Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 192 of 325
Found at i:58990248 original size:95 final size:96
Alignment explanation
Indices: 58990080--58990349 Score: 318
Period size: 95 Copynumber: 2.8 Consensus size: 96
58990070 CAAAGTACCA
* * * **
58990080 ATGCCATGACCCAGACATGGTCTTACATGAATCCACATATA--ATCGCCAATGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTCTTACA--CAGGCACATATATCATCGCCAATGCCATGTCCCAGA
58990143 CATGGTCTTACA-ATGGCACATATATCATCCCCG
64 CATGGTCTTACACA-GGCACATATATCATCCCCG
*
58990176 ATGCCATGTCCCAAACATGGTCTTATACAGGCACATATATCATCGCC-ATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCGCCAATGCCATGTCCCAGACA
* ***
58990240 TGGTCTTACACAGGTACATATATCATCGTTG
66 TGGTCTTACACAGGCACATATATCATCCCCG
* * * *
58990271 ATGCCATGTCCTAGACATGGTCTTACACAGGCACACT-TCTCGGAT-GCCAATGCCATGTCCCAA
1 ATGCCATGTCCCAAACATGGTCTTACACAGGCACA-TATATC--ATCGCCAATGCCATGTCCCAG
58990334 ACATGGTCTTACACAG
63 ACATGGTCTTACACAG
58990350 AATCTCATTT
Statistics
Matches: 152, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
94 9 0.06
95 77 0.51
96 35 0.23
97 31 0.20
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCGCCAATGCCATGTCCCAGACA
TGGTCTTACACAGGCACATATATCATCCCCG
Found at i:59004299 original size:130 final size:129
Alignment explanation
Indices: 59004128--59004372 Score: 402
Period size: 130 Copynumber: 1.9 Consensus size: 129
59004118 GGAAAAAAAT
59004128 GCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
*
59004193 AGCAGCGTTTGTG-GAAAAAGCGCAGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
66 AGCAGCGTTTGTGCG-AAAAGCGCAGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
* * *
59004257 GCCGCTAAATGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAGGCTTT
1 GCCGCTAAAGGTCAAGGC-TTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTT
* * *
59004322 TAGCGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
65 TAGCAGCGTTTGTGCGAAAAGCGCAGCTAAACGTCAAGGCTTTTAGCGGCG
59004373 CTTTTTTTAC
Statistics
Matches: 107, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
129 17 0.16
130 89 0.83
131 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (129 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
AGCAGCGTTTGTGCGAAAAGCGCAGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
Found at i:59004324 original size:87 final size:86
Alignment explanation
Indices: 59004128--59004372 Score: 402
Period size: 87 Copynumber: 2.8 Consensus size: 86
59004118 GGAAAAAAAT
* * *
59004128 GCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAGGCTTTT
*
59004193 AGCAGCGTTTGTGGAAAAAGC
66 AGCGGCGTTTGTGGAAAAAGC
* *
59004214 GCAGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAATGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAGGC-TTT
*
59004279 TAGCGGCGTTTGTGGTAAAAGC
65 TAGCGGCGTTTGTGGAAAAAGC
59004301 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCGT-AAAGCGCCGCTAAACGTCAAGGCTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GTAAAAGCGCCGCTAAACGTCAAGGCTTT
59004365 TAGCGGCG
65 TAGCGGCG
59004373 CTTTTTTTAC
Statistics
Matches: 149, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
86 68 0.46
87 79 0.53
88 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (86 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAGGCTTTT
AGCGGCGTTTGTGGAAAAAGC
Found at i:59004395 original size:43 final size:43
Alignment explanation
Indices: 59004128--59004372 Score: 402
Period size: 43 Copynumber: 5.7 Consensus size: 43
59004118 GGAAAAAAAT
* *
59004128 GCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
* *
59004171 GCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGAAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
*
59004214 GCAGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
*
59004257 GCCGCTAAATGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGC
1 GCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGTAAAAGC
59004301 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCGT-AAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GTAAAAGC
*
59004344 GCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
59004373 CTTTTTTTAC
Statistics
Matches: 192, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
43 148 0.77
44 44 0.23
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGC
Found at i:59004818 original size:21 final size:21
Alignment explanation
Indices: 59004768--59004818 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
59004758 CCATCGCTCG
*
59004768 TGCCTCTGCCTCTCTCGCTAC
1 TGCCTCTGCCTCCCTCGCTAC
* * * *
59004789 AGCCGCTGCCTCCCTCTCTGC
1 TGCCTCTGCCTCCCTCGCTAC
59004810 TGCCTCTGC
1 TGCCTCTGC
59004819 TCTAAGTTGT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.49, G:0.18, T:0.29
Consensus pattern (21 bp):
TGCCTCTGCCTCCCTCGCTAC
Found at i:59010464 original size:9 final size:9
Alignment explanation
Indices: 59010452--59010668 Score: 184
Period size: 9 Copynumber: 23.4 Consensus size: 9
59010442 AATTATATAT
*
59010452 TTATCTAAG
1 TTATATAAG
59010461 TTATATAAG
1 TTATATAAG
*
59010470 TTATGTAAG
1 TTATATAAG
* *
59010479 TTATGTAAAT
1 TTATAT-AAG
*
59010489 TATGATATAAAA
1 T-T-ATAT-AAG
*
59010501 TATATTTAAG
1 T-TATATAAG
*
59010511 TATTATGTAAG
1 --TTATATAAG
*
59010522 TTATGTAAG
1 TTATATAAG
*
59010531 TTATAT-AT
1 TTATATAAG
*
59010539 TTATCTAAG
1 TTATATAAG
59010548 TTATATAAG
1 TTATATAAG
59010557 TTATATAAG
1 TTATATAAG
* *
59010566 TTATGTATG
1 TTATATAAG
59010575 TTATATAAG
1 TTATATAAG
*
59010584 TTATGTAAG
1 TTATATAAG
*
59010593 TTATATATG
1 TTATATAAG
59010602 TTATATAAG
1 TTATATAAG
*
59010611 TTATGTAAG
1 TTATATAAG
59010620 TTATATAAG
1 TTATATAAG
59010629 TTATATAAG
1 TTATATAAG
* *
59010638 TTATGTACG
1 TTATATAAG
* *
59010647 TTTTGTAAG
1 TTATATAAG
*
59010656 TTATATAAA
1 TTATATAAG
59010665 TTAT
1 TTAT
59010669 GATATCAAAT
Statistics
Matches: 172, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
8 6 0.03
9 140 0.81
10 5 0.03
11 11 0.06
12 10 0.06
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:59010491 original size:27 final size:27
Alignment explanation
Indices: 59010452--59010669 Score: 222
Period size: 27 Copynumber: 7.9 Consensus size: 27
59010442 AATTATATAT
*
59010452 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
59010479 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
59010511 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
59010539 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
59010566 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
59010593 TTATATATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
59010620 TTATATAAGTTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
59010647 TTTTGTAAGTTATATAAATTATG
1 TTATGTAAGTTATATAAGTTATG
59010670 ATATCAAATA
Statistics
Matches: 162, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 22 0.14
27 101 0.62
28 4 0.02
29 5 0.03
30 7 0.04
31 6 0.04
32 8 0.05
33 3 0.02
34 6 0.04
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:59010794 original size:15 final size:15
Alignment explanation
Indices: 59010774--59010829 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
59010764 AAGTAGCGGG
59010774 ATTAAATAATATTTA
1 ATTAAATAATATTTA
59010789 ATTAAATAATATTT-
1 ATTAAATAATATTTA
59010803 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
59010818 ATTAAGTAATAT
1 ATTAAATAATAT
59010830 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:59015341 original size:10 final size:11
Alignment explanation
Indices: 59015320--59015370 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
59015310 ACTAAACCAC
59015320 TTTTCATATATA
1 TTTT-ATATATA
59015332 TATTTATATATA
1 T-TTTATATATA
*
59015344 TTTTAAAATAATA
1 TTTT-ATAT-ATA
59015357 TTTTATATATA
1 TTTTATATATA
59015368 TTT
1 TTT
59015371 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:59015379 original size:15 final size:15
Alignment explanation
Indices: 59015359--59015390 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59015349 AAATAATATT
*
59015359 TTATATATATTTATC
1 TTATATACATTTATC
59015374 TTATATACATTTATC
1 TTATATACATTTATC
59015389 TT
1 TT
59015391 CTAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:59016467 original size:41 final size:41
Alignment explanation
Indices: 59016410--59016604 Score: 278
Period size: 41 Copynumber: 4.9 Consensus size: 41
59016400 GTTATGAGAT
59016410 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
*
59016451 TTTTAGCGGCGTTTTACCT-AAAGTGCCGCTAA-----T-GC
1 TTTTAGCGGCGTTTTA-CTGAAAGCGCCGCTAATGCTCTGGC
*
59016486 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTTGC
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
*
59016527 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
* * *
59016568 TTTTAGCGGTGTTTTACAGAAAACGCCGCTAATGCTC
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTC
59016605 ATAGGGCGAA
Statistics
Matches: 140, Mismatches: 6, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
34 2 0.01
35 30 0.21
36 1 0.01
40 1 0.01
41 104 0.74
42 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGC
Found at i:59016536 original size:76 final size:78
Alignment explanation
Indices: 59016410--59016604 Score: 277
Period size: 76 Copynumber: 2.5 Consensus size: 78
59016400 GTTATGAGAT
** *
59016410 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCTAAAGT
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
59016475 GCCGCTAA-T-GC
66 GCCGCTAACTGGC
*
59016486 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTTGCTTTTAGCGGCGTTTTACAGAAAGC
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
59016551 GCCGCTAATGCTCTGGC
66 GCCGCTAA----CTGGC
* * *
59016568 TTTTAGCGGTGTTTTACAGAAAACGCCGCTAATGCTC
1 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTC
59016605 ATAGGGCGAA
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
76 69 0.65
81 1 0.01
82 36 0.34
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (78 bp):
TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
GCCGCTAACTGGC
Found at i:59019002 original size:18 final size:18
Alignment explanation
Indices: 59018923--59019016 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
59018913 CAAGGTCCCG
*
59018923 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
59018941 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
59018959 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
59018977 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
59018995 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
59019010 ATCAATA
1 ATCAATA
59019017 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:59019003 original size:9 final size:9
Alignment explanation
Indices: 59018923--59019003 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
59018913 CAAGGTCCCG
*
59018923 ATCAATAGC
1 ATCAATATC
* *
59018932 GTCACTATC
1 ATCAATATC
*
59018941 ATCAATAGC
1 ATCAATATC
* * *
59018950 GTCACTAGC
1 ATCAATATC
59018959 ATCAATATC
1 ATCAATATC
* * *
59018968 GTCACTAGC
1 ATCAATATC
59018977 ATCAATATC
1 ATCAATATC
* *
59018986 GTCACTATC
1 ATCAATATC
59018995 ATCAATATC
1 ATCAATATC
59019004 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:59021412 original size:21 final size:21
Alignment explanation
Indices: 59021382--59021470 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
59021372 CTCACAAAGA
* *
59021382 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
59021402 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
59021423 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
59021444 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
59021468 AAA
1 AAA
59021471 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:59021463 original size:24 final size:21
Alignment explanation
Indices: 59021382--59021450 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
59021372 CTCACAAAGA
* * *
59021382 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
59021402 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
59021423 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
59021444 AAAAAGA
1 AAAAAGA
59021451 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:59045206 original size:27 final size:27
Alignment explanation
Indices: 59045149--59045300 Score: 144
Period size: 27 Copynumber: 5.6 Consensus size: 27
59045139 CATGATAGCT
** * * *
59045149 AAAGAATAGCCTTTGTGGCAAATTTTG
1 AAAGAATAGCCTTTGTGGTGAACTCTA
*
59045176 AAAGAATAGCCATTGTGGTGAACTCTA
1 AAAGAATAGCCTTTGTGGTGAACTCTA
* * *
59045203 AAAGGATAGTCTTTGTGTTGAACTCTA
1 AAAGAATAGCCTTTGTGGTGAACTCTA
* * * *
59045230 AAAGAATAACCTTTGTGATGAATTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTA
* * *
59045257 AAAGAATAGTCTTTGTAGTGAACTTTA
1 AAAGAATAGCCTTTGTGGTGAACTCTA
59045284 AAAGAA-ATGCCTTTGTG
1 AAAGAATA-GCCTTTGTG
59045301 AAAAATTCTG
Statistics
Matches: 99, Mismatches: 25, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
26 1 0.01
27 98 0.99
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGTGAACTCTA
Found at i:59045298 original size:81 final size:81
Alignment explanation
Indices: 59045149--59045300 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
59045139 CATGATAGCT
* * * * * *
59045149 AAAGAATAGCCTTTGTGGCAAATTTTGAAAGAATAGCCATTGTGGTGAACTCTAAAAGGATAGTC
1 AAAGAATAACCTTTGTGACAAATTCTGAAAGAATAGCCATTGTAGTGAACTCTAAAAGAATAGCC
59045214 TTTGTGTTGAACTCTA
66 TTTGTGTTGAACTCTA
** * * *
59045230 AAAGAATAACCTTTGTGATGAATTCTGAAAGAATAGTCTTTGTAGTGAACTTTAAAAGAA-ATGC
1 AAAGAATAACCTTTGTGACAAATTCTGAAAGAATAGCCATTGTAGTGAACTCTAAAAGAATA-GC
59045294 CTTTGTG
65 CTTTGTG
59045301 AAAAATTCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.02
81 58 0.98
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (81 bp):
AAAGAATAACCTTTGTGACAAATTCTGAAAGAATAGCCATTGTAGTGAACTCTAAAAGAATAGCC
TTTGTGTTGAACTCTA
Found at i:59045441 original size:19 final size:19
Alignment explanation
Indices: 59045417--59045454 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59045407 TGAATATGAA
59045417 TGTCTATCTCTATGGTAAG
1 TGTCTATCTCTATGGTAAG
59045436 TGTCTATCTCTATGGTAAG
1 TGTCTATCTCTATGGTAAG
59045455 ATATGAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
TGTCTATCTCTATGGTAAG
Found at i:59049237 original size:39 final size:38
Alignment explanation
Indices: 59049057--59049259 Score: 183
Period size: 38 Copynumber: 5.2 Consensus size: 38
59049047 CTAACACTTG
* * * * *
59049057 GCCTGCGAGGAATAAACCCAAACATAACACCAGCACGAA
1 GCCTGCG-GGATTTAACCCAGATATAATACCAGCACGAA
* * * *
59049096 GCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAG
1 GCCTGCGGGA-TTT-AACCCAGATATAATACCAGCACGAA
* * *
59049136 GCCTGTGGGATTTAACCCAGATAAAATACTAGCACGAA
1 GCCTGCGGGATTTAACCCAGATATAATACCAGCACGAA
* *
59049174 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
1 GCCTGCGGGATTTAACCCAGATATAATACCAGCACGAA
* * * * *
59049212 GCCTGCTGGGTTTTAACTCGGATATAATTCCAGCA-TATA
1 GCCTGC-GGGATTTAACCCAGATATAATACCAGCACGA-A
59049251 GCCTGCGGG
1 GCCTGCGGG
59049260 TCTTTAAGCC
Statistics
Matches: 134, Mismatches: 26, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
38 66 0.49
39 41 0.31
40 27 0.20
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (38 bp):
GCCTGCGGGATTTAACCCAGATATAATACCAGCACGAA
Found at i:59053475 original size:57 final size:58
Alignment explanation
Indices: 59053397--59053505 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 58
59053387 GCCCACTGAT
* *
59053397 CGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACATAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATTAC
* * * * *
59053454 CGATTTCGTACACATTGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTC
59053506 TAATCATTCG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 25 0.57
58 19 0.43
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCGCACACACAGTGCCTCAATTAC
Found at i:59053720 original size:43 final size:43
Alignment explanation
Indices: 59053659--59054009 Score: 479
Period size: 43 Copynumber: 8.2 Consensus size: 43
59053649 CCTTGCTCGA
** * * *
59053659 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCAAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
* * * * *
59053702 ATCACTGGCATGGAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
* * *
59053745 ATCACAGACACGAAGCCTGCTAGGCATGAAA-GCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCA-CAAAGGCCCGAATACAC
*
59053788 ATCACCGGCACAAAGCCTGCTAGGCACAAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
* * *
59053831 ATCACTGGCACGAAGCCTGCTAGGCACAAATGCCCGAATACTC
1 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
* *
59053874 ATCACCAGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACTC
1 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
59053917 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
* ** *
59053960 ATCATCGATACGAAGCCTGCAAGGCACAAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
59054003 ATCACCG
1 ATCACCG
59054010 AGTATCATGC
Statistics
Matches: 275, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
42 3 0.01
43 270 0.98
44 2 0.01
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACAC
Found at i:59055656 original size:38 final size:38
Alignment explanation
Indices: 59055582--59055732 Score: 185
Period size: 38 Copynumber: 3.9 Consensus size: 38
59055572 ACATAACACC
* *** *
59055582 AGCACGAAGCCTACGGGACTTTAAACTAAGATATAATACC
1 AGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATACA
* * * *
59055622 AGCACCAGGCCTGTGGGATTTAACCCGGATATAATACT
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACA
* *
59055660 AGCATGAAGCCTGCGGGATTTAACCCGGATATATTACA
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACA
59055698 AGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
59055733 TCCAACATAT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 78 0.82
39 3 0.03
40 14 0.15
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACA
Found at i:59055716 original size:76 final size:78
Alignment explanation
Indices: 59055611--59055768 Score: 205
Period size: 76 Copynumber: 2.1 Consensus size: 78
59055601 TTTAAACTAA
* * * * *
59055611 GATATAATACCAGCACCAGGCCTGTGGGATTTAACCCGGATATAATACTAGCATGA-AGCCTGCG
1 GATATAATACAAGCACCAAGCCTGCGGGATTTAACCCGGATATAATACCAACAT-ATAGCCTGCG
59055675 GG-ATTTAA-CCCG
65 GGTATTTAAGCCCG
* * *
59055687 GATATATTACAAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAACATATAGCCTGCGG
1 GATATAATACAAGCACCAAGCCTGCGGGATTTAACCCGGATATAATACCAACATATAGCCTGCGG
*
59055752 GTCTTTAAGCCCG
66 GTATTTAAGCCCG
59055765 GATA
1 GATA
59055769 CACATCAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.01
76 56 0.80
77 5 0.07
78 8 0.11
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (78 bp):
GATATAATACAAGCACCAAGCCTGCGGGATTTAACCCGGATATAATACCAACATATAGCCTGCGG
GTATTTAAGCCCG
Found at i:59055747 original size:38 final size:37
Alignment explanation
Indices: 59055630--59055768 Score: 154
Period size: 38 Copynumber: 3.6 Consensus size: 37
59055620 CCAGCACCAG
* * * *
59055630 GCCTGTGGGATTTAACCCGGATATAATACTAGCATGAA
1 GCCTGCGGGATTTAACCCGGATATAATTCCAACAT-AA
* *
59055668 GCCTGCGGGATTTAACCCGGATAT-ATTACAAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATTCCAA-CA-TAA
59055706 GCCTGCGGGATTTAACCCGGATATAATTCCAACATATA
1 GCCTGCGGGATTTAACCCGGATATAATTCCAACATA-A
*
59055744 GCCTGCGGGTCTTTAAGCCCGGATA
1 GCCTGCGGG-ATTTAA-CCCGGATA
59055769 CACATCAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
37 4 0.05
38 63 0.73
39 11 0.13
40 8 0.09
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (37 bp):
GCCTGCGGGATTTAACCCGGATATAATTCCAACATAA
Found at i:59058168 original size:2 final size:2
Alignment explanation
Indices: 59058161--59058191 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59058151 ACATTAAATG
59058161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59058192 TAACTCAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59065989 original size:27 final size:28
Alignment explanation
Indices: 59065926--59065998 Score: 121
Period size: 27 Copynumber: 2.6 Consensus size: 28
59065916 TTAAAATTTG
59065926 TATAGCACTAAGTGTGCGAGTTTGATCA
1 TATAGCACTAAGTGTGCGAGTTTGATCA
* *
59065954 TATAACACTAAGTGTGCGAG-TTGATTA
1 TATAGCACTAAGTGTGCGAGTTTGATCA
59065981 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
59065999 GACTCACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTTGATCA
Found at i:59072036 original size:29 final size:29
Alignment explanation
Indices: 59071996--59072069 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
59071986 GTTGAGAGAT
* *
59071996 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
59072025 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
59072054 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59072070 CGGCTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:59080088 original size:29 final size:29
Alignment explanation
Indices: 59080048--59080121 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
59080038 GTTGAGAGAT
* *
59080048 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
59080077 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
59080106 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59080122 CGGCTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:59082693 original size:41 final size:40
Alignment explanation
Indices: 59082648--59082733 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
59082638 GCTAGGTTTA
* *
59082648 AAGCCCAAATCCAATCACCACCACAAAGCATGCGGGACTTT
1 AAGCCCAAATACAAT-ACCAACACAAAGCATGCGGGACTTT
* * *
59082689 AAGCCCAGATATAATACCAACACAAAGCCTGCGGGACTTT
1 AAGCCCAAATACAATACCAACACAAAGCATGCGGGACTTT
59082729 -AGCCC
1 AAGCCC
59082734 GGATATAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.12
40 23 0.57
41 12 0.30
ACGTcount: A:0.36, C:0.33, G:0.16, T:0.15
Consensus pattern (40 bp):
AAGCCCAAATACAATACCAACACAAAGCATGCGGGACTTT
Found at i:59082715 original size:40 final size:39
Alignment explanation
Indices: 59082663--59082862 Score: 138
Period size: 39 Copynumber: 5.1 Consensus size: 39
59082653 CAAATCCAAT
*
59082663 CACCACCACAAAGCATGCGGGACTTTAAGCCCAGATATAA
1 CACCAACACAAAGCATGCGGGACTTT-AGCCCAGATATAA
* * *
59082703 TACCAACACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAACACAAAGCATGCGGGACTTTAGCCCAGATATAA
* * * * * *
59082742 CACCAGCACGAATGCCTTCGGG-C-TTAACCCGGATATAA
1 CACCAACAC-AAAGCATGCGGGACTTTAGCCCAGATATAA
* * * * * *
59082780 CACCAGCACGAATGCTTTCGAGAC-TTAGCCCGGATATAA
1 CACCAACAC-AAAGCATGCGGGACTTTAGCCCAGATATAA
* * * * * *
59082819 CACCAGCATGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAACA-CAAAGCATGCGGGACTTTAGCCCAGATATAA
59082858 CACCA
1 CACCA
59082863 GCATGAATGC
Statistics
Matches: 142, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 34 0.24
39 75 0.53
40 33 0.23
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (39 bp):
CACCAACACAAAGCATGCGGGACTTTAGCCCAGATATAA
Found at i:59082823 original size:39 final size:38
Alignment explanation
Indices: 59082690--59082896 Score: 263
Period size: 39 Copynumber: 5.3 Consensus size: 38
59082680 CGGGACTTTA
* * * * *
59082690 AGCCCAGATATAATACCAACAC-AAAGCCTGCGGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTC-GGAC-TT
*
59082729 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGACTT
* *
59082767 AACCCGGATATAACACCAGCACGAATGCTTTCGAGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCG-GACTT
*
59082806 AGCCCGGATATAACACCAGCATGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTC-GGACTT
* *
59082845 AGCCCGGATATAACACCAGCATGAATGCCTTTAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCC-TTCGGACTT
59082884 AGCCCGGATATAA
1 AGCCCGGATATAA
59082897 TTCTCCATTA
Statistics
Matches: 151, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
38 33 0.22
39 108 0.72
40 10 0.07
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (38 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGACTT
Found at i:59090220 original size:40 final size:40
Alignment explanation
Indices: 59090008--59090213 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
59089998 AACCCAAGTA
* * *
59090008 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
59090047 CCTTCGGGTCTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59090087 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59090127 CCTTCGGGACGTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59090167 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59090207 CCTTCGG
1 CCTTCGG
59090214 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.08
40 143 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59096294 original size:40 final size:40
Alignment explanation
Indices: 59096250--59096480 Score: 363
Period size: 40 Copynumber: 5.8 Consensus size: 40
59096240 AAATCAACGT
* **
59096250 ATGCTCTTCGGGACTTAGCCTGGATGTAACACCAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGA
*
59096290 ATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGA
**
59096330 ATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGA
*
59096370 ATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGA
*
59096410 ATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGA
1 ATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGA
* * *
59096450 ATGCTCTTCGGGGCCTAGCCCGGATATAACA
1 ATGCTCTTCGGGACTTAGCCCGGATACAACA
59096481 TACTGAACTT
Statistics
Matches: 177, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (40 bp):
ATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGA
Found at i:59098550 original size:47 final size:47
Alignment explanation
Indices: 59098484--59098821 Score: 471
Period size: 47 Copynumber: 7.1 Consensus size: 47
59098474 TATCACAGTT
* * *
59098484 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCATATAC
* *
59098531 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
*
59098578 ATACACTTGCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
* ** *
59098627 ATATACCATCACATTCATCACATTGGCCATTCGGCCTTATCATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
*
59098674 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
* *
59098723 ATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
* *
59098770 ATACACTTTCACATTCATCACGTTGGTCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
59098819 ATA
1 ATA
59098822 TCATGTACAT
Statistics
Matches: 261, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
47 164 0.63
48 2 0.01
49 95 0.36
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
Found at i:59098668 original size:96 final size:96
Alignment explanation
Indices: 59098484--59098822 Score: 540
Period size: 96 Copynumber: 3.6 Consensus size: 96
59098474 TATCACAGTT
* * * *
59098484 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATACATATACCTTCACATT
59098546 CATCACATTGGCCATTCGGCCTTATCACATAC
65 CATCACATTGGCCATTCGGCCTTATCACATAC
* *
59098578 ATACACTTGCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATATACCATCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATATACCTTCACATTC
* *
59098643 ATCACATTGGCCATTCGGCCTTATCATATAT
66 ATCACATTGGCCATTCGGCCTTATCACATAC
* *
59098674 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATATACCTTCACATTC
59098739 ATCACATTGGCCATTCGGCCTTATCACATAC
66 ATCACATTGGCCATTCGGCCTTATCACATAC
* *
59098770 ATACACTTTCACATTCATCACGTTGGTCATTCGGCCTTATCACATATACATAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATAT
59098823 CATGTACATC
Statistics
Matches: 225, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
94 35 0.16
95 2 0.01
96 188 0.84
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATATACCTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:59098770 original size:143 final size:142
Alignment explanation
Indices: 59098499--59098817 Score: 525
Period size: 143 Copynumber: 2.2 Consensus size: 142
59098489 CTTCCACTTC
*
59098499 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
59098564 GCCTTATCACATACATACACTTGCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
66 GCCTTATCACATACATACACTTGCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATACAT
*
59098629 ATACCATCACATT
130 ACACCATCACATT
59098642 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
59098707 GCCTTATCACATATACATACACCTT-CACATTCATCACATTGGCCATTCGGCCTTATCAC-ATAC
66 GCCTTATCAC--ATACATACA-CTTGCACATTCATCACATTGGCCATTCGGCCTTATCACAATAC
**
59098770 ATACACTTTCACATT
128 ATACACCATCACATT
* * *
59098785 CATCACGTTGGTCATTCGGCCTTATCACATATA
1 CATCACATTGGCCATTCGGCCTTATCATATATA
59098818 CATATCATGT
Statistics
Matches: 166, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
143 120 0.72
145 43 0.26
146 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (142 bp):
CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATACATACACTTGCACATTCATCACATTGGCCATTCGGCCTTATCACAATACATA
CACCATCACATT
Found at i:59101958 original size:39 final size:39
Alignment explanation
Indices: 59101843--59102063 Score: 298
Period size: 39 Copynumber: 5.6 Consensus size: 39
59101833 TCGTTCAAAC
* * ** * **
59101843 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
59101883 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
59101923 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
59101962 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
59102001 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
59102040 GCCTTCGGGCTTAGCCCGGATATC
1 GCCTTCGGGCTTAGCCCGGATATC
59102064 CTCGAACATT
Statistics
Matches: 163, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 125 0.77
40 38 0.23
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:59102043 original size:117 final size:119
Alignment explanation
Indices: 59101843--59102063 Score: 356
Period size: 117 Copynumber: 1.9 Consensus size: 119
59101833 TCGTTCAAAC
* **
59101843 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
59101908 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * ** *
59101962 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
59102025 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATC
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATC
59102064 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 53 0.56
118 32 0.34
119 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (119 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:59110068 original size:39 final size:39
Alignment explanation
Indices: 59109981--59110172 Score: 285
Period size: 39 Copynumber: 4.9 Consensus size: 39
59109971 TATGGTAACC
** * *
59109981 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
59110021 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
59110060 CGCCCAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
59110099 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
59110138 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
59110173 TCGAACATTC
Statistics
Matches: 140, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 125 0.89
40 15 0.11
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:59110150 original size:117 final size:119
Alignment explanation
Indices: 59109950--59110171 Score: 358
Period size: 117 Copynumber: 1.9 Consensus size: 119
59109940 TCGTTCAAAC
* **
59109950 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
59110015 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
* * ** *
59110069 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
59110132 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
59110172 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 54 0.57
118 32 0.34
119 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (119 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
Found at i:59117294 original size:18 final size:18
Alignment explanation
Indices: 59117267--59117307 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
59117257 TATCATATAC
*
59117267 ATAAATATTATTCATCAT
1 ATAAAGATTATTCATCAT
59117285 ATAAAGATTATTCATCAT
1 ATAAAGATTATTCATCAT
59117303 ATAAA
1 ATAAA
59117308 CCTTTTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (18 bp):
ATAAAGATTATTCATCAT
Found at i:59123941 original size:14 final size:15
Alignment explanation
Indices: 59123924--59123956 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
59123914 TATTTATAGT
59123924 TTAATTGAACTTAA-
1 TTAATTGAACTTAAC
*
59123938 TTAATTTAACTTAAC
1 TTAATTGAACTTAAC
59123953 TTAA
1 TTAA
59123957 ATTAATCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (15 bp):
TTAATTGAACTTAAC
Found at i:59124776 original size:19 final size:19
Alignment explanation
Indices: 59124752--59124789 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59124742 AAGACAAGCC
59124752 CACCTTATATTATCTCAGT
1 CACCTTATATTATCTCAGT
59124771 CACCTTATATTATCTCAGT
1 CACCTTATATTATCTCAGT
59124790 TTCTCCCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (19 bp):
CACCTTATATTATCTCAGT
Found at i:59137993 original size:44 final size:43
Alignment explanation
Indices: 59137925--59138126 Score: 141
Period size: 42 Copynumber: 4.8 Consensus size: 43
59137915 CCAATATGTG
*
59137925 ATTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGATTTGAT
1 ATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGAT
* * * * *
59137968 ATTTACGTGTAATATCACGTTTGGGACGTTGGCATCGATTTAAG
1 ATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGAT
* * * * * *
59138012 A-TACGTGTAAGACCATGTCTGGGACATCGACATCG-TAT-AT
1 ATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGAT
* * *
59138052 GATTTCATGTAAGACC-CTATTTGGGACAG-TGGCATCGA-TTG--
1 -ATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATTTGAT
* * * *
59138093 ATTACATGTAAGACCACGTTTGGGACATTGGCAT
1 ATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
59138127 TGTACGAGCT
Statistics
Matches: 122, Mismatches: 28, Indels: 21
0.71 0.16 0.12
Matches are distributed among these distances:
40 29 0.24
41 4 0.03
42 50 0.41
43 5 0.04
44 34 0.28
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
ATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGAT
Found at i:59138035 original size:42 final size:44
Alignment explanation
Indices: 59137929--59138036 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
59137919 TATGTGATTT
* **
59137929 CGTGTAAGACCACGTCTGGGACGTTGGCATTGATTTGATATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATAGATA
* * *
59137973 CGTGTAATATCACGTTTGGGACGTTGGCATCGATTT-A-AGATA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATAGATA
*
59138015 CGTGTAAGACCATGTCTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
59138037 ATCGACATCG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 21 0.39
43 1 0.02
44 32 0.59
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATAGATA
Found at i:59138063 original size:42 final size:39
Alignment explanation
Indices: 59138017--59138120 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 39
59138007 TTAAGATACG
* *
59138017 TGTAAGACCATGTCTGGGACATCGACATCGTATATGATTTCA
1 TGTAAGACCATGTTTGGGACAT-GACATCG-AT-TGATTACA
* * *
59138059 TGTAAGACCCTATTTGGGACAGTGGCATCGATTGATTACA
1 TGTAAGACCATGTTTGGGACA-TGACATCGATTGATTACA
*
59138099 TGTAAGACCACGTTTGGGACAT
1 TGTAAGACCATGTTTGGGACAT
59138121 TGGCATTGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 25 0.47
41 2 0.04
42 24 0.45
43 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (39 bp):
TGTAAGACCATGTTTGGGACATGACATCGATTGATTACA
Found at i:59146728 original size:40 final size:40
Alignment explanation
Indices: 59146664--59146866 Score: 198
Period size: 40 Copynumber: 5.1 Consensus size: 40
59146654 CTAAGATCCA
* * *
59146664 AAGGCATTTGTGCGAGTTG-CTATATCCGAGCTATGTCCCG
1 AAGGCATTTATGCGAG-CGACTATATCCGAGCTAAGTCCCG
* *
59146704 AAGGCATTTATGCTAGCGATTATATCCGAGCTAAGTCCCG
1 AAGGCATTTATGCGAGCGACTATATCCGAGCTAAGTCCCG
* ** *
59146744 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTATGCGAGCGACTATATCCGAGCTAAGTCCCG
* ** * * *
59146784 AAGGCATTTGTGCGAGTTACTGTAACCGGGCTAAGTCCCG
1 AAGGCATTTATGCGAGCGACTATATCCGAGCTAAGTCCCG
* *
59146824 AAGGCATTTGA-GCGAG-TAGCTATATCCG-GCTAAATCCCG
1 AAGGCATTT-ATGCGAGCGA-CTATATCCGAGCTAAGTCCCG
59146863 AAGG
1 AAGG
59146867 TACTTGGTTT
Statistics
Matches: 143, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 17 0.12
40 126 0.88
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
AAGGCATTTATGCGAGCGACTATATCCGAGCTAAGTCCCG
Found at i:59146787 original size:80 final size:80
Alignment explanation
Indices: 59146664--59146866 Score: 266
Period size: 80 Copynumber: 2.5 Consensus size: 80
59146654 CTAAGATCCA
* * * * * *
59146664 AAGGCATTTGTGCGAGTTGCTATATCCGAGCTATGTCCCGAAGGCATTTATGCTAGCGATTATAT
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCGACTATAA
59146729 CCGAGCTAAGTCCCG
66 CCGAGCTAAGTCCCG
* ** *
59146744 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCGACTATAA
*
59146809 CCGGGCTAAGTCCCG
66 CCGAGCTAAGTCCCG
* *
59146824 AAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 AAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
59146867 TACTTGGTTT
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
79 17 0.16
80 92 0.84
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCGACTATAA
CCGAGCTAAGTCCCG
Found at i:59154732 original size:40 final size:40
Alignment explanation
Indices: 59154665--59154870 Score: 290
Period size: 40 Copynumber: 5.2 Consensus size: 40
59154655 GGACTAAGAT
* *
59154665 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * ** * *
59154705 CCGAAGGCATTTATGCTAGCGATTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
59154745 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
59154785 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
59154825 CCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTC
59154864 CCGAAGG
1 CCGAAGG
59154871 TACTTGGTTT
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 17 0.11
40 132 0.89
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:59160022 original size:40 final size:38
Alignment explanation
Indices: 59159973--59160080 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
59159963 ATCACGATTT
*
59159973 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
59160013 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
59160053 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
59160081 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:59160040 original size:80 final size:80
Alignment explanation
Indices: 59159932--59160080 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
59159922 TATGGTAACC
* * * *
59159932 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
59159996 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
59160012 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
59160077 CCGG
66 CCGG
59160081 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:59164548 original size:40 final size:39
Alignment explanation
Indices: 59164503--59164710 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
59164493 CGGAATACAA
*
59164503 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
59164543 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
59164583 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
59164623 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
59164663 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
59164703 CCGGATAT
1 CCGGATAT
59164711 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59164643 original size:80 final size:81
Alignment explanation
Indices: 59164503--59164708 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
59164493 CGGAATACAA
* * *
59164503 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
59164567 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
59164583 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
59164646 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
59164663 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
59164709 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:59167348 original size:54 final size:54
Alignment explanation
Indices: 59167283--59167410 Score: 152
Period size: 54 Copynumber: 2.4 Consensus size: 54
59167273 TTAGTTTACC
* *
59167283 AAATTACCAAAATA-CCCTCGATTAGAAAAATTACCAAAATACC-CTCGATTAGCA
1 AAATTATCAAAATACCCCT-GATTAGAAAAATTACCAAAATACCTCT-AATTAGCA
* * * * *
59167337 AAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTAATTTGTA
1 AAATTATCAAAATACCCCTGATTAGAAAAATTACCAAAATACCTCTAATTAGCA
*
59167391 AAATTATCGAAATACCCCTG
1 AAATTATCAAAATACCCCTG
59167411 TAAGGTAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 58 0.91
55 6 0.09
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (54 bp):
AAATTATCAAAATACCCCTGATTAGAAAAATTACCAAAATACCTCTAATTAGCA
Found at i:59167388 original size:27 final size:27
Alignment explanation
Indices: 59167283--59167407 Score: 137
Period size: 27 Copynumber: 4.6 Consensus size: 27
59167273 TTAGTTTACC
*
59167283 AAATTACCAAAATACCCTCGATTAGAA
1 AAATTACCAAAATACCCTCGATTAGTA
*
59167310 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGTA
* * *
59167337 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTAGTA
* *
59167364 AAATTACCAAAATA-CCTCTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTAGTA
* *
59167391 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
59167408 CTGTAAGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.04
27 80 0.94
28 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTAGTA
Found at i:59167422 original size:27 final size:27
Alignment explanation
Indices: 59167392--59167596 Score: 234
Period size: 27 Copynumber: 7.6 Consensus size: 27
59167382 TAATTTGTAA
*
59167392 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
59167419 AATTATCGAAATACCACTGTAGGGTGG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * *
59167446 AATTA-CTAAAATACTCCTGTAAGGTAA
1 AATTATC-GAAATACCCCTGTAGGGTAG
59167473 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
59167500 AATTATTGAAATACCCCTGTTGGATAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
59167527 AATTACCGAAATACCCTTGTATGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
59167554 AAATA-CTGAAATACCCCTGTAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
* *
59167581 AATTACCGAGATACCC
1 AATTATCGAAATACCC
59167597 TCGTGGGGTA
Statistics
Matches: 147, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.01
27 143 0.97
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:59167423 original size:54 final size:54
Alignment explanation
Indices: 59167309--59167433 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 54
59167299 CTCGATTAGA
* **
59167309 AAAATTACCAAAATACCCTCGATTAGCAAAATTATCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTCAATTAGCAAAATTATCAAAATACCCCTGGTAGGT
* * *
59167363 AAAATTACCAAAATA-CCTCTAATTTGTAAAATTATCGAAATACCCCT-GTAAGGT
1 AAAATTACCAAAATACCCTC-AATTAGCAAAATTATCAAAATACCCCTGGT-AGGT
* * *
59167417 AGAATTATCGAAATACC
1 AAAATTACCAAAATACC
59167434 ACTGTAGGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 6 0.10
54 52 0.88
55 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCAATTAGCAAAATTATCAAAATACCCCTGGTAGGT
Found at i:59167423 original size:81 final size:80
Alignment explanation
Indices: 59167338--59167596 Score: 267
Period size: 81 Copynumber: 3.2 Consensus size: 80
59167328 CGATTAGCAA
* * * *
59167338 AATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTAATTTGTAAAATTATCGAAA
1 AATTATCGAAATACCCCT-GTTGGTAGAATTACCAAAATACCTCTAATTGGTAAAATTATCGAAA
*
59167403 TACCCCTGTAAGGTAG
65 TACCCCTGTAGGGTAG
* * * * *
59167419 AATTATCGAAATACCACTGTAGGGTGGAATTACTAAAATACTCCTGTAA--GGTAAAATTATCGA
1 AATTATCGAAATACCCCTGT-TGGTAGAATTACCAAAATA--CCTCTAATTGGTAAAATTATCGA
59167482 AATACCCCTGTAGGGTAG
63 AATACCCCTGTAGGGTAG
* * **
59167500 AATTATTGAAATACCCCTGTTGGATAGAATTACCGAAATACC-CTTGTATGGTAGAAA-TA-CTG
1 AATTATCGAAATACCCCTGTTGG-TAGAATTACCAAAATACCTCTAAT-TGGTA-AAATTATC-G
59167562 AAATACCCCTGTAGGGTAG
62 AAATACCCCTGTAGGGTAG
* *
59167581 AATTACCGAGATACCC
1 AATTATCGAAATACCC
59167597 TCGTGGGGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
78 1 0.01
79 2 0.01
80 5 0.03
81 130 0.88
82 3 0.02
83 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (80 bp):
AATTATCGAAATACCCCTGTTGGTAGAATTACCAAAATACCTCTAATTGGTAAAATTATCGAAAT
ACCCCTGTAGGGTAG
Found at i:59167612 original size:81 final size:81
Alignment explanation
Indices: 59167388--59167615 Score: 268
Period size: 81 Copynumber: 2.8 Consensus size: 81
59167378 CCTCTAATTT
* *
59167388 GTAAAATTATCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCACT-GTAGGGTGGAATTAC
1 GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTATCGAAATACC-CTCGTAGGGTAGAATTAC
*
59167452 TAAAATACTCCTGTAAG
65 CAAAATACTCCTGTAAG
* * *
59167469 GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCC-CTGTTGGATAGAATTAC
1 GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTC-GTAGGGTAGAATTAC
* *
59167533 CGAAATAC-CCTTGTATG
65 CAAAATACTCC-TGTAAG
* * * *
59167550 GTAGAAA-TA-CTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTCGTGGGGTAAAATTA
1 GTA-AAATTATC-GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTCGTAGGGTAGAATTA
59167613 CCA
64 CCA
59167616 TTTTGCCCCT
Statistics
Matches: 126, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
80 4 0.03
81 118 0.94
82 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (81 bp):
GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTCGTAGGGTAGAATTACC
AAAATACTCCTGTAAG
Found at i:59167974 original size:22 final size:22
Alignment explanation
Indices: 59167942--59168000 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
59167932 CCCGTTATCG
* *
59167942 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACATAAAT
* * *
59167964 ATGGCTTTGTGCCATCATGACT
1 ATGGCTTTGTGCCAACATAAAT
*
59167986 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
59168001 GCGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACATAAAT
Found at i:59168211 original size:28 final size:28
Alignment explanation
Indices: 59168179--59168235 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
59168169 CATTATCTGA
* *
59168179 TTCTGATGGCTCTGTCAC-AATATTCTAT
1 TTCTGATGGCTATGCCACAAATA-TCTAT
*
59168207 TTCTGGTGGCTATGCCACAAATATCTAT
1 TTCTGATGGCTATGCCACAAATATCTAT
59168235 T
1 T
59168236 CTGGTGTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (28 bp):
TTCTGATGGCTATGCCACAAATATCTAT
Found at i:59169994 original size:40 final size:40
Alignment explanation
Indices: 59169928--59170077 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
59169918 AAATTGAATG
* * *
59169928 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
59169967 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
59170007 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
59170047 CTATCCGGGCTAAGACCCGAAGGC-ATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
59170078 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 20 0.22
40 72 0.78
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59178023 original size:40 final size:40
Alignment explanation
Indices: 59177957--59178100 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 40
59177947 AAATTGAATG
* * * *
59177957 ATATCC-GGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
59177996 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
59178036 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
59178076 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
59178101 TTCGTGCACG
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
39 9 0.11
40 75 0.89
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59178121 original size:40 final size:40
Alignment explanation
Indices: 59177994--59178123 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
59177984 ATGCTGGAAA
* *
59177994 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
59178034 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
59178074 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
59178114 TTATATCCGG
1 TTATATCCGG
59178124 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:59179517 original size:27 final size:27
Alignment explanation
Indices: 59179487--59179545 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
59179477 GGGGTGTTAC
*
59179487 ATCTGGTGGCTCTGCCACAATATCTGT
1 ATCTGGTGACTCTGCCACAATATCTGT
*
59179514 ATCTGGTGACTCTGTCACAATATCTGT
1 ATCTGGTGACTCTGCCACAATATCTGT
59179541 -TCTGG
1 ATCTGG
59179546 CAGCCATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
ATCTGGTGACTCTGCCACAATATCTGT
Found at i:59179672 original size:6 final size:6
Alignment explanation
Indices: 59179663--59179787 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
59179653 TTGCATTCAC
* * * *
59179663 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG -TCACATA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* * * *
59179713 ATTCTG ATTCTG ATTTTG ATTATG ATTCTG -TCACCTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
59179762 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
59179788 AATGTTTCTT
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 73 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:59179722 original size:25 final size:25
Alignment explanation
Indices: 59179663--59179727 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
59179653 TTGCATTCAC
* * *
59179663 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACATA
* *
59179688 ATACTAATTCTGATTCTGTCACATA
1 ATTCTGATTCTGATTCTGTCACATA
59179713 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
59179728 TTGATTATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACATA
Found at i:59179726 original size:37 final size:37
Alignment explanation
Indices: 59179685--59179778 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
59179675 ATTCTGTTAC
* *
59179685 CTGATACTAATTCTGATTCTGTCACATAATTCTGATT
1 CTGATTCTAATTATGATTCTGTCACATAATTCTGATT
* * * *
59179722 CTGATTTTGATTATGATTCTGTCACCTGATTCTGATT
1 CTGATTCTAATTATGATTCTGTCACATAATTCTGATT
* * *
59179759 CTAATTCTCATTTTGATTCT
1 CTGATTCTAATTATGATTCT
59179779 AGTTCTGATA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (37 bp):
CTGATTCTAATTATGATTCTGTCACATAATTCTGATT
Found at i:59179757 original size:19 final size:19
Alignment explanation
Indices: 59179694--59179760 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
59179684 CCTGATACTA
*
59179694 ATTCTGATTCTGTCACATA
1 ATTCTGATTCTGTCACATG
**
59179713 ATTCTGATTCTG--ATTTTG
1 ATTCTGATTCTGTCA-CATG
* *
59179731 ATTATGATTCTGTCACCTG
1 ATTCTGATTCTGTCACATG
59179750 ATTCTGATTCT
1 ATTCTGATTCT
59179761 AATTCTCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 1 0.03
18 12 0.32
19 24 0.63
20 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (19 bp):
ATTCTGATTCTGTCACATG
Found at i:59193990 original size:20 final size:21
Alignment explanation
Indices: 59193965--59194003 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
59193955 TTCAAACTTG
*
59193965 TTTTATTTTTATTT-TTTTAC
1 TTTTATTTCTATTTATTTTAC
59193985 TTTTATTTCTATTTATTTT
1 TTTTATTTCTATTTATTTT
59194004 TGAAGACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTCTATTTATTTTAC
Found at i:59199421 original size:47 final size:47
Alignment explanation
Indices: 59199347--59199439 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
59199337 GGGTAAGAAG
* *
59199347 CCTTATTTAGTATAGGAAAATTTTTCCCAGTTCTGTTTATATATTTC
1 CCTTATTTAGCATAGGAAAATTCTTCCCAGTTCTGTTTATATATTTC
* *
59199394 CCTTATTTAGCATAGGAGAATTCTTCCCAGTTTTGTTTATATATTT
1 CCTTATTTAGCATAGGAAAATTCTTCCCAGTTCTGTTTATATATTT
59199440 TCTCAACTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (47 bp):
CCTTATTTAGCATAGGAAAATTCTTCCCAGTTCTGTTTATATATTTC
Found at i:59203474 original size:2 final size:2
Alignment explanation
Indices: 59203467--59203496 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59203457 TGGTTGAGAC
59203467 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
59203497 GCACTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59211487 original size:21 final size:21
Alignment explanation
Indices: 59211440--59211487 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
59211430 ATATGACATA
* * *
59211440 ATATGCACATGATATGTTATG
1 ATATACACATGATATGCTAAG
*
59211461 AGATACACATGATATGCTAAG
1 ATATACACATGATATGCTAAG
59211482 ATATAC
1 ATATAC
59211488 TTATTATATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (21 bp):
ATATACACATGATATGCTAAG
Found at i:59211590 original size:24 final size:25
Alignment explanation
Indices: 59211533--59211590 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
59211523 AAGAAGTGCG
59211533 AAAAG-GGCTTTGCCCCAGTTCACC
1 AAAAGAGGCTTTGCCCCAGTTCACC
**
59211557 AAAA-AGGGCTTTGCCCCAGTT-ATT
1 AAAAGA-GGCTTTGCCCCAGTTCACC
59211581 AAAAGAGGCT
1 AAAAGAGGCT
59211591 AGTCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTCACC
Found at i:59219595 original size:10 final size:11
Alignment explanation
Indices: 59219577--59219651 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 11
59219567 ATATTGTTAT
59219577 ACATGATATG-
1 ACATGATATGC
*
59219587 ACATAATATGC
1 ACATGATATGC
59219598 ACATGATATG-
1 ACATGATATGC
** *
59219608 TTATGAGATGC
1 ACATGATATGC
59219619 ACATGATATGC
1 ACATGATATGC
* *
59219630 -TATGATATAC
1 ACATGATATGC
* *
59219640 TCATTATATGC
1 ACATGATATGC
59219651 A
1 A
59219652 TGGGTTGGGT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
10 24 0.50
11 24 0.50
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:59219633 original size:21 final size:21
Alignment explanation
Indices: 59219577--59219634 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
59219567 ATATTGTTAT
* *
59219577 ACATGATATGAC-ATAATATGC
1 ACATGATATG-CTATGAGATGC
*
59219598 ACATGATATGTTATGAGATGC
1 ACATGATATGCTATGAGATGC
59219619 ACATGATATGCTATGA
1 ACATGATATGCTATGA
59219635 TATACTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:59221980 original size:39 final size:38
Alignment explanation
Indices: 59221937--59222020 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
59221927 TGAAAACAAG
59221937 TATTAATGATGTTCAAACTATGACATAATCAAAGACCCA
1 TATTAATGATGTTCAAACTATGACATAATCAAA-ACCCA
* * * * *
59221976 TATTAATGATGTTTAGATTATGACATAATTAAAACTCA
1 TATTAATGATGTTCAAACTATGACATAATCAAAACCCA
59222014 TATTAAT
1 TATTAAT
59222021 TGTAACACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 11 0.28
39 29 0.73
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (38 bp):
TATTAATGATGTTCAAACTATGACATAATCAAAACCCA
Found at i:59223692 original size:49 final size:49
Alignment explanation
Indices: 59223621--59223748 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
59223611 ACATCAAAGT
* * *
59223621 CGATGCCATGTCTCAGGCAGGTCTTACACTAACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCG-GTGC
* * * * *
59223670 CGATGTCGTGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGTGC
59223719 CGATGCCATGTCCCAGACAGGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
59223749 GACACACAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 1 0.01
49 67 0.99
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGTGC
Found at i:59227086 original size:14 final size:16
Alignment explanation
Indices: 59227057--59227088 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
59227047 CTCTTTTTGT
59227057 AGTAGTCTAGTCATCG
1 AGTAGTCTAGTCATCG
59227073 AGTAG-CTA-TCATCG
1 AGTAGTCTAGTCATCG
59227087 AG
1 AG
59227089 AATCCTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (16 bp):
AGTAGTCTAGTCATCG
Found at i:59234616 original size:37 final size:37
Alignment explanation
Indices: 59234557--59234665 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
59234547 AGCTCAGACG
* *
59234557 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
59234594 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59234631 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59234666 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59234950 original size:50 final size:50
Alignment explanation
Indices: 59234815--59234961 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
59234805 CATCGCCTAC
* *
59234815 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
*
59234865 ATATTTCATATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
59234915 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
59234962 TCACCACATT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 6 0.07
50 84 0.92
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:59235011 original size:47 final size:47
Alignment explanation
Indices: 59234920--59235064 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
59234910 TATATATATT
* * *
59234920 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
59234965 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
59235012 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
59235059 TCACAT
1 TCACAT
59235065 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 19 0.21
46 1 0.01
47 70 0.78
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:59238671 original size:48 final size:47
Alignment explanation
Indices: 59238598--59238765 Score: 169
Period size: 48 Copynumber: 3.6 Consensus size: 47
59238588 AGCTGACACT
* *
59238598 ATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGTCGGTGC
1 ATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGG-CGATGC
* * * * ** *
59238646 ACGTCCCAGACATGTCGTACACTAGC-TCTA-ATCTTAATGCCGATGC
1 ATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGA-GGCGATGC
* * * *
59238692 ATATCCCAAACATGTCTTACACTGGCTTGCATCTCTCGAGGCTGATGC
1 ATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGC-GATGC
*
59238740 ATGTCCCAGACATGTCTTACACTAGC
1 ATGTCCCAAACATGTCTTACACTAGC
59238766 ACACATATCA
Statistics
Matches: 93, Mismatches: 23, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
46 31 0.33
47 8 0.09
48 54 0.58
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCGATGC
Found at i:59242968 original size:29 final size:28
Alignment explanation
Indices: 59242934--59243036 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59242924 TACTCAATCA
*
59242934 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
59242963 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
59242992 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
59243021 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59243037 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:59250981 original size:29 final size:28
Alignment explanation
Indices: 59250947--59251049 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59250937 TACTCAATCA
*
59250947 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
59250976 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
59251005 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
59251034 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59251050 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:59255011 original size:29 final size:29
Alignment explanation
Indices: 59254978--59255033 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
59254968 ATAATCATAT
59254978 TTTTA-AACAATAATTTTAATTTGATAAGC
1 TTTTATAAC-ATAATTTTAATTTGATAAGC
* *
59255007 TTTTATAACATATTTTTAATTTTATAA
1 TTTTATAACATAATTTTAATTTGATAA
59255034 ATATTTTGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (29 bp):
TTTTATAACATAATTTTAATTTGATAAGC
Found at i:59255298 original size:25 final size:25
Alignment explanation
Indices: 59255269--59255316 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
59255259 TATTAGCTCA
59255269 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
59255294 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
59255317 AATCTTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:59256728 original size:19 final size:18
Alignment explanation
Indices: 59256702--59256765 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 18
59256692 TATTGATATC
59256702 TTTATATTTAATTTATTT
1 TTTATATTTAATTTATTT
* *
59256720 TTTATTATTTATTTTAGTT
1 TTTA-TATTTAATTTATTT
* * *
59256739 TTGAT-TCTAATTTTTTT
1 TTTATATTTAATTTATTT
59256756 TTTAT-TTTAA
1 TTTATATTTAA
59256766 AATTTAAGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 16 0.44
18 5 0.14
19 15 0.42
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATATTTAATTTATTT
Found at i:59256875 original size:34 final size:35
Alignment explanation
Indices: 59256810--59256875 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
59256800 TTTAATTGTT
*
59256810 ATTAATTTATTATTTTAAATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
*
59256845 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTTTAAAGTTAAA
59256876 ACTTTCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
Found at i:59256983 original size:24 final size:22
Alignment explanation
Indices: 59256956--59257011 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
59256946 GATTTCAAAA
59256956 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
59256980 ATAAAAATAAATATTATTTA--
1 ATAAAAATAAATAATATTTATC
*
59257000 ATTAAAATAAAT
1 ATAAAAATAAAT
59257012 TTTTAAAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.37
22 9 0.30
23 4 0.13
24 6 0.20
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:59257282 original size:9 final size:9
Alignment explanation
Indices: 59257265--59257337 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
59257255 AACTTTGGAT
*
59257265 CATAGCTTA
1 CATAACTTA
59257274 CATAACTTA
1 CATAACTTA
59257283 CATAACTTA
1 CATAACTTA
*
59257292 TATAA--TA
1 CATAACTTA
*
59257299 CATAAATATA
1 CATAACT-TA
59257309 TCAT-A--T-
1 -CATAACTTA
59257315 CATAACTTA
1 CATAACTTA
59257324 CATAACTTA
1 CATAACTTA
59257333 CATAA
1 CATAA
59257338 ATATATATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.13
8 1 0.02
9 35 0.66
10 3 0.06
11 3 0.06
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:59257302 original size:16 final size:16
Alignment explanation
Indices: 59257281--59257328 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
59257271 TTACATAACT
59257281 TACATAACTTATATAA
1 TACATAACTTATATAA
* *
59257297 TACATAA-ATATATCA
1 TACATAACTTATATAA
*
59257312 TATCATAACTTACATAA
1 TA-CATAACTTATATAA
59257329 CTTACATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 8 0.32
16 12 0.48
17 5 0.20
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (16 bp):
TACATAACTTATATAA
Found at i:59257385 original size:41 final size:36
Alignment explanation
Indices: 59257283--59257364 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
59257273 ACATAACTTA
*
59257283 CATAACTTATATAA--TACAT-AA-ATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
59257315 CATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
*
59257351 CATCACTTACATAA
1 CATAACTTACATAA
59257365 AACTTTGGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 13 0.30
34 5 0.11
35 2 0.05
36 24 0.55
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (36 bp):
CATAACTTACATAACTTACATAAATATATATCATAT
Found at i:59259909 original size:9 final size:9
Alignment explanation
Indices: 59259895--59259925 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
59259885 CATATACATA
59259895 CAACTAATT
1 CAACTAATT
59259904 CAACTAATT
1 CAACTAATT
59259913 CAACTAATT
1 CAACTAATT
59259922 CAAC
1 CAAC
59259926 CACAACCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (9 bp):
CAACTAATT
Found at i:59260719 original size:53 final size:53
Alignment explanation
Indices: 59260653--59260765 Score: 147
Period size: 53 Copynumber: 2.1 Consensus size: 53
59260643 ACACATAATA
* ** *
59260653 CCATACCAATGCCATATCTTAGATATGGTCTTACATG-GGATCTCAAATCGATG
1 CCATATCAATGCCATATCCCAGATATGGTCTTACATGAAG-TCTCAAATCGATG
* * *
59260706 CCATATCAATGCCATGTCCCAGATATGGTCTTATATGAAGTCTCATATCGATG
1 CCATATCAATGCCATATCCCAGATATGGTCTTACATGAAGTCTCAAATCGATG
59260759 CCATATC
1 CCATATC
59260766 CCAGATATGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 51 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (53 bp):
CCATATCAATGCCATATCCCAGATATGGTCTTACATGAAGTCTCAAATCGATG
Found at i:59260779 original size:30 final size:30
Alignment explanation
Indices: 59260745--59260808 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
59260735 CTTATATGAA
59260745 GTCTCATATCGATGCCATATCCCAGATATG
1 GTCTCATATCGATGCCATATCCCAGATATG
59260775 GTCTCATATCGATGCCATATCCCAGATATG
1 GTCTCATATCGATGCCATATCCCAGATATG
59260805 GTCT
1 GTCT
59260809 TACACATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (30 bp):
GTCTCATATCGATGCCATATCCCAGATATG
Found at i:59264707 original size:21 final size:20
Alignment explanation
Indices: 59264679--59264718 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
59264669 CAAAACTTGT
59264679 ATAACTATCATCAATCATTC
1 ATAACTATCATCAATCATTC
59264699 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAATCATT
59264719 AAAATACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATCAATCATTC
Found at i:59269519 original size:80 final size:80
Alignment explanation
Indices: 59269435--59269583 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
59269425 TATGGTAACC
* * * *
59269435 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
59269499 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
59269515 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
59269580 CCGG
66 CCGG
59269584 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:59269525 original size:40 final size:38
Alignment explanation
Indices: 59269476--59269583 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
59269466 ATCACGATTT
*
59269476 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
59269516 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
59269556 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
59269584 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:59277510 original size:40 final size:41
Alignment explanation
Indices: 59277465--59277631 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 41
59277455 CGGAATATAA
*
59277465 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59277505 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59277545 CCGGATATAA-CCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59277585 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
59277624 CCGGATAT
1 CCGGATAT
59277632 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
39 16 0.15
40 93 0.85
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59278480 original size:17 final size:19
Alignment explanation
Indices: 59278457--59278502 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59278447 AAGAAGCATG
59278457 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59278475 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59278493 AATCATGCTC
1 AATCATGCTC
59278503 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59280536 original size:38 final size:38
Alignment explanation
Indices: 59280475--59280575 Score: 132
Period size: 38 Copynumber: 2.6 Consensus size: 38
59280465 ATTTGATGTG
*
59280475 TATCCGGGCTTAAAAACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TT-AAATCCCGCAGGCT-TCATGCTGGAATTA
* * *
59280515 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
59280553 TATCCGGGTTAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
59280576 CTAGTGTTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.02
38 44 0.80
39 2 0.04
40 8 0.15
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:59285180 original size:46 final size:47
Alignment explanation
Indices: 59285073--59285389 Score: 141
Period size: 46 Copynumber: 6.7 Consensus size: 47
59285063 ACCATATTTT
* *
59285073 GAGAGCCAGTGTAAGACCATGTCTGTGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGAATCGGCATTGAGAC
* * * *
59285121 GAGTGCTAGTGTAAGACATGTCTGGGACAT-GAATCGGCCTTGAGAT
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGGAATCGGCATTGAGAC
* * * * *
59285167 GTA-AGCCAATGTAAGACAT-ACTTGGGACAT-GCATTGGC-TACGAGA-
1 G-AGAGCCAGTGTAAGACATGTC-TGGGACATGGAATCGGCAT-TGAGAC
* ** * * * ** * *
59285212 G-GTGTTAGTGTAAGACCATGTTTGGGACATGGCATTGGCACGGATATGT
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGAATCGGCATTGAGA--C
** * * * **
59285261 GAGAGGTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGAATCGGCATTGA-GAC
* * * * *
59285310 AATAGTCAATGTAAGACCATGTCTGGGACATGGAATCGAC-TTGATG--
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGAATCGGCATTGA-GAC
*
59285356 GATGAGCCAGTGTGAGACCATGTCTGGGACATGG
1 GA-GAGCCAGTGTAAGA-CATGTCTGGGACATGG
59285390 CATTGGCTTT
Statistics
Matches: 210, Mismatches: 45, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
44 9 0.04
45 14 0.07
46 57 0.27
47 41 0.20
48 18 0.09
49 34 0.16
50 36 0.17
51 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGGAATCGGCATTGAGAC
Found at i:59285971 original size:17 final size:18
Alignment explanation
Indices: 59285937--59285982 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
59285927 GATATATGCA
*
59285937 AATGATGAT-ATTTTCATG
1 AATGA-GATAATTTGCATG
*
59285955 GATGAG-TAATTTGCATG
1 AATGAGATAATTTGCATG
59285972 AATGAGATAAT
1 AATGAGATAAT
59285983 GCCTTGTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.04
17 14 0.61
18 8 0.35
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (18 bp):
AATGAGATAATTTGCATG
Found at i:59286158 original size:42 final size:42
Alignment explanation
Indices: 59286098--59286178 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
59286088 TTATTTTGTC
*
59286098 CACACGGTCAGCCTCATGGGCGTGTTGCTAGGTCATGTGCGA
1 CACACGGTCAGCCCCATGGGCGTGTTGCTAGGTCATGTGCGA
*
59286140 CACACGGTCAGCCCCATGGGCGTGTTGCTTGGTCATGTG
1 CACACGGTCAGCCCCATGGGCGTGTTGCTAGGTCATGTG
59286179 TCCCCTGTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.15, C:0.27, G:0.33, T:0.25
Consensus pattern (42 bp):
CACACGGTCAGCCCCATGGGCGTGTTGCTAGGTCATGTGCGA
Found at i:59293440 original size:16 final size:17
Alignment explanation
Indices: 59293419--59293457 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
59293409 CTTGTAACGC
59293419 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
59293435 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
59293452 CCCAAA
1 CCCAAA
59293458 TTTTCTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.49, C:0.38, G:0.05, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:59295452 original size:40 final size:40
Alignment explanation
Indices: 59295382--59295584 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
59295372 AAACCAAGTA
* * *
59295382 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTTGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
59295421 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59295461 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * ** * *
59295501 CCTTCGGGACTTAGCTCGGATATAATCGCTAGCATAAATG
1 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59295541 CCTTTGGGACATAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59295581 CCTT
1 CCTT
59295585 CGGATCTTAG
Statistics
Matches: 139, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 13 0.09
40 126 0.91
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59298718 original size:28 final size:28
Alignment explanation
Indices: 59298687--59298785 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
59298677 GACAAGATTG
*
59298687 GCACTAAGTGTGCG-GTTTAAAATTGTCA
1 GCACTAAGTGTGCGAGTTTAAAATTAT-A
* *
59298715 GCACTAAGTGTGCGAGTTT-GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAAT-TATA
* *
59298743 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAAT-TATA
59298772 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59298786 GATTCACTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 34 0.57
29 26 0.43
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAAAATTATA
Found at i:59306653 original size:29 final size:28
Alignment explanation
Indices: 59306586--59306657 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
59306576 AAAATTGTTC
* * *
59306586 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
59306614 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
59306643 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59306658 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:59312026 original size:29 final size:28
Alignment explanation
Indices: 59311967--59312081 Score: 95
Period size: 29 Copynumber: 4.0 Consensus size: 28
59311957 GTGAGCATGA
* * * ** *
59311967 ATATGAATATGACTGGGCCTAACAGGAC
1 ATATGAATGTGATTTGGCCTAATGGGCC
*
59311995 ATATAAATGTGATTTGGACCTAATGGGCC
1 ATATGAATGTGATTTGG-CCTAATGGGCC
* * *
59312024 ATATGTAGGTGATTTAGGCCTAATGGGTC
1 ATATGAATGTGATTT-GGCCTAATGGGCC
* * *
59312053 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGCCTAATGGGCC
59312081 A
1 A
59312082 GATACAAGTA
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
28 25 0.37
29 41 0.60
30 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
ATATGAATGTGATTTGGCCTAATGGGCC
Found at i:59319539 original size:17 final size:18
Alignment explanation
Indices: 59319505--59319550 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
59319495 GATATATGCA
*
59319505 AATGATGAT-ATTTTCATG
1 AATGA-GATAATTTGCATG
*
59319523 GATGAG-TAATTTGCATG
1 AATGAGATAATTTGCATG
59319540 AATGAGATAAT
1 AATGAGATAAT
59319551 GCCTTGTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.04
17 14 0.61
18 8 0.35
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (18 bp):
AATGAGATAATTTGCATG
Found at i:59319855 original size:70 final size:70
Alignment explanation
Indices: 59319742--59319881 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
59319732 TGCTTGGTCG
* *
59319742 TGTGTCCCCTGCACATAAAATTTGCAAGTCAGTATGCATGGTAGTAAACACACGGGTAGAGACAC
1 TGTGTCCCCTGCACATAAAATTTACAAGTCAGTATGCATGGTAGTAAACACACGGGAAGAGACAC
59319807 GACCA
66 GACCA
*
59319812 TGTGTCCCCTGCACATAAAATTTACAAGTCAGTATGCATGGTAGTAAACGCACGGGAAGAGACAC
1 TGTGTCCCCTGCACATAAAATTTACAAGTCAGTATGCATGGTAGTAAACACACGGGAAGAGACAC
59319877 GACCA
66 GACCA
59319882 CGTATCTCAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (70 bp):
TGTGTCCCCTGCACATAAAATTTACAAGTCAGTATGCATGGTAGTAAACACACGGGAAGAGACAC
GACCA
Found at i:59322323 original size:43 final size:41
Alignment explanation
Indices: 59322274--59322422 Score: 131
Period size: 44 Copynumber: 3.5 Consensus size: 41
59322264 CAATGCCAAC
*
59322274 GTCCCAGACGTGGTCTTACATGTAATCAAACATCGATACCACT
1 GTCCCAGACGTGGTCTTACATGTAATCAAA-ATCGATGCCA-T
* * * *
59322317 ATCCCAGACAG-AGTCTTACATGAAATC-AAATACGATGCTGAT
1 GTCCCAGAC-GTGGTCTTACATGTAATCAAAAT-CGATGC-CAT
* * * *
59322359 GTCCCAGACATGGTCTTACACGTAAAACAGAAGTCGATGCCAAT
1 GTCCCAGACGTGGTCTTACATGT-AATCA-AAATCGATGCC-AT
59322403 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACGTGGTCTTACA
59322423 CAAAACCACA
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
41 2 0.02
42 25 0.30
43 26 0.31
44 28 0.33
45 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (41 bp):
GTCCCAGACGTGGTCTTACATGTAATCAAAATCGATGCCAT
Found at i:59322410 original size:44 final size:42
Alignment explanation
Indices: 59322266--59322423 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
59322256 AACATATACA
* * *
59322266 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCG
* * * *
59322309 ATACCACTATCCCAGACA-GAGTCTTACATG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATG-GTCTTACACGTAAATCAAAT-CG
** *
59322351 ATGCTGATGTCCCAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AA-TCG
*
59322395 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
59322424 AAAACCACAT
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 27 0.29
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:59324944 original size:40 final size:40
Alignment explanation
Indices: 59324874--59325079 Score: 254
Period size: 40 Copynumber: 5.2 Consensus size: 40
59324864 AAACCAAGTA
* *
59324874 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
59324913 CCTTCGGGACTTATCCCGGTTATAGTAACTCGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59324953 CCTTCGGGACTTAGCTCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** * *
59324993 CCTTCGGGACTTAGCCCGGATATAATTGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59325033 CCTTCGGGACATAGCCCAGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59325073 CCTTCGG
1 CCTTCGG
59325080 ATCTTAGTCC
Statistics
Matches: 140, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 13 0.09
40 127 0.91
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59333002 original size:40 final size:40
Alignment explanation
Indices: 59332925--59333130 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 40
59332915 AAACCAAGTA
* * *
59332925 CCTTCGGGA-TTAAG-CCAGATATAGCT-ACCCGCTCAAATG
1 CCTTCGGGACTT-AGCCCGGATATAG-TAACTCGCACAAATG
*
59332964 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59333004 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * ** * *
59333044 CCTTTGGGACTTAGCCCGGATATAATCGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59333084 CCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59333124 CCTTCGG
1 CCTTCGG
59333131 ATCTTAGTCC
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 12 0.08
40 131 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59337593 original size:24 final size:24
Alignment explanation
Indices: 59337566--59337638 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
59337556 TGGTCTGAGT
59337566 TCATGATATATGTGCCATCTAAAC
1 TCATGATATATGTGCCATCTAAAC
* * **
59337590 TCATTAAATTATG-G---TCTAAGT
1 TCATGATA-TATGTGCCATCTAAAC
*
59337611 TCATGATATATGTGCCATCTGAAC
1 TCATGATATATGTGCCATCTAAAC
59337635 TCAT
1 TCAT
59337639 TAAATTATGG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
24 15 0.43
25 4 0.11
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (24 bp):
TCATGATATATGTGCCATCTAAAC
Found at i:59337593 original size:45 final size:45
Alignment explanation
Indices: 59337537--59337669 Score: 212
Period size: 45 Copynumber: 3.0 Consensus size: 45
59337527 AAACTATGTG
* * *
59337537 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGCC
1 ATCTGAACTCATTAAATTATGGTCTGAGTTCATGATATATGTGCC
* *
59337582 ATCTAAACTCATTAAATTATGGTCTAAGTTCATGATATATGTGCC
1 ATCTGAACTCATTAAATTATGGTCTGAGTTCATGATATATGTGCC
*
59337627 ATCTGAACTCATTAAATTATGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTCATTAAATTATGGTCTGAGTTCATGATATATGTG
59337670 ACACATGTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTAAATTATGGTCTGAGTTCATGATATATGTGCC
Found at i:59337602 original size:25 final size:25
Alignment explanation
Indices: 59337574--59337647 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 25
59337564 GTTCATGATA
59337574 TATGTGCCATCTAAACTCATTAAAT
1 TATGTGCCATCTAAACTCATTAAAT
** * *
59337599 TATG-G---TCTAAGTTCATGATA-
1 TATGTGCCATCTAAACTCATTAAAT
*
59337619 TATGTGCCATCTGAACTCATTAAAT
1 TATGTGCCATCTAAACTCATTAAAT
59337644 TATG
1 TATG
59337648 GTCTGAGTTC
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
24 11 0.31
25 8 0.23
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (25 bp):
TATGTGCCATCTAAACTCATTAAAT
Done.