATTAAATCAT
1 AAATCATTAAATCATTATTAATAAATCAT
127420 TAAAATTCAA
Statistics
Matches: 155, Mismatches: 20, Indels: 44
0.71 0.09 0.20
Matches are distributed among these distances:
37 2 0.01
38 7 0.05
39 59 0.38
40 16 0.10
41 32 0.21
42 8 0.05
43 1 0.01
45 1 0.01
47 12 0.08
48 4 0.03
49 11 0.07
51 2 0.01
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (39 bp):
AAATCATTAAATCATTATTAATAAATCATATAATTACAT
Found at i:127263 original size:28 final size:27
Alignment explanation
Indices: 127231--127488 Score: 133
Period size: 25 Copynumber: 9.3 Consensus size: 27
127221 ATAAATCATT
*
127231 AAATCATTATTACTAATCATTAAAATTC
1 AAATCATTATTAATAATCATTAAAA-TC
**
127259 AAATCATTATTAATAATCATTATTATC
1 AAATCATTATTAATAATCATTAAAATC
* **
127286 AAATCATTATT-A-AATTATTAGTATC
1 AAATCATTATTAATAATCATTAAAATC
* * * *
127311 AAATCATTAAATCATTGAATTATTATTAAT-
1 AAATCATT--ATTAAT-AATCATTA-AAATC
*
127341 AAATCATATAATTACACTTAAATCATTATTAAT-
1 AAATCAT-T-ATTA-A--T-AATCATTA-AAATC
127374 AAATCATATAATTACATAAATCATT-AAATC
1 AAATCAT-T-ATTA-AT-AATCATTAAAATC
*
127404 --ATTATTATT-A-AATCATTAAAATTC
1 AAATCATTATTAATAATCATTAAAA-TC
**
127428 AAATCATTATTAATAATCATTATTATC
1 AAATCATTATTAATAATCATTAAAATC
* **
127455 AAATCATTATT-A-AATTATTAGTATC
1 AAATCATTATTAATAATCATTAAAATC
127480 AAATCATTA
1 AAATCATTA
127489 AATCATTGAA
Statistics
Matches: 193, Mismatches: 20, Indels: 37
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.04
23 3 0.02
24 3 0.02
25 39 0.20
26 13 0.07
27 30 0.16
28 35 0.18
29 3 0.02
30 19 0.10
31 12 0.06
33 29 0.15
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.41
Consensus pattern (27 bp):
AAATCATTATTAATAATCATTAAAATC
Found at i:127336 original size:33 final size:32
Alignment explanation
Indices: 127172--127874 Score: 183
Period size: 33 Copynumber: 20.9 Consensus size: 32
127162 TCATTATTAA
127172 ATTATTAGTATCAAATCATTAAATCATTATTAAT-
1 ATTATTA-TATCAAATCATTAAATCATTA--AATC
* * * *
127206 A-AATCATAT-GATTACA-TAAATCATTAAATC
1 ATTATTATATCAAAT-CATTAAATCATTAAATC
*
127236 ATTA-T-TA-CTAATCATTAAA--ATTCAAATC
1 ATTATTATATCAAATCATTAAATCATT-AAATC
* * *
127264 ATTATTAATAATCATTATTATCAAATCATTATTAA--
1 ATTATT-AT-ATCA-AATCATTAAATCATTA--AATC
* *
127299 ATTATTAGTATCAAATCATTAAATCATTGAATT
1 ATTATTA-TATCAAATCATTAAATCATTAAATC
*
127332 ATTATTA-AT-AAATCATATAATTACACTTAAATC
1 ATTATTATATCAAATCAT-TAAAT-CA-TTAAATC
127365 ATTATTAATAAATCATATAATTACA-TAAATCATTAAATC
1 ATTATT-AT--ATC--A-AA-T-CATTAAATCATTAAATC
127404 ATTATTAT-T-AAATCATTAAA--ATTCAAATC
1 ATTATTATATCAAATCATTAAATCATT-AAATC
* * *
127433 ATTATTAATAATCATTATTATCAAATCATTATTAA--
1 ATTATT-AT-ATCA-AATCATTAAATCATTA--AATC
*
127468 ATTATTAGTATCAAATCATTAAATCATTGAATC
1 ATTATTA-TATCAAATCATTAAATCATTAAATC
* *
127501 ATTATTAATAAATCATATGATTACACTTAAATCATTAAATC
1 ATTATT-AT--ATCA-A--A-T-CATTAAA-TCATTAAATC
127542 ATTATTA-AT-AAATCATATGATTACATAAATCATTAAATC
1 ATTATTATATCAAATC-----A-T---TAAATCATTAAATC
127581 ATTATTAT-T-AAATCATTAAA--ATTCAAATC
1 ATTATTATATCAAATCATTAAATCATT-AAATC
* * *
127610 ATTATTAATAATCATTATTATCAAATCATTATTAA--
1 ATTATT-AT-ATCA-AATCATTAAATCATTA--AATC
*
127645 ATTATTAGTATCAAAAAT-ACTAAATCATTAAATC
1 ATTATTA-TATC--AAATCATTAAATCATTAAATC
127679 ATTATTAATAAATCATATGATTGCA-TAAATCATTAAATC
1 ATTATT-AT--ATCA-A--A-T-CATTAAATCATTAAATC
*
127718 ATTA-T-TA-CTAATCATTAAA--ATTCAAATC
1 ATTATTATATCAAATCATTAAATCATT-AAATC
* * *
127746 ATTATTAGTAATCATTATTATCAAATCATTATTAA--
1 ATTATTA-T-ATCA-AATCATTAAATCATTA--AATC
*
127781 ATTATTAGTATCAAATCATTAAATCATTGAATC
1 ATTATTA-TATCAAATCATTAAATCATTAAATC
* *
127814 ATTATT-TAT-AAATCATATGATTACACTTAAATC
1 ATTATTATATCAAATCAT-TAAAT-CA-TTAAATC
* *
127847 ATTAGTA-CT-AAATCATTAAATCATTAAA
1 ATTATTATATCAAATCATTAAATCATTAAA
127875 ATTTAAATCA
Statistics
Matches: 508, Mismatches: 54, Indels: 218
0.65 0.07 0.28
Matches are distributed among these distances:
27 6 0.01
28 28 0.06
29 42 0.08
30 34 0.07
31 38 0.07
32 21 0.04
33 96 0.19
34 69 0.14
35 44 0.09
36 20 0.04
37 13 0.03
38 5 0.01
39 55 0.11
40 13 0.03
41 21 0.04
42 1 0.00
43 2 0.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (32 bp):
ATTATTATATCAAATCATTAAATCATTAAATC
Found at i:127484 original size:25 final size:25
Alignment explanation
Indices: 127113--127319 Score: 135
Period size: 25 Copynumber: 8.2 Consensus size: 25
127103 CTACAAATTT
* *
127113 ATTA-TAAATCATATAATCTACAAATTT
1 ATTATTAAATCAT-TAATAT-CAAA-TC
*
127140 ATTA-TAAATCATTATTATCAAATC
1 ATTATTAAATCATTAATATCAAATC
* *
127164 ATTATTAAATTATTAGTATCAAATC
1 ATTATTAAATCATTAATATCAAATC
*
127189 ---ATTAAATCATTATTAAT-AAATC
1 ATTATTAAATCATTAAT-ATCAAATC
* *
127211 ATATGATT--A-CATAAATCATTAAATC
1 AT-T-ATTAAATCATTAAT-ATCAAATC
*
127236 ATTATTACTAATCATTAAAATTCAAATC
1 ATTATTA--AATCATTAATA-TCAAATC
*
127264 ATTATTAATAATCATTATTATCAAATC
1 ATTATT-A-AATCATTAATATCAAATC
* *
127291 ATTATTAAATTATTAGTATCAAATC
1 ATTATTAAATCATTAATATCAAATC
127316 ATTA
1 ATTA
127320 AATCATTGAA
Statistics
Matches: 148, Mismatches: 17, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
22 17 0.11
23 5 0.03
24 13 0.09
25 50 0.34
26 5 0.03
27 30 0.20
28 27 0.18
29 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (25 bp):
ATTATTAAATCATTAATATCAAATC
Found at i:127491 original size:8 final size:8
Alignment explanation
Indices: 127480--127613 Score: 61
Period size: 8 Copynumber: 17.1 Consensus size: 8
127470 TATTAGTATC
127480 AAATCATT
1 AAATCATT
127488 AAATCATT
1 AAATCATT
*
127496 GAATCATT
1 AAATCATT
* *
127504 --ATTAAT
1 AAATCATT
127510 AAATCATAT
1 AAATCAT-T
* *
127519 GATTACACTT
1 AAAT-CA-TT
127529 AAATCATT
1 AAATCATT
127537 AAATCATT
1 AAATCATT
* *
127545 --ATTAAT
1 AAATCATT
127551 AAATCATAT
1 AAATCAT-T
* *
127560 GATTACA-T
1 AAAT-CATT
127568 AAATCATT
1 AAATCATT
127576 AAATCATT
1 AAATCATT
*
127584 --ATTATT
1 AAATCATT
127590 AAATCATT
1 AAATCATT
127598 AAA--ATT
1 AAATCATT
127604 CAAATCATT
1 -AAATCATT
127613 A
1 A
127614 TTAATAATCA
Statistics
Matches: 92, Mismatches: 19, Indels: 30
0.65 0.13 0.21
Matches are distributed among these distances:
6 16 0.17
7 5 0.05
8 52 0.57
9 11 0.12
10 7 0.08
11 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (8 bp):
AAATCATT
Found at i:127523 original size:19 final size:19
Alignment explanation
Indices: 127501--127564 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
127491 TCATTGAATC
127501 ATTATTAATAAATCATATG
1 ATTATTAATAAATCATATG
* * *
127520 ATTA-CACTTAAATCATTAAATC
1 ATTATTA-ATAAATCA-T--ATG
127542 ATTATTAATAAATCATATG
1 ATTATTAATAAATCATATG
127561 ATTA
1 ATTA
127565 CATAAATCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.03
19 17 0.50
20 1 0.03
21 1 0.03
22 13 0.38
23 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTATTAATAAATCATATG
Found at i:127531 original size:41 final size:40
Alignment explanation
Indices: 127484--127596 Score: 192
Period size: 41 Copynumber: 2.8 Consensus size: 40
127474 AGTATCAAAT
*
127484 CATTAAATCATTGAATCATTATTAATAAATCATATGATTA
1 CATTAAATCATTAAATCATTATTAATAAATCATATGATTA
127524 CACTTAAATCATTAAATCATTATTAATAAATCATATGATTA
1 CA-TTAAATCATTAAATCATTATTAATAAATCATATGATTA
*
127565 CA-TAAATCATTAAATCATTATTATTAAATCAT
1 CATTAAATCATTAAATCATTATTAATAAATCAT
127597 TAAAATTCAA
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
39 29 0.41
40 2 0.03
41 39 0.56
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.40
Consensus pattern (40 bp):
CATTAAATCATTAAATCATTATTAATAAATCATATGATTA
Found at i:127587 original size:177 final size:176
Alignment explanation
Indices: 127184--127732 Score: 922
Period size: 177 Copynumber: 3.2 Consensus size: 176
127174 TATTAGTATC
*
127184 AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTACT-AAT
1 AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTATTAAAT
127248 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
66 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
*
127313 ATCATTAAATCATTGAATTATTATTAATAAATC--AT-A-TA-ATT
131 ATCATTAAATCATTGAATCATTATTAATAAATCATATGATTACATT
* *
127354 ACA-C-TTAAATCATTATTAATAAATCATATAATTACATAAATCATTAAATCATTATTATTAAAT
1 AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTATTAAAT
127417 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
66 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
127482 ATCATTAAATCATTGAATCATTATTAATAAATCATATGATTACACTT
131 ATCATTAAATCATTGAATCATTATTAATAAATCATATGATTACA-TT
127529 AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTATTAAAT
1 AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTATTAAAT
127594 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
66 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATC--
* * *
127659 AAAT-ACTAAATCATTAAATCATTATTAATAAATCATATGATTGCA-T
129 AAATCATTAAATCATTGAATCATTATTAATAAATCATATGATTACATT
*
127705 AAATCATTAAATCATTATTACT-AATCAT
1 AAATCATTAAATCATTATTAATAAATCAT
127733 TAAAATTCAA
Statistics
Matches: 358, Mismatches: 10, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
168 53 0.15
169 101 0.28
170 2 0.01
171 2 0.01
172 1 0.00
173 2 0.01
174 1 0.00
175 10 0.03
176 23 0.06
177 121 0.34
178 38 0.11
179 4 0.01
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (176 bp):
AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTATTAAAT
CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
ATCATTAAATCATTGAATCATTATTAATAAATCATATGATTACATT
Found at i:127801 original size:25 final size:26
Alignment explanation
Indices: 127584--127659 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
127574 TTAAATCATT
**
127584 ATTATTA-AATCATTAAAATTCAAATC
1 ATTATTAGAATCATTAGTA-TCAAATC
* *
127610 ATTATTAATAATCATTATTATCAAATC
1 ATTATT-AGAATCATTAGTATCAAATC
*
127637 ATTATTA-AATTATTAGTATCAAA
1 ATTATTAGAATCATTAGTATCAAA
127660 AATACTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
25 14 0.32
26 7 0.16
27 14 0.32
28 9 0.20
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.42
Consensus pattern (26 bp):
ATTATTAGAATCATTAGTATCAAATC
Found at i:127819 original size:177 final size:172
Alignment explanation
Indices: 127184--127801 Score: 855
Period size: 177 Copynumber: 3.6 Consensus size: 172
127174 TATTAGTATC
* *
127184 AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTACT-AAT
1 AAATCATTAAATCATTATTAATAAATCATATAATTACATAAATCATTAAATCATTATTATTAAAT
127248 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
66 CATT--AATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
* *
127313 ATCATTAAATCATTGAATTATTATTAATAAATCATAT-AAT--T
129 ATCATTAAATCATTGAATCATTATTAATAAATCATATGATTCAT
*
127354 ACA-C-TTAAATCATTATTAATAAATCATATAATTACATAAATCATTAAATCATTATTATTAAAT
1 AAATCATTAAATCATTATTAATAAATCATATAATTACATAAATCATTAAATCATTATTATTAAAT
127417 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
66 CATT--AATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
127482 ATCATTAAATCATTGAATCATTATTAATAAATCATATGATTACACTT
129 ATCATTAAATCATTGAATCATTATTAATAAATCATATGATT-CA--T
*
127529 AAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATTAAATCATTATTATTAAAT
1 AAATCATTAAATCATTATTAATAAATCATATAATTACATAAATCATTAAATCATTATTATTAAAT
127594 CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
66 CATT--AATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATC--
* *
127659 AAAT-ACTAAATCATTAAATCATTATTAATAAATCATATGATTGCAT
127 AAATCATTAAATCATTGAATCATTATTAATAAATCATATGATT-CAT
* *
127705 AAATCATTAAATCATTATTACT-AATCAT-TAA--A-AT---TC---AAATCATTATTAGT-AAT
1 AAATCATTAAATCATTATTAATAAATCATATAATTACATAAATCATTAAATCATTATTATTAAAT
* * *
127758 CATTATTATCAAATCATTATT-A-AATTATTAGTATCAAATCATTA
66 CATTAAT-TCAAATCATTATTAATAATCATTATTATCAAATCATTA
127802 AATCATTGAA
Statistics
Matches: 420, Mismatches: 16, Indels: 33
0.90 0.03 0.07
Matches are distributed among these distances:
161 20 0.05
162 3 0.01
163 13 0.03
164 7 0.02
165 13 0.03
168 55 0.13
169 105 0.25
170 4 0.01
171 2 0.00
172 1 0.00
174 2 0.00
175 9 0.02
176 23 0.05
177 121 0.29
178 38 0.09
179 4 0.01
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.41
Consensus pattern (172 bp):
AAATCATTAAATCATTATTAATAAATCATATAATTACATAAATCATTAAATCATTATTATTAAAT
CATTAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAAAT
CATTAAATCATTGAATCATTATTAATAAATCATATGATTCAT
Found at i:127912 original size:14 final size:13
Alignment explanation
Indices: 127879--127919 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
127869 ATTAAAATTT
127879 AAATCATTATTAA
1 AAATCATTATTAA
*
127892 TAATCATTATTAGA
1 AAATCATTATTA-A
127906 AAATCATTATTAA
1 AAATCATTATTAA
127919 A
1 A
127920 TTATTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (13 bp):
AAATCATTATTAA
Found at i:127924 original size:8 final size:8
Alignment explanation
Indices: 127914--127974 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
127904 GAAAATCATT
*
127914 ATTAAATT
1 ATTAAATC
127922 ATT-AAT-
1 ATTAAATC
*
127928 ATCAAATC
1 ATTAAATC
127936 ATTAAATC
1 ATTAAATC
*
127944 ATTAAACC
1 ATTAAATC
*
127952 ATCAAATC
1 ATTAAATC
127960 ATTAAATC
1 ATTAAATC
127968 ATTAAAT
1 ATTAAAT
127975 TAATAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
6 2 0.04
7 6 0.13
8 37 0.82
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAATC
Found at i:127934 original size:25 final size:25
Alignment explanation
Indices: 127861--127939 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
127851 GTACTAAATC
* *
127861 ATTAAATCATTAAAATTTAAATCATT
1 ATTAAATCATTAATA-TAAAATCATT
* *
127887 ATTAATAATCATTATTAGAAAATCATT
1 ATT-A-AATCATTAATATAAAATCATT
* *
127914 ATTAAATTATTAATATCAAATCATT
1 ATTAAATCATTAATATAAAATCATT
127939 A
1 A
127940 AATCATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
25 18 0.42
26 4 0.09
27 12 0.28
28 9 0.21
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (25 bp):
ATTAAATCATTAATATAAAATCATT
Found at i:127939 original size:313 final size:312
Alignment explanation
Indices: 127259--127914 Score: 873
Period size: 313 Copynumber: 2.1 Consensus size: 312
127249 ATTAAAATTC
* * * *
127259 AAATCATTATTA-ATAATCATTATTATCAAATCATTATT-A-AATTATTAGTATCAAATCATTA-
1 AAATCATTATTAGAAAATCATTAAT-TCAAATCATTATTAATAATCATTATTATCAAATCATTAT
* *
127320 -AATCATTGAATTATTATTAATAAAT-CATATAATTACACTTAAATCATTATTAATAAATCATAT
65 TAA--ATT--ATTAGTATCAA-AAATAC-TA-AA-T-CA-TTAAATCATTATTAATAAATCATAT
*
127383 AATTACATAAATCATTAAATCATTATTATTAAATCATTAAAATTCAAATCATTATTAATAATCAT
120 AATTACATAAATCATTAAATCATTATTACTAAATCATTAAAATTCAAATCATTATTAATAATCAT
127448 TATTATCAAATCATTATTAAATTATTAGTATCAAATCATTAAATCATTGAATCATTATTAATAAA
185 TATTATCAAATCATTATTAAATTATTAGTATCAAATCATTAAATCATTGAATCATTATTAATAAA
* * ** *
127513 TCATATGATTACACTTAAATCATTAAATCATTATTAATAAATCATATGATTACATAAATCATT
250 TCATATGATTACACTTAAATCATTAAATCATAATCAATAAATCATAAAATTAAATAAATCATT
**
127576 AAATCATTATTATTAAATCATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTA
1 AAATCATTATTAGAAAATCATT--AATTCAAATCATTATTAATAATCATTATTATCAAATCATTA
* *
127641 TTAAATTATTAGTATCAAAAATACTAAATCATTAAATCATTATTAATAAATCATATGATTGCATA
64 TTAAATTATTAGTATCAAAAATACTAAATCATTAAATCATTATTAATAAATCATATAATTACATA
*
127706 AATCATTAAATCATTATTACT-AATCATTAAAATTCAAATCATTATTAGTAATCATTATTATCAA
129 AATCATTAAATCATTATTACTAAATCATTAAAATTCAAATCATTATTAATAATCATTATTATCAA
*
127770 ATCATTATTAAATTATTAGTATCAAATCATTAAATCATTGAATCATTATTTATAAATCATATGAT
194 ATCATTATTAAATTATTAGTATCAAATCATTAAATCATTGAATCATTATTAATAAATCATATGAT
* * * *
127835 TACACTTAAATCATT-AGT-ACTAAATCATTAAATCATTAAAATTTAAAT-CATTATT
259 TACACTTAAATCATTAAATCA-T-AATCAATAAATCA-TAAAA-TTAAATAAATCATT
127890 AATAATCATTATTAGAAAATCATTA
1 -A-AATCATTATTAGAAAATCATTA
127915 TTAAATTATT
Statistics
Matches: 302, Mismatches: 23, Indels: 31
0.85 0.06 0.09
Matches are distributed among these distances:
311 1 0.00
312 3 0.01
313 131 0.43
314 61 0.20
315 8 0.03
316 20 0.07
317 14 0.05
318 13 0.04
319 23 0.08
320 3 0.01
321 23 0.08
323 2 0.01
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (312 bp):
AAATCATTATTAGAAAATCATTAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATT
AAATTATTAGTATCAAAAATACTAAATCATTAAATCATTATTAATAAATCATATAATTACATAAA
TCATTAAATCATTATTACTAAATCATTAAAATTCAAATCATTATTAATAATCATTATTATCAAAT
CATTATTAAATTATTAGTATCAAATCATTAAATCATTGAATCATTATTAATAAATCATATGATTA
CACTTAAATCATTAAATCATAATCAATAAATCATAAAATTAAATAAATCATT
Found at i:127960 original size:24 final size:24
Alignment explanation
Indices: 127928--127973 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
127918 AATTATTAAT
127928 ATCAAATCATTAAATCATTAAACC
1 ATCAAATCATTAAATCATTAAACC
127952 ATCAAATCATTAAATCATTAAA
1 ATCAAATCATTAAATCATTAAA
127974 TTAATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (24 bp):
ATCAAATCATTAAATCATTAAACC
Found at i:128007 original size:138 final size:134
Alignment explanation
Indices: 127527--128010 Score: 543
Period size: 138 Copynumber: 3.5 Consensus size: 134
127517 ATGATTACAC
* * * *
127527 TTAAATCATTAAATCATTATTAATAAATCATATGATTACATAA-ATCATTAAATCATTATTATTA
1 TTAAATCATTAAATCATAATT-ATAAATCATATGATTA-ATAATATTAGTAAATCATTATTACT-
127591 AATCATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTAT
63 AATCATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTAT
127656 CAAAAAT-A
128 C--AAATCA
* * * * *
127664 CTAAATCATTAAATCATTATTAATAAATCATATGATTGCATAA-ATCATTAAATCATTATTACTA
1 TTAAATCATTAAATCATAATT-ATAAATCATATGATT-AATAATATTAGTAAATCATTATTACTA
*
127728 ATCATTAAAATTCAAATCATTATTAGTAATCATTATTATCAAATCATTATTAAATTATTAGTATC
64 ATCATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATC
127793 AAATCA
129 AAATCA
* * *
127799 TTAAATCATTGAATCATTATTTATAAATCATATGATTACACTTAAATCATTAGTACTAA--ATCA
1 TTAAATCATTAAATCA-TAATTATAAATCATATGATTA-A--T-AAT-ATTAGTA--AATCATTA
* **
127862 TTA--AATCATTAAAATTTAAATCATTATTAATAATCATTATTAGAAAATCATTATTAAATTATT
58 TTACTAATCATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATT
*
127925 AATATCAAATCA
123 AGTATCAAATCA
* * * *
127937 TTAAATCATTAAACCATCAAATCATTAAATCAT-TAAATTAATAATTTTTAGTAAATCATTATTA
1 TTAAATCATTAAATCAT--AATTA-TAAATCATAT-GATTAATAA-TATTAGTAAATCATTATTA
128001 CTAATCATTA
61 CTAATCATTA
128011 GTACTAATCA
Statistics
Matches: 303, Mismatches: 24, Indels: 39
0.83 0.07 0.11
Matches are distributed among these distances:
134 6 0.02
135 31 0.10
136 82 0.27
137 63 0.21
138 91 0.30
139 5 0.02
140 23 0.08
142 2 0.01
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.40
Consensus pattern (134 bp):
TTAAATCATTAAATCATAATTATAAATCATATGATTAATAATATTAGTAAATCATTATTACTAAT
CATTAAAATTCAAATCATTATTAATAATCATTATTATCAAATCATTATTAAATTATTAGTATCAA
ATCA
Found at i:128008 original size:13 final size:13
Alignment explanation
Indices: 127990--128025 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
127980 ATTTTTAGTA
127990 AATCATTATTACT
1 AATCATTATTACT
*
128003 AATCATTAGTACT
1 AATCATTATTACT
128016 AATCA-TATTA
1 AATCATTATTA
128026 TTCATTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.42
Consensus pattern (13 bp):
AATCATTATTACT
Found at i:128052 original size:22 final size:20
Alignment explanation
Indices: 128016--128067 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
128006 CATTAGTACT
128016 AATCA-TATTATTCATTACA
1 AATCATTATTATTCATTACA
**
128035 AATCATTATTAGTGTCATTAGT
1 AATCATTATTA-T-TCATTACA
128057 AATCATTATTA
1 AATCATTATTA
128068 AATTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 1 0.04
22 17 0.61
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (20 bp):
AATCATTATTATTCATTACA
Found at i:135005 original size:22 final size:20
Alignment explanation
Indices: 134980--135031 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
134970 TTCTCCTGTG
134980 GGGGGAATCGGTCCCCTTCAAA
1 GGGGGAATCGGTCCCC-TC-AA
* *
135002 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGGTCCCCTCAA
135022 GGGGGAATCG
1 GGGGGAATCG
135032 ATTCCCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.39
21 2 0.07
22 15 0.54
ACGTcount: A:0.19, C:0.23, G:0.38, T:0.19
Consensus pattern (20 bp):
GGGGGAATCGGTCCCCTCAA
Found at i:135027 original size:20 final size:21
Alignment explanation
Indices: 134980--135039 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
134970 TTCTCCTGTG
*
134980 GGGGGAATCGGTCCCCTTCAAA
1 GGGGGAATCGGTTCCC-TCAAA
*
135002 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAA
*
135022 GGGGGAATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
135040 TTCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 15 0.43
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:141822 original size:18 final size:17
Alignment explanation
Indices: 141795--141890 Score: 65
Period size: 18 Copynumber: 5.5 Consensus size: 17
141785 GAAAATGGCT
141795 AAATAAATAAAATAATA
1 AAATAAATAAAATAATA
*
141812 AAATAAAATAAAATGATGA
1 AAAT-AAATAAAATAAT-A
*
141831 AAAGT-AGTAAAATAGATA
1 AAA-TAAATAAAATA-ATA
*
141849 AAATAAAGATAAA-AATA
1 AAATAAATA-AAATAATA
* *
141866 AAA-ATAAGACAA-AATA
1 AAATA-AATAAAATAATA
141882 AAATAAATA
1 AAATAAATA
141891 TAAACAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
16 13 0.20
17 16 0.25
18 25 0.39
19 9 0.14
20 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.20
Consensus pattern (17 bp):
AAATAAATAAAATAATA
Found at i:141860 original size:11 final size:11
Alignment explanation
Indices: 141844--141894 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
141834 GTAGTAAAAT
141844 AGATAAAATAA
1 AGATAAAATAA
141855 AGATAAAAATAA
1 AGAT-AAAATAA
* * *
141867 AAATAAGACAA
1 AGATAAAATAA
141878 A-ATAAAATAA
1 AGATAAAATAA
*
141888 ATATAAA
1 AGATAAA
141895 CAAAAAAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 8 0.24
11 15 0.45
12 10 0.30
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (11 bp):
AGATAAAATAA
Found at i:141869 original size:27 final size:27
Alignment explanation
Indices: 141839--141894 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
141829 GAAAAGTAGT
*
141839 AAAAT-AGATAAAATAAAGATAAAAATA
1 AAAATAAGACAAAATAAA-ATAAAAATA
*
141866 AAAATAAGACAAAATAAAATAAATATA
1 AAAATAAGACAAAATAAAATAAAAATA
141893 AA
1 AA
141895 CAAAAAAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (27 bp):
AAAATAAGACAAAATAAAATAAAAATA
Found at i:141884 original size:21 final size:20
Alignment explanation
Indices: 141860--141899 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
141850 AATAAAGATA
141860 AAAATAAAAATAAGACAAAAT
1 AAAATAAAAATAA-ACAAAAT
*
141881 AAAATAAATATAAACAAAA
1 AAAATAAAAATAAACAAAA
141900 AAACGAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAATAAAAATAAACAAAAT
Found at i:141900 original size:21 final size:21
Alignment explanation
Indices: 141838--141900 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
141828 TGAAAAGTAG
* * *
141838 TAAAATAGATA-AAATAAAGA
1 TAAAATAAATATAAACAAAAA
*
141858 TAAAAATAAAAATAAGAC-AAAA
1 T-AAAATAAATATAA-ACAAAAA
141880 TAAAATAAATATAAACAAAAA
1 TAAAATAAATATAAACAAAAA
141901 AACGAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.09
21 24 0.71
22 6 0.18
23 1 0.03
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (21 bp):
TAAAATAAATATAAACAAAAA
Found at i:142157 original size:28 final size:27
Alignment explanation
Indices: 142115--142189 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
142105 TATTAACATT
* *
142115 AAAATAAATAAATAAAATAA-AGGAAGAA
1 AAAAT-AATATATAAAATAATAAGAA-AA
* *
142143 AAAATATATATATAATAATAATAATAAAG
1 AAAATA-ATATATAA-AATAATAAGAAAA
142172 AAAATAATATATAAAATA
1 AAAATAATATATAAAATA
142190 TAAAAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.12
28 20 0.50
29 12 0.30
30 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (27 bp):
AAAATAATATATAAAATAATAAGAAAA
Found at i:142160 original size:35 final size:35
Alignment explanation
Indices: 142114--142200 Score: 94
Period size: 35 Copynumber: 2.5 Consensus size: 35
142104 ATATTAACAT
142114 TAAAATA-AATAAATAAAATAAAGGAAGAA-AAAATA
1 TAAAATATAATAAATAAAATAAA-GAA-AATAAAATA
* *
142149 T-ATATATAAT-AATAATAATAAAGAAAATAATATA
1 TAAAATATAATAAATAA-AATAAAGAAAATAAAATA
142183 TAAAATATAA-AAATAAAA
1 TAAAATATAATAAATAAAA
142201 CTTAAAACGC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
33 2 0.05
34 20 0.45
35 22 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (35 bp):
TAAAATATAATAAATAAAATAAAGAAAATAAAATA
Found at i:142175 original size:29 final size:29
Alignment explanation
Indices: 142138--142199 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
142128 AAAATAAAGG
*
142138 AAGAAAA-AATATATATATAATAATAATAATA
1 AAGAAAATAATATATA-A-AAT-ATAAAAATA
142169 AAGAAAATAATATATAAAATATAAAAATA
1 AAGAAAATAATATATAAAATATAAAAATA
142198 AA
1 AA
142200 ACTTAAAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 10 0.34
30 3 0.10
31 8 0.28
32 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (29 bp):
AAGAAAATAATATATAAAATATAAAAATA
Found at i:143286 original size:2 final size:2
Alignment explanation
Indices: 143279--143323 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
143269 TTTAAGTGAA
143279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
143320 AT AT
1 AT AT
143324 GTATTTGGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:145864 original size:15 final size:15
Alignment explanation
Indices: 145844--145875 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
145834 TTTTCTGTAA
145844 AAAAATATTAAACAG
1 AAAAATATTAAACAG
145859 AAAAATATTAAACAG
1 AAAAATATTAAACAG
145874 AA
1 AA
145876 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAATATTAAACAG
Found at i:151344 original size:53 final size:53
Alignment explanation
Indices: 151285--151515 Score: 304
Period size: 53 Copynumber: 4.4 Consensus size: 53
151275 AGGGATTAAG
*** * * *
151285 GAACTCGAACAATCTTCTAAAAATGGGTTCGCTCCCTATTGCTTCAGAGAGTA
1 GAACTCGAACAATCTTCTGCTAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTA
* * *
151338 GAACTCGAATAATCTTCTGCTTACGGGTTCGCTCCCTCTTGCTTCAGGGGGTA
1 GAACTCGAACAATCTTCTGCTAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTA
* **
151391 GAACTCGAACAATCTTTTGCCT-ACTAGTTCGCTCCCTCTTGCTTCAGGGAGTA
1 GAACTCGAACAATCTTCTG-CTAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTA
*
151444 GAACTCGAACAATCATCTGCCT-ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTA
1 GAACTCGAACAATCTTCTG-CTAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTA
*
151497 GAACTCGAACAATTTTCTG
1 GAACTCGAACAATCTTCTG
151516 GTGTAATTCT
Statistics
Matches: 157, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 155 0.99
54 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (53 bp):
GAACTCGAACAATCTTCTGCTAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTA
Found at i:151427 original size:106 final size:106
Alignment explanation
Indices: 151311--151509 Score: 344
Period size: 106 Copynumber: 1.9 Consensus size: 106
151301 CTAAAAATGG
* * *
151311 GTTCGCTCCCTATTGCTTCAGAGAGTAGAACTCGAATAATCTTCTGCTTACGGGTTCGCTCCCTC
1 GTTCGCTCCCTATTGCTTCAGAGAGTAGAACTCGAACAATCATCTGCCTACGGGTTCGCTCCCTC
*
151376 TTGCTTCAGGGGGTAGAACTCGAACAATCTTTTGCCTACTA
66 TTGCTTCAGGGAGTAGAACTCGAACAATCTTTTGCCTACTA
* *
151417 GTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCATCTGCCTACGGGTTCGCTCCCTC
1 GTTCGCTCCCTATTGCTTCAGAGAGTAGAACTCGAACAATCATCTGCCTACGGGTTCGCTCCCTC
151482 TTGCTTCAGGGAGTAGAACTCGAACAAT
66 TTGCTTCAGGGAGTAGAACTCGAACAAT
151510 TTTCTGGTGT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 87 1.00
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (106 bp):
GTTCGCTCCCTATTGCTTCAGAGAGTAGAACTCGAACAATCATCTGCCTACGGGTTCGCTCCCTC
TTGCTTCAGGGAGTAGAACTCGAACAATCTTTTGCCTACTA
Found at i:152077 original size:22 final size:22
Alignment explanation
Indices: 152052--152119 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
152042 ACTGATGGTC
152052 CGAAGAACTTCATCATCATGCT
1 CGAAGAACTTCATCATCATGCT
* *
152074 CGAA-AGACTT-A-C-TGATGGCC
1 CGAAGA-ACTTCATCATCAT-GCT
*
152094 CGAAGGACTTCATCATCATGCT
1 CGAAGAACTTCATCATCATGCT
152116 CGAA
1 CGAA
152120 AGACTTACTG
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
19 3 0.09
20 11 0.31
21 3 0.09
22 15 0.43
23 3 0.09
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (22 bp):
CGAAGAACTTCATCATCATGCT
Done.