Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 49 of 136
Found at i:16152796 original size:27 final size:25
Alignment explanation
Indices: 16152717--16152798 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
16152707 CCCGTTTATA
* *
16152717 GCTCT-TCGGAGCTTCCCGATAATTG
1 GCTCTATCAGAGCTTCCTGATAA-TG
16152742 GCTC-ATCAGAGCTTCCTGAGTAGA-G
1 GCTCTATCAGAGCTTCCTGA-TA-ATG
*
16152767 GCTCTTTCATGAGCTTCCTGATTAATG
1 GCTCTATCA-GAGCTTCCTGA-TAATG
16152794 GCTCT
1 GCTCT
16152799 CCGGAGCTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
25 21 0.45
26 6 0.13
27 20 0.43
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (25 bp):
GCTCTATCAGAGCTTCCTGATAATG
Found at i:16160045 original size:5 final size:5
Alignment explanation
Indices: 16160035--16160068 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
16160025 TCCAAAAGTG
16160035 TGAAT TGAAT TGAAT TGAAT TGAAT ATGAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TGA
16160069 TGTTAAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:16160289 original size:10 final size:10
Alignment explanation
Indices: 16160274--16160300 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16160264 GATCACATAT
16160274 CCGACAATGC
1 CCGACAATGC
16160284 CCGACAATGC
1 CCGACAATGC
16160294 CCGACAA
1 CCGACAA
16160301 ATATTAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.41, G:0.19, T:0.07
Consensus pattern (10 bp):
CCGACAATGC
Found at i:16160430 original size:24 final size:24
Alignment explanation
Indices: 16160398--16160460 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
16160388 CAACTCGAAA
*
16160398 GAGCATCCCGTTATTAGCTCCCAT
1 GAGCATCCCGTTATTAGCTCCCAC
* * *
16160422 GAGCATCCCGATATTTGGCTCTCAC
1 GAGCATCCCGTTA-TTAGCTCCCAC
*
16160447 GAGCTTCCCGTTAT
1 GAGCATCCCGTTAT
16160461 ATAATTCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCCCAC
Found at i:16160499 original size:24 final size:25
Alignment explanation
Indices: 16160472--16160531 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
16160462 TAATTCTTGC
* * * *
16160472 GAGCTTTCCGTTTA-TGGCTCTTTG
1 GAGCTTTCCGATAATTGGCTCATCG
*
16160496 GAGCTTCCCGATAATTGGCTCATCG
1 GAGCTTTCCGATAATTGGCTCATCG
16160521 GAGCTTTCCGA
1 GAGCTTTCCGA
16160532 CTAAAGGCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (25 bp):
GAGCTTTCCGATAATTGGCTCATCG
Found at i:16160580 original size:25 final size:23
Alignment explanation
Indices: 16160488--16160585 Score: 63
Period size: 25 Copynumber: 3.9 Consensus size: 23
16160478 TCCGTTTATG
*
16160488 GCTCTTTGGAGCTTCCCGATAATTG
1 GCTCTTTGGAGCTT-CCGATAA-TA
* *
16160513 GCTCATCGGAGCTTTCCGACTAA-A
1 GCTCTTTGGAGC-TTCCGA-TAATA
*
16160537 GGCTCTTTCATGAGCTTCCTGATTAATA
1 -GCTCTTT--GGAGCTTCC-GA-TAATA
16160565 GCTCTTTGGAGCTTCCCGATA
1 GCTCTTTGGAGCTT-CCGATA
16160586 TTGGTTCGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 17
0.70 0.10 0.21
Matches are distributed among these distances:
24 2 0.04
25 27 0.47
26 11 0.19
27 16 0.28
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (23 bp):
GCTCTTTGGAGCTTCCGATAATA
Found at i:16160646 original size:25 final size:25
Alignment explanation
Indices: 16160612--16160694 Score: 114
Period size: 25 Copynumber: 3.3 Consensus size: 25
16160602 TCCCAATTAC
*
16160612 GGCTCTAATGAGCTTCCCGTTATAT
1 GGCTCGAATGAGCTTCCCGTTATAT
* * *
16160637 AGCTCGAATGAGCTTCCTGTTACAT
1 GGCTCGAATGAGCTTCCCGTTATAT
16160662 GGCTC-ACATGAGCTTCCCGTTATAT
1 GGCTCGA-ATGAGCTTCCCGTTATAT
16160687 GGCTCGAA
1 GGCTCGAA
16160695 AAAGAGTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (25 bp):
GGCTCGAATGAGCTTCCCGTTATAT
Found at i:16176232 original size:20 final size:20
Alignment explanation
Indices: 16176199--16176247 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
16176189 CTCGACGTGC
16176199 ATAATCAAAGCAAGTTCTAGA
1 ATAA-CAAAGCAAGTTCTAGA
*
16176220 ATAACAAATCAAGTTCTAGA
1 ATAACAAAGCAAGTTCTAGA
16176240 ATAACAAA
1 ATAACAAA
16176248 AAATTATGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.22
Consensus pattern (20 bp):
ATAACAAAGCAAGTTCTAGA
Found at i:16178382 original size:9 final size:9
Alignment explanation
Indices: 16178370--16178431 Score: 52
Period size: 9 Copynumber: 6.3 Consensus size: 9
16178360 ACTTAAAAGT
16178370 ATAAAAATA
1 ATAAAAATA
*
16178379 ATAAAACTCA
1 ATAAAAAT-A
*
16178389 ATAATAATA
1 ATAAAAATA
16178398 ATTAAAATGATGA
1 A-TAAAA--AT-A
*
16178411 ATGAAAATA
1 ATAAAAATA
16178420 ATAAAAATA
1 ATAAAAATA
16178429 ATA
1 ATA
16178432 TGAAAAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
9 21 0.50
10 13 0.31
12 6 0.14
13 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (9 bp):
ATAAAAATA
Found at i:16178528 original size:10 final size:10
Alignment explanation
Indices: 16178482--16178535 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
16178472 AATCACAATA
*
16178482 AAAAAGAAAT
1 AAAAATAAAT
*
16178492 AAAAA-GAAT
1 AAAAATAAAT
16178501 AATAAATAAAAT
1 AA-AAAT-AAAT
16178513 AAAAATAAAT
1 AAAAATAAAT
*
16178523 AAAAATACAT
1 AAAAATAAAT
16178533 AAA
1 AAA
16178536 TAAAATAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
9 5 0.13
10 24 0.63
11 4 0.11
12 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:16187942 original size:105 final size:105
Alignment explanation
Indices: 16187831--16188020 Score: 263
Period size: 105 Copynumber: 1.8 Consensus size: 105
16187821 TACTTTTTAT
* * * * * * ** *
16187831 TTTTTTTCAAACATATTTGTGACATAGCCAAATCTTTTGACGTGAAATGAGATGACAACCCAAGC
1 TTTTTTTCAAACAAATTCGAGACATAACCAAATATTTTAACACGAAATAAGATGACAACCCAAGC
*
16187896 ACTTCACCCTAGTTACTCAACTTGACTTGTTTTTTTTTCC
66 ACCTCACCCTAGTTACTCAACTTGACTTGTTTTTTTTTCC
*
16187936 TTTTTTTTAAACAAATTCGAGACATAACCAAATATTTTAACACGAAATAAGATGACAACCCAAGC
1 TTTTTTTCAAACAAATTCGAGACATAACCAAATATTTTAACACGAAATAAGATGACAACCCAAGC
* *
16188001 ACCTCATCTTAGTTACTCAA
66 ACCTCACCCTAGTTACTCAA
16188021 TTTGGCATGT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (105 bp):
TTTTTTTCAAACAAATTCGAGACATAACCAAATATTTTAACACGAAATAAGATGACAACCCAAGC
ACCTCACCCTAGTTACTCAACTTGACTTGTTTTTTTTTCC
Found at i:16188857 original size:98 final size:98
Alignment explanation
Indices: 16188685--16188879 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
16188675 ACAATAAAAT
*
16188685 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
16188750 TCTAGAATCCCAAACTCAGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
16188783 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* * * *
16188848 TTTAAAATCCCAAATTCGGAATATTTTCTTTA
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTA
16188880 TTATTTTTAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
Found at i:16189575 original size:25 final size:26
Alignment explanation
Indices: 16189545--16189594 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
16189535 ATATAAATAT
16189545 GAAAATATTC-ATTAAAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
*
16189570 GAAAATATTCGTTTAAAAAAATATA
1 GAAAATATTCGATTAAAAAAATATA
16189595 TATGTGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:16189899 original size:24 final size:25
Alignment explanation
Indices: 16189849--16189900 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
16189839 ATTGGAATTT
* *
16189849 AAAATAAATAAAAGTGTAAATTAAA
1 AAAATAAAGAAAACTGTAAATTAAA
*
16189874 AAAATAAAGAAAACT-T-AATTACA
1 AAAATAAAGAAAACTGTAAATTAAA
16189897 AAAA
1 AAAA
16189901 CATTAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 13 0.54
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (25 bp):
AAAATAAAGAAAACTGTAAATTAAA
Found at i:16190237 original size:19 final size:19
Alignment explanation
Indices: 16190213--16190283 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
16190203 TTATATCTTT
16190213 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
** *
16190232 TAAGATTATATATTATATC
1 TAAGATTGCATATCATATC
16190251 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
16190270 TAAGATTGCATATC
1 TAAGATTGCATATC
16190284 CCTGAAGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:16190673 original size:43 final size:44
Alignment explanation
Indices: 16190569--16190675 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 44
16190559 AAGAATTGGT
*
16190569 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGC-ATACCAAGGAGATAGGACTTACAA
* * * * *
16190614 TCTTCAACCTATTCCACTGC-TGACCAAGGAGATATGA-TTACTA
1 GCTTCAATCTACTCCACTGCAT-ACCAAGGAGATAGGACTTACAA
*
16190657 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
16190676 TAACCACAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
43 21 0.41
44 13 0.25
45 17 0.33
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCATACCAAGGAGATAGGACTTACAA
Found at i:16199040 original size:24 final size:25
Alignment explanation
Indices: 16198990--16199041 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
16198980 ATTGGAATTT
* *
16198990 AAAATAAATAAAAGTGTAAATTAAA
1 AAAATAAAGAAAACTGTAAATTAAA
*
16199015 AAAATAAAGAAAACT-T-AATTACA
1 AAAATAAAGAAAACTGTAAATTAAA
16199038 AAAA
1 AAAA
16199042 CATTAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 13 0.54
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (25 bp):
AAAATAAAGAAAACTGTAAATTAAA
Found at i:16199406 original size:19 final size:19
Alignment explanation
Indices: 16199336--16199409 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 19
16199326 AATCATATCT
*
16199336 TCTAAGATTGCATTTCATA
1 TCTAAGATTGCATATCATA
* ** *
16199355 TATAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
16199374 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
16199393 TCTAAGATTGCATATCA
1 TCTAAGATTGCATATCA
16199410 CTAAAGATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16201024 original size:12 final size:12
Alignment explanation
Indices: 16201007--16201032 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16200997 CAAAATAGAC
16201007 TTTTAGCGGCGT
1 TTTTAGCGGCGT
16201019 TTTTAGCGGCGT
1 TTTTAGCGGCGT
16201031 TT
1 TT
16201033 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:16201299 original size:41 final size:41
Alignment explanation
Indices: 16201219--16201299 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
16201209 GGCTTTAGAG
* * *
16201219 GCGCTTTTTCAAAAACGCCGCTAATGCTCGGGTCTTTAGCA
1 GCGCTTTTTCAAAAACGCCGCTAAAGCTCGAGTCATTAGCA
*
16201260 GCGCTTTTTTAAAAACGCCGCTAAAGACTCGAG-CATTAGC
1 GCGCTTTTTCAAAAACGCCGCTAAAG-CTCGAGTCATTAGC
16201300 GTTGTTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 30 0.86
42 5 0.14
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
GCGCTTTTTCAAAAACGCCGCTAAAGCTCGAGTCATTAGCA
Found at i:16202975 original size:13 final size:13
Alignment explanation
Indices: 16202959--16202987 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16202949 TTAGATTTAA
16202959 AAAAAACATTGAT
1 AAAAAACATTGAT
16202972 AAAAAACATTGAT
1 AAAAAACATTGAT
16202985 AAA
1 AAA
16202988 TTCGATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AAAAAACATTGAT
Found at i:16207043 original size:43 final size:43
Alignment explanation
Indices: 16207013--16207228 Score: 276
Period size: 43 Copynumber: 5.0 Consensus size: 43
16207003 AAGTCATGAG
* * * *
16207013 CTTTAGCGGCGTTTGTTGGAAAAGTGTCGCTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGGT
*
16207056 TTTTAGCGGCGTTT-TTGAGAAAAGCGCCGCTAAAGG-CCTTGGT
1 CTTTAGCGGCGTTTGTTG-GAAAAGCGCCGCTAAAGGTCC-TGGT
*
16207099 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGGT
**
16207142 CTTTAGTAGCGTTTG-TGGAAAAGGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTTGGAAAA-GCGCCGCTAAAGGTCCTGGT
* * * *
16207185 CTTTAGCAGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGGT
16207228 C
1 C
16207229 CGTTTTTAGA
Statistics
Matches: 153, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
42 10 0.07
43 133 0.87
44 10 0.07
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGGT
Found at i:16207351 original size:21 final size:21
Alignment explanation
Indices: 16207325--16207368 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
16207315 TTTAGCGGCA
*
16207325 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAGCGCCGCTAAAAGC
*
16207346 CTAAAAAGCGCTGCTAAAAGC
1 CTAAAAAGCGCCGCTAAAAGC
16207367 CT
1 CT
16207369 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (21 bp):
CTAAAAAGCGCCGCTAAAAGC
Found at i:16219514 original size:19 final size:19
Alignment explanation
Indices: 16219490--16219526 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16219480 AACACACATA
16219490 CTTTGAATAGTTAAAATTC
1 CTTTGAATAGTTAAAATTC
*
16219509 CTTTGAGTAGTTAAAATT
1 CTTTGAATAGTTAAAATT
16219527 TTATCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (19 bp):
CTTTGAATAGTTAAAATTC
Found at i:16225682 original size:41 final size:41
Alignment explanation
Indices: 16225624--16225829 Score: 279
Period size: 41 Copynumber: 5.0 Consensus size: 41
16225614 GAATAATGAG
* * *
16225624 GAATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACACTT
1 GAATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCT
* * *
16225665 GAATTGCACTTGTGTGCCCCTATTTGTACTTTGGTACCCCT
1 GAATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCT
* * * * *
16225706 AAATTACACTTACGTGCCCCTATTTGTACTTCGATACCCCT
1 GAATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCT
16225747 GAATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCT
1 GAATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCT
* *
16225788 GAATTACA-TATATGTGCCCCTGTTTGTACTTCGATACCCCT
1 GAATTGCACT-TATGTGCCCCTGTTTGTACTTCGGTACCCCT
16225829 G
1 G
16225830 GATGTACTTT
Statistics
Matches: 145, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 1 0.01
41 144 0.99
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.36
Consensus pattern (41 bp):
GAATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCT
Found at i:16225704 original size:20 final size:20
Alignment explanation
Indices: 16225640--16225787 Score: 75
Period size: 20 Copynumber: 7.2 Consensus size: 20
16225630 CACTTACGTG
*
16225640 CCCCTGTTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
* * * * *
16225660 CACTTGAATTGCACTT-GTGTG
1 CCCCT-ATTTGTACTTCG-GTA
*
16225681 CCCCTATTTGTACTTTGGTA
1 CCCCTATTTGTACTTCGGTA
* ** *
16225701 CCCCTAAATTACACTTAC-GTG
1 CCCCT-ATTTGTACTT-CGGTA
*
16225722 CCCCTATTTGTACTTCGATA
1 CCCCTATTTGTACTTCGGTA
* * ** *
16225742 CCCCTGAATTGCACTTATGTG
1 CCCCT-ATTTGTACTTCGGTA
*
16225763 CCCCTGTTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
16225783 CCCCT
1 CCCCT
16225788 GAATTACATA
Statistics
Matches: 88, Mismatches: 33, Indels: 14
0.65 0.24 0.10
Matches are distributed among these distances:
19 1 0.01
20 46 0.52
21 41 0.47
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.37
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGGTA
Found at i:16232350 original size:9 final size:9
Alignment explanation
Indices: 16232336--16232362 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16232326 CATGTTGGAT
16232336 CAAAATGAA
1 CAAAATGAA
16232345 CAAAATGAA
1 CAAAATGAA
16232354 CAAAATGAA
1 CAAAATGAA
16232363 TAGAAATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (9 bp):
CAAAATGAA
Found at i:16236255 original size:9 final size:9
Alignment explanation
Indices: 16236181--16236271 Score: 53
Period size: 9 Copynumber: 10.0 Consensus size: 9
16236171 TGTTTTGAAG
16236181 AATATATAA
1 AATATATAA
*
16236190 AA-ATTTAA
1 AATATATAA
16236198 AATATATAA
1 AATATATAA
*
16236207 CATAGTAATAA
1 AATA-T-ATAA
* *
16236218 AATGT-TTA
1 AATATATAA
* *
16236226 AATTTATTA
1 AATATATAA
*
16236235 AATTTATAAA
1 AATATAT-AA
16236245 AATATATAA
1 AATATATAA
16236254 AATA-ATTAA
1 AATATA-TAA
*
16236263 AATTTATAA
1 AATATATAA
16236272 TAAANNNNNN
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
8 14 0.22
9 35 0.54
10 10 0.15
11 6 0.09
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (9 bp):
AATATATAA
Found at i:16237382 original size:27 final size:28
Alignment explanation
Indices: 16237352--16237415 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
16237342 ACATAGTAAT
* * *
16237352 AAAATGTTTAAATTTATT-AAATTTATA
1 AAAATGTATAAAATAATTAAAATTTATA
*
16237379 AAAATATATAAAATAATTAAAATTTATA
1 AAAATGTATAAAATAATTAAAATTTATA
16237407 ATAAATGTA
1 A-AAATGTA
16237416 AATTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 14 0.47
28 10 0.33
29 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (28 bp):
AAAATGTATAAAATAATTAAAATTTATA
Found at i:16237391 original size:9 final size:9
Alignment explanation
Indices: 16237317--16237407 Score: 53
Period size: 9 Copynumber: 10.0 Consensus size: 9
16237307 TGTTTTGAAG
16237317 AATATATAA
1 AATATATAA
*
16237326 AA-ATTTAA
1 AATATATAA
16237334 AATATATAA
1 AATATATAA
*
16237343 CATAGTAATAA
1 AATA-T-ATAA
* *
16237354 AATGT-TTA
1 AATATATAA
* *
16237362 AATTTATTA
1 AATATATAA
*
16237371 AATTTATAAA
1 AATATAT-AA
16237381 AATATATAA
1 AATATATAA
16237390 AATA-ATTAA
1 AATATA-TAA
*
16237399 AATTTATAA
1 AATATATAA
16237408 TAAATGTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
8 14 0.22
9 35 0.54
10 10 0.15
11 6 0.09
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (9 bp):
AATATATAA
Found at i:16238616 original size:19 final size:19
Alignment explanation
Indices: 16238581--16238619 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16238571 GTTCTAATCA
*
16238581 TTATTAAATTCTATTTTAT
1 TTATTAAATTATATTTTAT
16238600 TTATTAAATTGAT-TTTTAT
1 TTATTAAATT-ATATTTTAT
16238619 T
1 T
16238620 ATGAGTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATTAAATTATATTTTAT
Found at i:16242917 original size:9 final size:9
Alignment explanation
Indices: 16242880--16242968 Score: 51
Period size: 9 Copynumber: 10.0 Consensus size: 9
16242870 ATTATTATTT
16242880 TAAAATATA
1 TAAAATATA
*
16242889 TAAAAAATA
1 TAAAATATA
**
16242898 TATCA-AT-
1 TAAAATATA
16242905 TAAAATATA
1 TAAAATATA
*
16242914 TAAAATGTA
1 TAAAATATA
* *
16242923 TATAATATTT
1 TAAAATA-TA
16242933 TGAAGAATATA
1 T-AA-AATATA
*
16242944 TAAAAT-TT
1 TAAAATATA
16242952 TAAAA-ATA
1 TAAAATATA
*
16242960 TATAATATA
1 TAAAATATA
16242969 GTAATAAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
7 3 0.05
8 15 0.25
9 30 0.51
10 4 0.07
11 3 0.05
12 4 0.07
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (9 bp):
TAAAATATA
Found at i:16242961 original size:18 final size:19
Alignment explanation
Indices: 16242921--16242964 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
16242911 ATATAAAATG
* *
16242921 TATATAATATTTTGAAGAA
1 TATATAAAATTTTGAAAAA
16242940 TATATAAAATTTT-AAAAA
1 TATATAAAATTTTGAAAAA
16242958 TATATAA
1 TATATAA
16242965 TATAGTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
TATATAAAATTTTGAAAAA
Found at i:16245457 original size:23 final size:23
Alignment explanation
Indices: 16245425--16245470 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
16245415 TATTATAAAA
16245425 AAAAACCATGCGAGTATAT-TATAT
1 AAAAACCATGC-A-TATATATATAT
16245449 AAAAA-CATGCATATATATATAT
1 AAAAACCATGCATATATATATAT
16245471 TATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 5 0.24
24 5 0.24
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAACCATGCATATATATATAT
Found at i:16252000 original size:26 final size:26
Alignment explanation
Indices: 16251969--16252019 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
16251959 TATATTATTA
* *
16251969 ATTTTTATATTTTTTTAATTCAATAC
1 ATTTTTATAATTTTTAAATTCAATAC
*
16251995 ATTTTTATAATTTTTAAATTTAATA
1 ATTTTTATAATTTTTAAATTCAATA
16252020 TTTTATTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTATAATTTTTAAATTCAATAC
Found at i:16252189 original size:15 final size:14
Alignment explanation
Indices: 16252164--16252197 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
16252154 TACCTGCGGT
16252164 TAGTATAAAAACAG
1 TAGTATAAAAACAG
16252178 TAGTACTAAAAACAG
1 TAGTA-TAAAAACAG
16252193 TAGTA
1 TAGTA
16252198 GCGATGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
TAGTATAAAAACAG
Found at i:16254158 original size:21 final size:22
Alignment explanation
Indices: 16254106--16254150 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16254096 AGCATGAGTA
16254106 TGTTTGATTAAAAATAAAAAAT
1 TGTTTGATTAAAAATAAAAAAT
16254128 TGTTTGATTAAAAATAAAAAAT
1 TGTTTGATTAAAAATAAAAAAT
16254150 T
1 T
16254151 TTATATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (22 bp):
TGTTTGATTAAAAATAAAAAAT
Found at i:16256769 original size:55 final size:55
Alignment explanation
Indices: 16256691--16256830 Score: 210
Period size: 55 Copynumber: 2.6 Consensus size: 55
16256681 TTTTCTTAAT
** *
16256691 TGTTGGAATACTGC-TCTTTTGAATCAATTTTTTATTTGTTGAAATAGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCAATTGCTTATATGTTGAAATAGATTGTTA
* * * *
16256745 TGTTGGAAAACTACTTCTTTTGAATCAATTGCTTATATGTTTAAATTGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCAATTGCTTATATGTTGAAATAGATTGTTA
16256800 TGTTGGAATACTGCTTCTTTTGAATCAATTG
1 TGTTGGAATACTGCTTCTTTTGAATCAATTG
16256831 TTACAGAGCA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
54 12 0.16
55 64 0.84
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.48
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATCAATTGCTTATATGTTGAAATAGATTGTTA
Found at i:16257065 original size:60 final size:60
Alignment explanation
Indices: 16256996--16257122 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
16256986 CTTTTTCTTT
* * * *** *
16256996 AATTTTTAGAA-TTAGAATTAAATTGACGAATTTTGTAAATGTTG-AGGTTAATTTTATTG
1 AATTTTTAGAATTTA-AACTAAAATGACAAATTTTGTAAACAATGAAGGTTAAATTTATTG
16257055 AATTTGTTAGAATTTAAACTAAAATGACAAATTTTGTAAACAATGAAGGTTAAATTTATTG
1 AATTT-TTAGAATTTAAACTAAAATGACAAATTTTGTAAACAATGAAGGTTAAATTTATTG
16257116 AATTTTT
1 AATTTTT
16257123 TTATATTTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
59 5 0.09
60 31 0.53
61 22 0.38
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (60 bp):
AATTTTTAGAATTTAAACTAAAATGACAAATTTTGTAAACAATGAAGGTTAAATTTATTG
Found at i:16264059 original size:19 final size:19
Alignment explanation
Indices: 16264019--16264060 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16264009 TCTCACAAGG
**
16264019 TGGAGGCTGTTGGGTTTTT
1 TGGAGGCTGTTGGGTTGGT
16264038 TGGAGGCAT-TTGGGTTGGT
1 TGGAGGC-TGTTGGGTTGGT
16264057 TGGA
1 TGGA
16264061 AGGACTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.10, C:0.05, G:0.45, T:0.40
Consensus pattern (19 bp):
TGGAGGCTGTTGGGTTGGT
Found at i:16272565 original size:17 final size:17
Alignment explanation
Indices: 16272534--16272577 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
16272524 ACTCTTTTTC
16272534 TTTCTCTTTTC-TTTCAA
1 TTTCT-TTTTCTTTTCAA
*
16272551 TTTCTTTTTCTTTTCTA
1 TTTCTTTTTCTTTTCAA
16272568 TTT-TTTTTCT
1 TTTCTTTTTCT
16272578 CATTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTCTTTTTCTTTTCAA
Found at i:16274087 original size:14 final size:16
Alignment explanation
Indices: 16274056--16274093 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
16274046 GCACAACACT
16274056 TTTTTTTAATACAAAA
1 TTTTTTTAATACAAAA
*
16274072 TTTTTTTAAT-C-GAA
1 TTTTTTTAATACAAAA
16274086 TTTTTTTA
1 TTTTTTTA
16274094 TGCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTTTTAATACAAAA
Found at i:16276058 original size:17 final size:17
Alignment explanation
Indices: 16276032--16276071 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
16276022 TAACTGAAAA
*
16276032 TTAATATTTTCAATAAT
1 TTAATATTTTAAATAAT
* *
16276049 TTAATTTTTTAAATAGT
1 TTAATATTTTAAATAAT
16276066 TTAATA
1 TTAATA
16276072 ATTAAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TTAATATTTTAAATAAT
Found at i:16278670 original size:22 final size:22
Alignment explanation
Indices: 16278642--16278692 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
16278632 CTCTCTAATC
16278642 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16278664 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16278686 CTCTCAA
1 CTCTCAA
16278693 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:16278720 original size:51 final size:51
Alignment explanation
Indices: 16278664--16278776 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
16278654 TTCCAAAATT
16278664 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
16278715 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
16278766 CCCTCAATTTC
1 CTCTCAATTTC
16278777 ATTTTTGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:16278811 original size:10 final size:10
Alignment explanation
Indices: 16278791--16278842 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
16278781 TTGAAAATAA
*
16278791 TTTTAAAATT
1 TTTTTAAATT
*
16278801 TTTTTATATT
1 TTTTTAAATT
* *
16278811 TTTTAAAATA
1 TTTTTAAATT
*
16278821 ATTTTAAATT
1 TTTTTAAATT
*
16278831 TTTTTATATT
1 TTTTTAAATT
16278841 TT
1 TT
16278843 CATCAATGGC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:16278814 original size:20 final size:20
Alignment explanation
Indices: 16278791--16278834 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16278781 TTGAAAATAA
** *
16278791 TTTTAAAATTTTTTTATATT
1 TTTTAAAATAATTTTAAATT
16278811 TTTTAAAATAATTTTAAATT
1 TTTTAAAATAATTTTAAATT
16278831 TTTT
1 TTTT
16278835 TATATTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAAAATAATTTTAAATT
Found at i:16278832 original size:30 final size:31
Alignment explanation
Indices: 16278777--16278842 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
16278767 CCTCAATTTC
16278777 ATTTTTGAAAATAATTTTAAAATTTTTTTAT
1 ATTTTTGAAAATAATTTTAAAATTTTTTTAT
*
16278808 ATTTTTTAAAATAATTTT-AAATTTTTTTAT
1 ATTTTTGAAAATAATTTTAAAATTTTTTTAT
16278838 ATTTT
1 ATTTT
16278843 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (31 bp):
ATTTTTGAAAATAATTTTAAAATTTTTTTAT
Found at i:16290639 original size:51 final size:51
Alignment explanation
Indices: 16290457--16290853 Score: 299
Period size: 51 Copynumber: 7.8 Consensus size: 51
16290447 ACTATTATCA
* * *
16290457 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGA-TCAA-TTT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTT
* * * * * *
16290506 TTACGGTTCACGTAATAGCCTTCACATAGTACTATACACGTGA-TCAAG-TT
1 TT-CGATACACATAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTT
* * * *
16290556 TTACGATTCACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTT
1 TT-CGATACACATAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTT
* * * * * *
16290608 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGAC--CATCATT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACTAAAGC-TT
* * * * **
16290658 TATCAATTCA-AGTAGTAGTCTTCACACAGTACTACACACGTGACCGAAGCTT
1 T-TCGATACACA-TAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTT
* * * * * * *
16290710 CTCGGTACATATTGTAGCCTTCACTTAGTACTACACATGTGACTATTA--TT
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACTA-AAGCTT
* * * *
16290760 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTT
* * * * *
16290812 ATCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGA
1 TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGA
16290854 NNNNNNNNNN
Statistics
Matches: 273, Mismatches: 61, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
49 4 0.01
50 87 0.32
51 170 0.62
52 10 0.04
53 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (51 bp):
TTCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTT
Found at i:16290689 original size:102 final size:102
Alignment explanation
Indices: 16290458--16290853 Score: 492
Period size: 102 Copynumber: 3.9 Consensus size: 102
16290448 CTATTATCAT
* * * * * * *
16290458 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * * ***
16290521 TAGCCTTCACATAGTACTATACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
16290559 -CGATTCACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
*
16290623 AGCCTTCACTTAGTACTATACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * * * *
16290660 TCAATTCAAGTAGTAGTCTTCACACAGTACTACACACGTGACCGAAGCTTCTCGGTACATATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* *
16290725 AGCCTTCACTTAGTACTACACATGTGACTATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
16290762 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
16290827 AGCCTTCACTTAGTACTACACATGTGA
66 AGCCTTCACTTAGTACTACACATGTGA
16290854 NNNNNNNNNN
Statistics
Matches: 259, Mismatches: 33, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
100 37 0.14
101 43 0.17
102 179 0.69
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:16290834 original size:153 final size:151
Alignment explanation
Indices: 16290425--16290853 Score: 386
Period size: 153 Copynumber: 2.8 Consensus size: 151
16290415 ATTTGGGGTT
* * *
16290425 TTCACATAGTACCT-CCCATGTTACTATTA-TCATTCGATACACGTAGTAGCCTTCACATAGTAC
1 TTCACATAGTA-CTACACATGTGACTATTATTTA-TCGATACACGTAGTAGCCTTCACATAGTAC
* * * * * *
16290488 TACACACGTGATC-AATTTTTACGGTTCACGTAATAGCCTTCACATAGTACTATACACGTGATCA
64 TACACACGTGACCAAATTTAT-CGGTTCACATAGTAGCCTTCACATAGTACTACACACGTGACCA
* * * *
16290552 AGTTTTACGATTCACGTAGTAGTC
128 AGTTCTACGATACACATAGTAGCC
* * * * * *
16290576 TTCACATAGTACTACATACGTGACTA-AAGCTTT-TCGGTACACATAGTAGCCTTCACTTAGTAC
1 TTCACATAGTACTACACATGTGACTATTA--TTTATCGATACACGTAGTAGCCTTCACATAGTAC
* * * ** * *
16290639 TATACATGTGACCATCATTTATCAATTCA-AGTAGTAGTCTTCACACAGTACTACACACGTGACC
64 TACACACGTGACCA-AATTTATCGGTTCACA-TAGTAGCCTTCACATAGTACTACACACGTGACC
* * *
16290703 GAAGCTTCT-CGGTACATATTGTAGCC
127 -AAG-TTCTACGATACACATAGTAGCC
* * *
16290729 TTCACTTAGTACTACACATGTGACTATTATTTATCGATTCACGTAGTAGCCTTCACACAGTACTA
1 TTCACATAGTACTACACATGTGACTATTATTTATCGATACACGTAGTAGCCTTCACATAGTACTA
* * * * *
16290794 CACACGTGACCAAAGCTTATCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGA
66 CACACGTGACCAAA-TTTATCGGTTCACATAGTAGCCTTCACATAGTACTACACACGTGA
16290854 NNNNNNNNNN
Statistics
Matches: 215, Mismatches: 50, Indels: 24
0.74 0.17 0.08
Matches are distributed among these distances:
150 3 0.01
151 56 0.26
152 37 0.17
153 114 0.53
154 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (151 bp):
TTCACATAGTACTACACATGTGACTATTATTTATCGATACACGTAGTAGCCTTCACATAGTACTA
CACACGTGACCAAATTTATCGGTTCACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGT
TCTACGATACACATAGTAGCC
Found at i:16292229 original size:16 final size:17
Alignment explanation
Indices: 16292208--16292242 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16292198 TGATATAACA
16292208 AATAAA-AATATTTTTG
1 AATAAACAATATTTTTG
*
16292224 AATAAACATTATTTTTG
1 AATAAACAATATTTTTG
16292241 AA
1 AA
16292243 CAAAGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (17 bp):
AATAAACAATATTTTTG
Found at i:16296938 original size:18 final size:19
Alignment explanation
Indices: 16296915--16296950 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16296905 TAAACTAAAT
*
16296915 TTAAATCCCT-AATTTCAC
1 TTAAATCACTAAATTTCAC
16296933 TTAAATCACTAAATTTCA
1 TTAAATCACTAAATTTCA
16296951 AAATTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCACTAAATTTCAC
Found at i:16297264 original size:17 final size:17
Alignment explanation
Indices: 16297223--16297273 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
16297213 TAAGCCTTGT
16297223 CTTTCT-CCTTTCTTT-
1 CTTTCTACCTTTCTTTC
16297238 CTTT-TA--TTTCTTTC
1 CTTTCTACCTTTCTTTC
16297252 CTTTCTACCTTTCTTTC
1 CTTTCTACCTTTCTTTC
16297269 TCTTT
1 -CTTT
16297274 TTCTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.23
14 5 0.17
15 6 0.20
17 8 0.27
18 4 0.13
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (17 bp):
CTTTCTACCTTTCTTTC
Found at i:16297264 original size:30 final size:28
Alignment explanation
Indices: 16297223--16297279 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
16297213 TAAGCCTTGT
*
16297223 CTTTCTCCTTTCTTTCTTTTATTTCTTTC
1 CTTTCTCCTTTCTTTCTCTT-TTTCTTTC
16297252 CTTTCTACCTTTCTTTCTCTTTTTCTTT
1 CTTTCT-CCTTTCTTTCTCTTTTTCTTT
16297280 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCTCCTTTCTTTCTCTTTTTCTTTC
Found at i:16298024 original size:88 final size:88
Alignment explanation
Indices: 16297875--16298049 Score: 280
Period size: 88 Copynumber: 2.0 Consensus size: 88
16297865 ACAAAAACCG
* * *
16297875 ATTTTAAATTATCGAAAACAAAATTCCCCAAAAAATATCTTTCATATTCCAAAAAGTTGAAAATT
1 ATTTTAAACTATCGAAAACAAAAGTCCCCAAAAAATATCTTTCATATTCCAAAAAGCTGAAAATT
*
16297940 AGTAGAGAAATTGGAAATGATCA
66 AGTAGAGAAAGTGGAAATGATCA
* *
16297963 ATTTTGAACTATCGAAAACAAAACGT-CCCAAAAAATATCTTTCATATTCCAAAAAGCTGAAATT
1 ATTTTAAACTATCGAAAACAAAA-GTCCCCAAAAAATATCTTTCATATTCCAAAAAGCTGAAAAT
16298027 TAGTAGAGAAAGTGGAAATGATC
65 TAGTAGAGAAAGTGGAAATGATC
16298050 GCTTCCAATA
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 79 0.99
89 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (88 bp):
ATTTTAAACTATCGAAAACAAAAGTCCCCAAAAAATATCTTTCATATTCCAAAAAGCTGAAAATT
AGTAGAGAAAGTGGAAATGATCA
Found at i:16300905 original size:40 final size:40
Alignment explanation
Indices: 16300861--16301189 Score: 186
Period size: 40 Copynumber: 8.6 Consensus size: 40
16300851 TTATTGTCAA
*
16300861 TTTATCTTACTAGTGCTGGGCACATCATTATATCTATCGG
1 TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
* ** * * ** *
16300901 TTTATCCGACTAGCACTGGGCGCA--ACT-T-TC-GCCAG
1 TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
* *
16300936 TTTATCTGACTAGTGTTGGGCACATCATTATATCTGTCGG
1 TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
** ** * *
16300976 TTTAT-TCGACTAGCACTGGGTGCAAC-TT-TA---ATCAG
1 TTTATCT-GACTAGTGCTGGGCACATCATTATATCTATCGG
* * *
16301011 TTTATCTGACTAGTGTTGCGCACATCATTATATCTACCGG
1 TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
* * * **
16301051 TTTATCTAACTAGTGTTGCGCACATCATTATATCTATCAA
1 TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
* **** * *
16301091 TTTTTCTGACTACCATTGGGCACAAC-TT-T-TCT-T-AG
1 TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
* * * *
16301126 TGTATCTGACTAATGCTGGGCACATCATTATATATGTCGG
1 TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
* * *
16301166 TTTATCCGACTAGCGCGGGGCACA
1 TTTATCTGACTAGTGCTGGGCACA
16301190 AAACTTGTTA
Statistics
Matches: 212, Mismatches: 60, Indels: 34
0.69 0.20 0.11
Matches are distributed among these distances:
35 61 0.29
36 8 0.04
37 9 0.04
38 8 0.04
39 8 0.04
40 118 0.56
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (40 bp):
TTTATCTGACTAGTGCTGGGCACATCATTATATCTATCGG
Found at i:16300986 original size:75 final size:75
Alignment explanation
Indices: 16300861--16301056 Score: 302
Period size: 75 Copynumber: 2.6 Consensus size: 75
16300851 TTATTGTCAA
* *
16300861 TTTATCTTACTAGTGCTGGGCACATCATTATATCTATCGGTTTATCCGACTAGCACTGGGCGCAA
1 TTTATCTGACTAGTGTTGGGCACATCATTATATCTATCGGTTTATCCGACTAGCACTGGGCGCAA
**
16300926 CTTTCGCCAG
66 CTTTAACCAG
* * *
16300936 TTTATCTGACTAGTGTTGGGCACATCATTATATCTGTCGGTTTATTCGACTAGCACTGGGTGCAA
1 TTTATCTGACTAGTGTTGGGCACATCATTATATCTATCGGTTTATCCGACTAGCACTGGGCGCAA
*
16301001 CTTTAATCAG
66 CTTTAACCAG
* *
16301011 TTTATCTGACTAGTGTTGCGCACATCATTATATCTACCGGTTTATC
1 TTTATCTGACTAGTGTTGGGCACATCATTATATCTATCGGTTTATC
16301057 TAACTAGTGT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 109 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (75 bp):
TTTATCTGACTAGTGTTGGGCACATCATTATATCTATCGGTTTATCCGACTAGCACTGGGCGCAA
CTTTAACCAG
Found at i:16301189 original size:115 final size:115
Alignment explanation
Indices: 16300935--16301178 Score: 292
Period size: 115 Copynumber: 2.1 Consensus size: 115
16300925 ACTTTCGCCA
* ** * **
16300935 GTTTATCTGACTAGTGTTGGGCACATCATTATATCTGTCGGTTTATTCGACTAGCACTGGGTGCA
1 GTTTATCTGACTAGTGTTGGGCACATCATTATATCTATCAATTTATTCGACTACCACTGGGCACA
* * * *
16301000 ACTTTAATCAGTTTATCTGACTAGTGTTGCGCACATCATTATATCTACCG
66 ACTTTAATCAGTGTATCTGACTAATGCTGCGCACATCATTATATATACCG
* * *
16301050 GTTTATCTAACTAGTGTTGCGCACATCATTATATCTATCAATTT-TTCTGACTACCATTGGGCAC
1 GTTTATCTGACTAGTGTTGGGCACATCATTATATCTATCAATTTATTC-GACTACCACTGGGCAC
** * * **
16301114 AACTTTTCTTAGTGTATCTGACTAATGCTGGGCACATCATTATATATGTCG
65 AACTTTAATCAGTGTATCTGACTAATGCTGCGCACATCATTATATATACCG
*
16301165 GTTTATCCGACTAG
1 GTTTATCTGACTAG
16301179 CGCGGGGCAC
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
114 3 0.03
115 104 0.97
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (115 bp):
GTTTATCTGACTAGTGTTGGGCACATCATTATATCTATCAATTTATTCGACTACCACTGGGCACA
ACTTTAATCAGTGTATCTGACTAATGCTGCGCACATCATTATATATACCG
Found at i:16313324 original size:28 final size:28
Alignment explanation
Indices: 16313284--16313341 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
16313274 CTGCATACGC
*
16313284 GTAAAAAGTAATATATGCCTCAGATCCA
1 GTAAAAAATAATATATGCCTCAGATCCA
16313312 GTAAAAAATAATATATGCCTCAGATCCA
1 GTAAAAAATAATATATGCCTCAGATCCA
16313340 GT
1 GT
16313342 TCAGTTCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (28 bp):
GTAAAAAATAATATATGCCTCAGATCCA
Found at i:16335143 original size:20 final size:20
Alignment explanation
Indices: 16335120--16335160 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16335110 GAAATGGATG
* * *
16335120 TATGAAATGACAAATTGTTA
1 TATGAAACGAAAAATGGTTA
16335140 TATGAAACGAAAAATGGTTA
1 TATGAAACGAAAAATGGTTA
16335160 T
1 T
16335161 TTGATTTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (20 bp):
TATGAAACGAAAAATGGTTA
Found at i:16338729 original size:15 final size:15
Alignment explanation
Indices: 16338711--16338767 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
16338701 AAATAAAATA
16338711 ATTATTTCAAATATC
1 ATTATTTCAAATATC
* *
16338726 ATTATTTTTAGTAAATATA
1 ATTA--TTT--CAAATATC
16338745 ATATATTTCAAATATC
1 AT-TATTTCAAATATC
16338761 ATTATTT
1 ATTATTT
16338768 TTCATCTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 9 0.27
16 8 0.24
17 3 0.09
18 3 0.09
19 8 0.24
20 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTATTTCAAATATC
Found at i:16338743 original size:19 final size:17
Alignment explanation
Indices: 16338715--16338771 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
16338705 AAAATAATTA
16338715 TTTCAAATATCATTATT
1 TTTCAAATATCATTATT
* * *
16338732 TTTAGTAAATAT-AATATA
1 TTT--CAAATATCATTATT
16338750 TTTCAAATATCATTATT
1 TTTCAAATATCATTATT
16338767 TTTCA
1 TTTCA
16338772 TCTACATTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 6 0.19
17 12 0.39
18 7 0.23
19 6 0.19
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTCAAATATCATTATT
Found at i:16338752 original size:35 final size:33
Alignment explanation
Indices: 16338704--16338769 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 33
16338694 TAGTACAAAA
16338704 TAAAATAATTATTTCAAATATCATTATTTTTAG
1 TAAAATAATTATTTCAAATATCATTATTTTTAG
16338737 TAAATATAATATATTTCAAATATCATTATTTTT
1 TAAA-ATAAT-TATTTCAAATATCATTATTTTT
16338770 CATCTACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 4 0.13
34 5 0.16
35 22 0.71
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (33 bp):
TAAAATAATTATTTCAAATATCATTATTTTTAG
Found at i:16340658 original size:119 final size:120
Alignment explanation
Indices: 16340506--16340745 Score: 473
Period size: 119 Copynumber: 2.0 Consensus size: 120
16340496 AAATTCAACA
16340506 TAAATCTCAGAATTTTCTAAAAATTATTAAAACATTTCCATACAAATTATTAAAATTTATAAATG
1 TAAATCTCAGAATTTTCTAAAAATTATTAAAACATTTCCATACAAATTATTAAAATTTATAAATG
16340571 AATTATAAAAATATATATAATATTAAAAGAATCTAAGAATCTAAAGTTTCTTGTT
66 AATTATAAAAATATATATAATATTAAAAGAATCTAAGAATCTAAAGTTTCTTGTT
16340626 TAAATCTCAG-ATTTTCTAAAAATTATTAAAACATTTCCATACAAATTATTAAAATTTATAAATG
1 TAAATCTCAGAATTTTCTAAAAATTATTAAAACATTTCCATACAAATTATTAAAATTTATAAATG
16340690 AATTATAAAAATATATATAATATTAAAAGAATCTAAGAATCTAAAGTTTCTTGTT
66 AATTATAAAAATATATATAATATTAAAAGAATCTAAGAATCTAAAGTTTCTTGTT
16340745 T
1 T
16340746 TCCTTTTATT
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 110 0.92
120 10 0.08
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (120 bp):
TAAATCTCAGAATTTTCTAAAAATTATTAAAACATTTCCATACAAATTATTAAAATTTATAAATG
AATTATAAAAATATATATAATATTAAAAGAATCTAAGAATCTAAAGTTTCTTGTT
Found at i:16341952 original size:2 final size:2
Alignment explanation
Indices: 16341947--16341976 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16341937 TATAACCCTC
16341947 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
16341977 CGTTTTGCTG
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:16357824 original size:9 final size:10
Alignment explanation
Indices: 16357800--16357828 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
16357790 ACTAAATTTT
16357800 ATATTTTTAA
1 ATATTTTTAA
16357810 ATATTTTTAA
1 ATATTTTTAA
16357820 A-ATTTTTAA
1 ATATTTTTAA
16357829 TAATGTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:16363958 original size:192 final size:193
Alignment explanation
Indices: 16363745--16364129 Score: 763
Period size: 192 Copynumber: 2.0 Consensus size: 193
16363735 AGTTTTTGGT
16363745 TTAGAATTCAAAATTTATATTTTATAAAAATATAAATTAATTTTTAAAATTATATTAAGTATACA
1 TTAGAATTCAAAATTTATATTTTATAAAAATATAAATTAATTTTTAAAATTATATTAAGTATACA
16363810 AATTATAAATAATAATTTATTACATATTTTGGTGTGGGTCATTTTTATGGAGGATGATGAAACCC
66 AATTATAAATAATAATTTATTACATATTTTGGTGTGGGTCATTTTTATGGAGGATGATGAAACCC
16363875 AAATAAAAAAGAGGGTAGTTGAACTGTGAGTTGACAGAGTAGGATGATTTAGGTGGGATTTAG
131 AAATAAAAAAGAGGGTAGTTGAACTGTGAGTTGACAGAGTAGGATGATTTAGGTGGGATTTAG
16363938 TTAGAATTC-AAATTTATATTTTATAAAAATATAAATTAATTTTTAAAATTATATTAAGTATACA
1 TTAGAATTCAAAATTTATATTTTATAAAAATATAAATTAATTTTTAAAATTATATTAAGTATACA
16364002 AATTATAAATAATAATTTATTACATATTTTGGTGTGGGTCATTTTTATGGAGGATGATGAAACCC
66 AATTATAAATAATAATTTATTACATATTTTGGTGTGGGTCATTTTTATGGAGGATGATGAAACCC
16364067 AAATAAAAAAGAGGGTAGTTGAACTGTGAGTTGACAGAGTAGGATGATTTAGGTGGGATTTAG
131 AAATAAAAAAGAGGGTAGTTGAACTGTGAGTTGACAGAGTAGGATGATTTAGGTGGGATTTAG
16364130 AAGAAAGGGG
Statistics
Matches: 192, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
192 183 0.95
193 9 0.05
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (193 bp):
TTAGAATTCAAAATTTATATTTTATAAAAATATAAATTAATTTTTAAAATTATATTAAGTATACA
AATTATAAATAATAATTTATTACATATTTTGGTGTGGGTCATTTTTATGGAGGATGATGAAACCC
AAATAAAAAAGAGGGTAGTTGAACTGTGAGTTGACAGAGTAGGATGATTTAGGTGGGATTTAG
Found at i:16365049 original size:14 final size:15
Alignment explanation
Indices: 16364996--16365047 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
16364986 TGTTTGATAA
16364996 ATTGAAAAAGTAAGT
1 ATTGAAAAAGTAAGT
16365011 ATTG-AAAAGTAAGT
1 ATTGAAAAAGTAAGT
* * *
16365025 GTTGAAAAATTAATT
1 ATTGAAAAAGTAAGT
16365040 ATTGAAAA
1 ATTGAAAA
16365048 TTGAAGTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
ATTGAAAAAGTAAGT
Found at i:16365478 original size:14 final size:14
Alignment explanation
Indices: 16365455--16365487 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16365445 TGATATGGGT
16365455 TTAT-GGGTTTTAG
1 TTATAGGGTTTTAG
*
16365468 TTATAGGGTTTTGG
1 TTATAGGGTTTTAG
16365482 TTATAG
1 TTATAG
16365488 ACAAATGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (14 bp):
TTATAGGGTTTTAG
Found at i:16375443 original size:21 final size:23
Alignment explanation
Indices: 16375419--16375463 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
16375409 AATCGATTCA
*
16375419 TATCAA-G-AATAATATCAAATT
1 TATCAATGAAATAACATCAAATT
16375440 TATCAATGAAAATAACATCAAATT
1 TATCAATG-AAATAACATCAAATT
16375464 AGCAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
24 13 0.65
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (23 bp):
TATCAATGAAATAACATCAAATT
Found at i:16395240 original size:27 final size:27
Alignment explanation
Indices: 16395210--16395690 Score: 629
Period size: 27 Copynumber: 17.8 Consensus size: 27
16395200 TATAACAATA
* *
16395210 ATTTTACCCTATGGGGGTATTTTGGCC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16395237 ATTTTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * *
16395264 ATTCTACCTTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
16395291 ATTCTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16395318 ATTCTACCTTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
16395345 ATTCTACCTTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16395372 ATTTTACCTTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16395399 ATTTTACCCTATGGGGGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16395426 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16395453 ATTTTACCCAATGGGGTTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16395480 ATTCTACCCTATGGGAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
16395507 ATTTTACCCTATGGGGGAATTTCAGTT
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16395534 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* **
16395561 ATTTTATCCTATAAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16395588 ATTCTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16395615 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
16395642 ATTATACCCTATGGAGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
16395669 ATTTTACCCTATGGAGGTATTT
1 ATTTTACCCTATGGGGGTATTT
16395691 TAGTCATAAC
Statistics
Matches: 403, Mismatches: 51, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 403 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:16406852 original size:25 final size:25
Alignment explanation
Indices: 16406813--16406894 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
16406803 TGGATACTCC
* *
16406813 ATAGCTCTTGGGAGCATATCGATTT
1 ATAGCTCGTGAGAGCATATCGATTT
*
16406838 ATAGCTCGTGAGAGCATATCGGTTT
1 ATAGCTCGTGAGAGCATATCGATTT
*
16406863 ATAGCTTGTGAGAGCATAGT-GATTT
1 ATAGCTCGTGAGAGCATA-TCGATTT
*
16406888 ACAGCTC
1 ATAGCTC
16406895 ATATAAGCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
25 48 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
ATAGCTCGTGAGAGCATATCGATTT
Found at i:16414336 original size:25 final size:25
Alignment explanation
Indices: 16414254--16414347 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
16414244 CGAATACTAC
*
16414254 ACAGTTCGTGAGAGCATACTGATTT
1 ACAGCTCGTGAGAGCATACTGATTT
* *
16414279 ATAGCTCATGAGAGCATACTGATTT
1 ACAGCTCGTGAGAGCATACTGATTT
* *
16414304 ATAGCTCGTGAGAGTATACTGATTT
1 ACAGCTCGTGAGAGCATACTGATTT
16414329 ACAGCTCGT-ATGAGCATAC
1 ACAGCTCGTGA-GAGCATAC
16414348 ATGTACATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 1 0.02
25 60 0.98
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACTGATTT
Found at i:16424272 original size:27 final size:26
Alignment explanation
Indices: 16424242--16424334 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 26
16424232 GTTTCGACCA
*
16424242 ACAGCTCGTGTGACCAGACCCATTGTC
1 ACAGCTCGTGTGAGCAGACCCATT-TC
* * ** **
16424269 ACAGCTCATGTGAGGATTCTGA-TTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
* *
16424294 ACAACTCGTGTGAGCAGACCTATTTTC
1 ACAGCTCGTGTGAGCAGACCCA-TTTC
16424321 ACAGCTCGTGTGAG
1 ACAGCTCGTGTGAG
16424335 GATTCTGATT
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
25 17 0.35
26 1 0.02
27 31 0.63
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAGACCCATTTC
Found at i:16424305 original size:25 final size:25
Alignment explanation
Indices: 16424267--16424359 Score: 84
Period size: 25 Copynumber: 3.6 Consensus size: 25
16424257 AGACCCATTG
* *
16424267 TCACAGCTCATGTGAGGATTCTGAT
1 TCACAACTCGTGTGAGGATTCTGAT
*
16424292 TCACAACTCGTGTGAGCAGA-CCT-ATTT
1 TCACAACTCGTGTGAG--GATTCTGA--T
*
16424319 TCACAGCTCGTGTGAGGATTCTGAT
1 TCACAACTCGTGTGAGGATTCTGAT
16424344 TCACAGA-TCGTGTGAG
1 TCACA-ACTCGTGTGAG
16424360 CATACATGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
25 32 0.58
26 4 0.07
27 19 0.35
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (25 bp):
TCACAACTCGTGTGAGGATTCTGAT
Found at i:16424324 original size:52 final size:53
Alignment explanation
Indices: 16424242--16424361 Score: 183
Period size: 52 Copynumber: 2.3 Consensus size: 53
16424232 GTTTCGACCA
*
16424242 ACAG-CTCGTGTGACCAGACCCATTGTCACAGCTCATGTGAGGATTCTGATTC
1 ACAGACTCGTGTGAGCAGACCCATTGTCACAGCTCATGTGAGGATTCTGATTC
* * *
16424294 ACA-ACTCGTGTGAGCAGACCTATTTTCACAGCTCGTGTGAGGATTCTGATTC
1 ACAGACTCGTGTGAGCAGACCCATTGTCACAGCTCATGTGAGGATTCTGATTC
16424346 ACAGA-TCGTGTGAGCA
1 ACAGACTCGTGTGAGCA
16424362 TACATGTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
52 61 0.98
53 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (53 bp):
ACAGACTCGTGTGAGCAGACCCATTGTCACAGCTCATGTGAGGATTCTGATTC
Found at i:16431588 original size:25 final size:25
Alignment explanation
Indices: 16431551--16431618 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
16431541 CTTGAATGTC
*
16431551 CACAGCTCATGTGAGCATTCTGATT
1 CACAGCTCGTGTGAGCATTCTGATT
* **
16431576 CACAACTCGTGTGAGGTTTCTGATT
1 CACAGCTCGTGTGAGCATTCTGATT
*
16431601 CACAGCTTGTGTGAGCAT
1 CACAGCTCGTGTGAGCAT
16431619 ACATGTATAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATTCTGATT
Found at i:16433364 original size:17 final size:17
Alignment explanation
Indices: 16433331--16433364 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16433321 AAATTATTTA
* *
16433331 TTTAATTTTATTTAATT
1 TTTAATTTAATTAAATT
16433348 TTTAATTTAATTAAATT
1 TTTAATTTAATTAAATT
16433365 GATGTTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAATTTAATTAAATT
Found at i:16434817 original size:29 final size:29
Alignment explanation
Indices: 16434759--16434824 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
16434749 GATTTCCCGG
*
16434759 AAAAA-GGACCATTTCGGTAAATAATTAA
1 AAAAAGGGCCCATTTCGGTAAATAATTAA
* **
16434787 AAAATGGGCCCATTTCGGT-AATTTTTGAA
1 AAAAAGGGCCCATTTCGGTAAATAATT-AA
16434816 AAAAAGGGC
1 AAAAAGGGC
16434825 TTTTATTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (29 bp):
AAAAAGGGCCCATTTCGGTAAATAATTAA
Found at i:16454379 original size:9 final size:9
Alignment explanation
Indices: 16454365--16454533 Score: 108
Period size: 9 Copynumber: 17.4 Consensus size: 9
16454355 AAATGACTTT
16454365 TTTTTATAA
1 TTTTTATAA
16454374 TTTTTATATA
1 TTTTTATA-A
16454384 TTTTTAATAA
1 TTTTT-ATAA
16454394 TTTATTATAA
1 TTT-TTATAA
*
16454404 CTTTTATAA
1 TTTTTATAA
*
16454413 GTTATTATAA
1 -TTTTTATAA
* *
16454423 TATTTACAA
1 TTTTTATAA
*
16454432 TTTTTATGGA
1 TTTTTAT-AA
16454442 TTTTT-TAA
1 TTTTTATAA
16454450 TTTTTTAATAA
1 -TTTTT-ATAA
*
16454461 TTTATTA-GA
1 TTT-TTATAA
*
16454470 TTGATTATAA
1 TT-TTTATAA
16454480 TTTTTATAA
1 TTTTTATAA
16454489 GTTTTTATAA
1 -TTTTTATAA
* *
16454499 TATTAATAA
1 TTTTTATAA
*
16454508 GTTTCTATGAA
1 -TTTTTAT-AA
16454519 TTTTTTTATAA
1 --TTTTTATAA
16454530 TTTT
1 TTTT
16454534 ATCTAAATCT
Statistics
Matches: 124, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.01
9 54 0.44
10 49 0.40
11 14 0.11
12 6 0.05
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:16454383 original size:11 final size:11
Alignment explanation
Indices: 16454363--16454411 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
16454353 ATAAATGACT
*
16454363 TTTTTTTATAA
1 TTTTTATATAA
16454374 TTTTTATAT-A
1 TTTTTATATAA
16454384 TTTTTA-ATAA
1 TTTTTATATAA
*
16454394 TTTAT-TATAA
1 TTTTTATATAA
*
16454404 CTTTTATA
1 TTTTTATA
16454412 AGTTATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 2 0.06
10 19 0.61
11 10 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTTATATAA
Found at i:16454389 original size:19 final size:18
Alignment explanation
Indices: 16454365--16454533 Score: 108
Period size: 19 Copynumber: 8.7 Consensus size: 18
16454355 AAATGACTTT
16454365 TTTTTATAATTTTTATATA
1 TTTTTATAATTTTTATA-A
16454384 TTTTTAATAATTTATTATAA
1 TTTTT-ATAATTT-TTATAA
* *
16454404 CTTTTATAAGTTATTATAA
1 TTTTTATAA-TTTTTATAA
* * *
16454423 TATTTACAATTTTTATGGA
1 TTTTTATAATTTTTAT-AA
16454442 TTTTT-TAATTTTTTAATAA
1 TTTTTATAA-TTTTT-ATAA
* *
16454461 TTTATTA-GATTGATTATAA
1 TTT-TTATAATT-TTTATAA
16454480 TTTTTATAAGTTTTTATAA
1 TTTTTATAA-TTTTTATAA
* * *
16454499 TATTAATAAGTTTCTATGAA
1 TTTTTATAA-TTTTTAT-AA
16454519 TTTTTTTATAATTTT
1 --TTTTTATAATTTT
16454534 ATCTAAATCT
Statistics
Matches: 116, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
18 11 0.09
19 65 0.56
20 25 0.22
21 8 0.07
22 7 0.06
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:16457603 original size:54 final size:54
Alignment explanation
Indices: 16457499--16457621 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
16457489 GGGGGCACGC
* * * *
16457499 GGCCGTGTCGCAGCCCATGTAACTCACTGACTTGAGACACACGGTCGTGTCCCA
1 GGCCGTGTCTCAGCCCATATAACTCACTAACTTGAGACACACGCTCGTGTCCCA
* * *
16457553 -GCCTGTGTCTCAGCCCATATAACTCACTAACTTGGGTCACACGACT-GTGTCGCA
1 GGCC-GTGTCTCAGCCCATATAACTCACTAACTTGAGACACACG-CTCGTGTCCCA
*
16457607 GGCCGTGTGTCAGCC
1 GGCCGTGTCTCAGCC
16457622 TGTATGGACT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 3 0.05
54 51 0.88
55 4 0.07
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (54 bp):
GGCCGTGTCTCAGCCCATATAACTCACTAACTTGAGACACACGCTCGTGTCCCA
Found at i:16460903 original size:5 final size:5
Alignment explanation
Indices: 16460893--16460937 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
16460883 ATGAACATTT
*
16460893 ATATC ATATC ATATA ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
16460938 GTGCCATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:16470172 original size:95 final size:95
Alignment explanation
Indices: 16470032--16470222 Score: 346
Period size: 95 Copynumber: 2.0 Consensus size: 95
16470022 CTTATGGGGG
* *
16470032 ACCTCTCATCTCAGTGCCAACATCATGTCGCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
1 ACCTCTCATCTCAGTGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
16470097 GCCAACGCCATGTCCTAGACATGGTCTTAC
66 GCCAACGCCATGTCCTAGACATGGTCTTAC
* *
16470127 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
1 ACCTCTCATCTCAGTGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
16470192 GCCAACGCCATGTCCTAGACATGGTCTTAC
66 GCCAACGCCATGTCCTAGACATGGTCTTAC
16470222 A
1 A
16470223 TGGGGCCTCT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.26
Consensus pattern (95 bp):
ACCTCTCATCTCAGTGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
GCCAACGCCATGTCCTAGACATGGTCTTAC
Found at i:16470179 original size:145 final size:147
Alignment explanation
Indices: 16469992--16470276 Score: 360
Period size: 145 Copynumber: 1.9 Consensus size: 147
16469982 ATTTCTTATA
* * * ** * *
16469992 TCGGTGCCCATGCCATGTCCTAGACATGATCTTATGGGGGACCTCTCATCTCAGTGCCAACATCA
1 TCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGAGGACCTCTCATCTCAGTGCCAACACCA
* *
16470057 TGTCGC-AGACATGGTCTTACATAGGACCTCTC-ATCTC-GGTGCCAACGCCATGTCCTAGACAT
66 TGTC-CTAGACATGGTCTTACATAGGACCTCTCAATCTCAGATGCCAACGCCATGTCCCAGACAT
16470119 GGTCTTACACCTCTCATC
130 GGTCTTACACCTCTCATC
* * * *
16470137 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGTGCCAACGCCA
1 TCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGAGGACCTCTCATCTCAGTGCCAACACCA
* * *
16470202 TGTCCTAGACATGGTCTTACATGGGGCCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGA
66 TGTCCTAGACATGGTCTTACATAGGACCTCTC--AATCTC-A-GATGCCAACGCCATGTCCCAGA
16470267 CATGGTCTTA
127 CATGGTCTTA
16470277 TACGGGATCG
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
144 1 0.01
145 82 0.70
148 5 0.04
151 29 0.25
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (147 bp):
TCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGAGGACCTCTCATCTCAGTGCCAACACCA
TGTCCTAGACATGGTCTTACATAGGACCTCTCAATCTCAGATGCCAACGCCATGTCCCAGACATG
GTCTTACACCTCTCATC
Found at i:16470221 original size:50 final size:49
Alignment explanation
Indices: 16469959--16470276 Score: 322
Period size: 50 Copynumber: 6.3 Consensus size: 49
16469949 CAATGTCATA
* ** * * * *
16469959 TCCTAGATATGGTCTTACATGAGATTTCTTATATCGGTGCCCATGCCATG
1 TCCTAGACATGGTCTTACATG-GACCTCTCATCTCGGTGCCAACGCCATG
* *** * **
16470009 TCCTAGACATGATCTTATGGGGGACCTCTCATCTCAGTGCCAACATCATG
1 TCCTAGACATGGTCTTA-CATGGACCTCTCATCTCGGTGCCAACGCCATG
16470059 TCGC-AGACATGGTCTTACATAGGACCTCTCATCTCGGTGCCAACGCCATG
1 TC-CTAGACATGGTCTTACAT-GGACCTCTCATCTCGGTGCCAACGCCATG
16470109 TCCTAGACATGGTCTTAC----ACCTCTCATCTCGGTGCCAACGCCATG
1 TCCTAGACATGGTCTTACATGGACCTCTCATCTCGGTGCCAACGCCATG
*
16470154 TCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCTAGACATGGTCTTACAT-GGACCTCTCATCTCGGTGCCAACGCCATG
* * *
16470204 TCCTAGACATGGTCTTACATGGGGCCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCTAGACATGGTCTTACAT-GGACCTCTC---ATCTC---GGTGCCAACGCCATG
*
16470260 TCCCAGACATGGTCTTA
1 TCCTAGACATGGTCTTA
16470277 TACGGGATCG
Statistics
Matches: 225, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
45 44 0.20
49 1 0.00
50 144 0.64
51 2 0.01
53 5 0.02
56 29 0.13
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (49 bp):
TCCTAGACATGGTCTTACATGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:16473084 original size:23 final size:23
Alignment explanation
Indices: 16473053--16473104 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
16473043 ACCTACCTTC
* *
16473053 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
16473076 TTACAGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
16473099 TTACAG
1 TTACAG
16473105 AGCCATGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGGTA
Found at i:16477095 original size:25 final size:23
Alignment explanation
Indices: 16477063--16477114 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 23
16477053 GGATTTTTAT
16477063 TTTATTTAATATTAATATAATCATA
1 TTTATTTAATATTAATATAA--ATA
16477088 TTTATTTAATATTAATATAAATA
1 TTTATTTAATATTAATATAAATA
16477111 TTTA
1 TTTA
16477115 AATTAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 7 0.26
25 20 0.74
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTATTTAATATTAATATAAATA
Found at i:16477125 original size:25 final size:24
Alignment explanation
Indices: 16477063--16477126 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
16477053 GGATTTTTAT
*
16477063 TTTATTTAATATTAATATAATCATA
1 TTTAATTAATATTAATATAA-CATA
*
16477088 TTTATTTAATATTAATATAA-ATA
1 TTTAATTAATATTAATATAACATA
16477111 TTTAAATTAATTATTA
1 TTT-AATTAA-TATTA
16477127 TATTTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 25 0.69
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAATTAATATTAATATAACATA
Found at i:16477129 original size:18 final size:18
Alignment explanation
Indices: 16477085--16477131 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
16477075 TAATATAATC
16477085 ATATT-TATTTAATATTA
1 ATATTATATTTAATATTA
*
16477102 ATATAAATATTTAA-ATTA
1 ATAT-TATATTTAATATTA
16477120 ATTATTATATTT
1 A-TATTATATTT
16477132 TTTAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTATATTTAATATTA
Found at i:16477434 original size:15 final size:14
Alignment explanation
Indices: 16477396--16477434 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
16477386 TGTAAGTAAT
16477396 ATTTAAAATAAAAA
1 ATTTAAAATAAAAA
*
16477410 AATTATAAATAAAAA
1 ATTTA-AAATAAAAA
16477425 ATTTGAAAAT
1 ATTT-AAAAT
16477435 TATATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 4 0.19
15 16 0.76
16 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATTTAAAATAAAAA
Found at i:16479393 original size:36 final size:36
Alignment explanation
Indices: 16479346--16479419 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
16479336 TGTTTCCTGC
16479346 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
1 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
16479382 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
1 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
16479418 AA
1 AA
16479420 TTTTGGGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (36 bp):
AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
Found at i:16499037 original size:41 final size:40
Alignment explanation
Indices: 16498975--16499211 Score: 325
Period size: 41 Copynumber: 5.8 Consensus size: 40
16498965 TCCTGACCTT
*
16498975 TTGGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TTGG-GCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGC
* *
16499016 TCTGTGCTTTAGCAGCGTTTTTGAAAAAGCGCCACTAATGC
1 T-TGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGC
* *
16499057 TTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TT-GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGC
16499098 TTTGGGCTTTAGCGGCGTTTTTGAAAAAAGCG-C-CTAATGC
1 -TTGGGCTTTAGCGGCGTTTTTG-AAAAAGCGCCACTAATGC
* *
16499138 TCTGTGCTTTAGCAGCGTTTTTGAAAAAGCGCCACTAATGC
1 T-TGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGC
*
16499179 TTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCC
1 TT-GGGCTTTAGCGGCGTTTTTGAAAAAGCGCC
16499212 CCGCTTTTTT
Statistics
Matches: 175, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
39 9 0.05
40 29 0.17
41 125 0.71
42 12 0.07
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (40 bp):
TTGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGC
Found at i:16499180 original size:81 final size:80
Alignment explanation
Indices: 16498975--16499211 Score: 341
Period size: 81 Copynumber: 2.9 Consensus size: 80
16498965 TCCTGACCTT
* * * *
16498975 TTGGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGTGCTTTAGCAGCGTTTTTGA
1 TTGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTTGGGCTTTAGCGGCGTTTTTGA
16499040 AAAAGCGCCACTAATGC
66 AAAAGCG-C-CTAATGC
*
16499057 TTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTTGGGCTTTAGCGGCGTTTTTGA
1 TTGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTTGGGCTTTAGCGGCGTTTTTG-
16499122 AAAAAGCGCCTAATGC
65 AAAAAGCGCCTAATGC
* * * * *
16499138 TCT-GTGCTTTAGCAGCGTTTTTGAAAAAGCGCCACTAATGCTTGGGGGTTTAGCGGCGTTTTTG
1 T-TGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTTGGGCTTTAGCGGCGTTTTTG
16499202 AAAAAGCGCC
65 AAAAAGCGCC
16499212 CCGCTTTTTT
Statistics
Matches: 142, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
80 10 0.07
81 63 0.44
82 61 0.43
83 8 0.06
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (80 bp):
TTGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTTGGGCTTTAGCGGCGTTTTTGA
AAAAGCGCCTAATGC
Found at i:16499198 original size:122 final size:124
Alignment explanation
Indices: 16498974--16499211 Score: 446
Period size: 122 Copynumber: 1.9 Consensus size: 124
16498964 TTCCTGACCT
16498974 TTTGGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGTGCTTTAGCAGCGTTTTTG
1 TTTGGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGTGCTTTAGCAGCGTTTTTG
16499039 AAAAAGCGCCACTAATGCTTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
66 AAAAAGCGCCACTAATGCTTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
16499098 TTTGG-GCTTTAGCGGCGTTTTTGAAAAAAGCG-C-CTAATGCTCTGTGCTTTAGCAGCGTTTTT
1 TTTGGAGCTTTAGCGGCGTTTTTG-AAAAAGCGCCGCTAATGCTCTGTGCTTTAGCAGCGTTTTT
16499160 GAAAAAGCGCCACTAATGCTTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCC
65 GAAAAAGCGCCACTAATGCTTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCC
16499212 CCGCTTTTTT
Statistics
Matches: 113, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
122 81 0.72
123 19 0.17
124 13 0.12
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (124 bp):
TTTGGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGTGCTTTAGCAGCGTTTTTG
AAAAAGCGCCACTAATGCTTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:16499460 original size:15 final size:15
Alignment explanation
Indices: 16499410--16499456 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
16499400 TATTTTAAGG
*
16499410 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
16499425 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
16499440 -TTAGGGATTAT-GA
1 TTTAGGGATTATGGA
16499453 TTTA
1 TTTA
16499457 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 2 0.07
14 14 0.47
15 14 0.47
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:16499747 original size:14 final size:14
Alignment explanation
Indices: 16499727--16499806 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
16499717 ACGAATTATA
16499727 GTTTAAGGGTT-GG
1 GTTTAAGGGTTAGG
*
16499740 GCTTTAAGGTTTAGG
1 G-TTTAAGGGTTAGG
16499755 GTTTAAGGGTTTAGG
1 GTTTAAGGG-TTAGG
* ***
16499770 GGTTAAACATTAGG
1 GTTTAAGGGTTAGG
* *
16499784 GGTTAAGAGTTAGG
1 GTTTAAGGGTTAGG
16499798 GATTTAAGG
1 G-TTTAAGG
16499807 TATAGGGATT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
13 1 0.02
14 33 0.63
15 18 0.35
ACGTcount: A:0.25, C:0.03, G:0.38, T:0.35
Consensus pattern (14 bp):
GTTTAAGGGTTAGG
Found at i:16502420 original size:27 final size:27
Alignment explanation
Indices: 16502326--16502420 Score: 72
Period size: 27 Copynumber: 3.5 Consensus size: 27
16502316 TACTTGTATT
*
16502326 TAAAATAATAAAACT-TA-AAAAAGTT-
1 TAAAATAATAAAAATATATAAAAA-TTA
* * **
16502351 TAAAACAAATTAAAAATACATAAATTTTA
1 TAAAA-TAA-TAAAAATATATAAAAATTA
*
16502380 TAAAAGAA-ATAAAATATATAAAAATTA
1 TAAAATAATA-AAAATATATAAAAATTA
16502407 TAAAATAATAAAAA
1 TAAAATAATAAAAA
16502421 ACTTGAAAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 5 0.09
26 3 0.06
27 31 0.58
28 6 0.11
29 8 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.27
Consensus pattern (27 bp):
TAAAATAATAAAAATATATAAAAATTA
Found at i:16504438 original size:43 final size:43
Alignment explanation
Indices: 16504330--16504556 Score: 289
Period size: 43 Copynumber: 5.3 Consensus size: 43
16504320 ATATTATGTT
* ** * * * *
16504330 TTTAGCGGCGTTTTTGCTAGAAGCGCCACTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
16504372 TTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
16504415 TTTAGCGACGTTTATGGGAAAAGCGCCGCTGAAA-GTCGTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCT-AAAGGTCGTGGTC
16504458 TTTAGCGGCGTTTGTGAGAAGAA-CGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGAGAA-AAGCGCCGCTAAAGGTCGTGGTC
*
16504501 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
16504544 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
16504557 TTTTTGGTGC
Statistics
Matches: 164, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
42 35 0.21
43 124 0.76
44 5 0.03
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:16504851 original size:30 final size:32
Alignment explanation
Indices: 16504788--16504849 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 32
16504778 AATTTTGTGC
*
16504788 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
1 AGGAATACAATTTGGGGCCAAATAGAAGAAAA
*
16504820 AGGAA-ACAA-TT-GGGCCAAATTGAAGAAAA
1 AGGAATACAATTTGGGGCCAAATAGAAGAAAA
16504849 A
1 A
16504850 AGCAAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 17 0.61
30 2 0.07
31 4 0.14
32 5 0.18
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (32 bp):
AGGAATACAATTTGGGGCCAAATAGAAGAAAA
Found at i:16513379 original size:30 final size:30
Alignment explanation
Indices: 16513345--16513404 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16513335 TATTAATATG
* *
16513345 TATACATACATATA-TATACAAAGATAAATA
1 TATACATACATAGATTATA-AAAAATAAATA
*
16513375 TATACATATATAGATTATAAAAAATAAATA
1 TATACATACATAGATTATAAAAAATAAATA
16513405 CATATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (30 bp):
TATACATACATAGATTATAAAAAATAAATA
Found at i:16513422 original size:24 final size:23
Alignment explanation
Indices: 16513350--16513426 Score: 64
Period size: 26 Copynumber: 3.0 Consensus size: 23
16513340 ATATGTATAC
* *
16513350 ATACATATATATACAAAGATAAATAT
1 ATACATATAAATA-AAA-A-AAATAA
*
16513376 ATACATATATAGATTATAAAAAATAA
1 ATACATATA-A-A-TAAAAAAAATAA
16513402 ATACATATAAATAAAATAAAATAA
1 ATACATATAAATAAAA-AAAATAA
16513426 A
1 A
16513427 AATAATTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 4 0.09
24 9 0.21
25 1 0.02
26 23 0.53
27 1 0.02
28 3 0.07
29 2 0.05
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.29
Consensus pattern (23 bp):
ATACATATAAATAAAAAAAATAA
Found at i:16513428 original size:30 final size:28
Alignment explanation
Indices: 16513394--16513454 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
16513384 ATAGATTATA
16513394 AAAAATAAATACATATAAATAAAATAAAAT
1 AAAAATAAATACAT-TAAATAAAA-AAAAT
* * *
16513424 AAAAATAATTACATTATATTAAAAAAAT
1 AAAAATAAATACATTAAATAAAAAAAAT
16513452 AAA
1 AAA
16513455 TATGCGTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 8 0.29
29 7 0.25
30 13 0.46
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAATAAATACATTAAATAAAAAAAAT
Found at i:16515236 original size:45 final size:45
Alignment explanation
Indices: 16515131--16515278 Score: 145
Period size: 45 Copynumber: 3.3 Consensus size: 45
16515121 TTCTAATCCA
* * * * *
16515131 CTCCACTACAACTTTAGGGATATAGGATTTG-TTTATTTAGTCTG
1 CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
* * * ** * *
16515175 CCCCACTGCAATTTTAGGGGGATAAGACTTGCTTCCTTGAGTTTG
1 CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
* * *
16515220 CTCCACTACAACTTTAGGGAAATAAGACTCGCTTTCTTGGGTCTA
1 CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
*
16515265 CTCCACTGCAACTT
1 CTCCACTACAACTT
16515279 CAAGGAGATA
Statistics
Matches: 81, Mismatches: 22, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 24 0.30
45 57 0.70
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
Found at i:16515373 original size:44 final size:44
Alignment explanation
Indices: 16515264--16515421 Score: 128
Period size: 44 Copynumber: 3.7 Consensus size: 44
16515254 TCTTGGGTCT
* * * **
16515264 ACTCCACTGCAACTTCAAGGAGATAAAACCCGAT-GTGAT-AT--
1 ACTCCACTGCAACTTCAGGGAGATAAGATCCG-TGGTTTTAATCC
* *
16515305 ACTCTACTGCACCTTC-GGAGAGATAAGATCCGTGGTTTTAATCC
1 ACTCCACTGCAACTTCAGG-GAGATAAGATCCGTGGTTTTAATCC
* *** * * *
16515349 ACTCCACTGCAACTTCAGGGAGATAGGATAATTGGCTTCAAACC
1 ACTCCACTGCAACTTCAGGGAGATAAGATCCGTGGTTTTAATCC
*
16515393 GCTCCACTGCAACTTCAGGGAGATAAGAT
1 ACTCCACTGCAACTTCAGGGAGATAAGAT
16515422 TTGCCATACA
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.02
41 28 0.30
42 2 0.02
44 59 0.63
45 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATCCGTGGTTTTAATCC
Found at i:16515768 original size:44 final size:44
Alignment explanation
Indices: 16515719--16516224 Score: 547
Period size: 44 Copynumber: 11.8 Consensus size: 44
16515709 ATCTGCTATT
* * *
16515719 TTCAACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACGATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* *
16515763 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTATAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * *
16515807 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
16515851 TTCAACCCATTCCACTGCTGACTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
16515895 TTTAACCTATTCCACTACTGTCCAGGGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * *
16515934 TT-AATCTATTCCACTGCT-ACCCAAGGAAATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGA-CCAGGGAGATAGGATTCACAATC
16515977 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * *
16516021 TTTAACCTATTCCACTGTTGTCTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
** * *
16516065 TTTGACCTATTTCACTGCTGACCAGGGAGATAGG----GC--TC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * * * *
16516103 TTTAATCTATTCCACTTCCGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
16516147 TTCAACCTATTCAACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
16516191 TTTAACCTATTCCACTACTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
16516225 GCTGGGGTCA
Statistics
Matches: 383, Mismatches: 62, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
38 56 0.15
39 2 0.01
40 3 0.01
42 3 0.01
43 3 0.01
44 313 0.82
45 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:16516051 original size:170 final size:170
Alignment explanation
Indices: 16515803--16516224 Score: 646
Period size: 170 Copynumber: 2.5 Consensus size: 170
16515793 TAGGACCTAT
* * * * * *
16515803 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCCATTCCACTG
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTG
* *
16515868 CTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGATTC
66 CTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGACTC
*
16515933 TTTAATCTATTCCACTGCTACCCAAGGAAATAGAATTCTC
131 TTTAATCTATTCCACTGCCACCCAAGGAAATAGAATTCTC
16515973 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTG
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTG
* * * * * *
16516038 TTGTCTAGGGAGATAGGATTCACAATCTTTGACCTATTTCACTGCTGACCAGGGAGATAGGGCTC
66 CTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGACTC
* * * *
16516103 TTTAATCTATTCCACTTCCGCCCAGGGAGATAGAATTCTC
131 TTTAATCTATTCCACTGCCACCCAAGGAAATAGAATTCTC
* *
16516143 AATCTTCAACCTATTCAACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTA
1 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTG
*
16516208 CTGACCAGGGAGATAGG
66 CTGACTAGGGAGATAGG
16516225 GCTGGGGTCA
Statistics
Matches: 228, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
170 228 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (170 bp):
AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTG
CTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGACTC
TTTAATCTATTCCACTGCCACCCAAGGAAATAGAATTCTC
Found at i:16516113 original size:126 final size:129
Alignment explanation
Indices: 16515719--16516227 Score: 547
Period size: 126 Copynumber: 4.0 Consensus size: 129
16515709 ATCTGCTATT
* * *
16515719 TTCAACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTG
* * * * * **
16515783 ACCAGGGAGATAGGACCTATAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCA
65 ACCAGGGAGATAGGATC-ACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAG-AGGCTC-
16515848 ATC
127 ATC
* * * * *
16515851 TTCAACCCATTCCACTGCTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
* * * **
16515916 CCAGGGAGATAGGAT-----TCTTTAATCTATTCCACTGCT-ACCCAAGGAAATAGAATTCTCAA
66 CCAGGGAGATAGGATCACAATCTTTAACCTATTCCACTGCTGA-CCAGGGAGATAG-AGGCTC-A
16515975 TC
128 TC
* * *
16515977 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
* * *
16516042 CTAGGGAGATAGGATTCACAATCTTTGACCTATTTCACTGCTGACCAGGGAGATAG-GGCTC-T-
66 CCAGGGAGATAGGA-TCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAGGCTCATC
* * * * * * *
16516104 TT-AATCTATTCCACTTCCGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCAACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
*
16516168 CCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCAGGGAGATAG-GGCT
66 CCAGGGAGATAGGA-TCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAGGCT
16516228 GGGGTCATCA
Statistics
Matches: 329, Mismatches: 39, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
126 223 0.68
127 3 0.01
128 1 0.00
130 3 0.01
132 97 0.29
133 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (129 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGGATCACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAGGCTCATC
Found at i:16516283 original size:88 final size:88
Alignment explanation
Indices: 16516191--16516625 Score: 306
Period size: 88 Copynumber: 5.0 Consensus size: 88
16516181 ATTCACAATC
* * * * *
16516191 TTTAACCTATTCCACTACTGA-CCAGGGAGATAGGGCTGGGGTCATCAATCTGCTTCGCTGTCGG
1 TTTAACCTACTCCACTAC-AACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGG
16516255 TACAGGAAGGCAAGATCTGCTATT
65 TACAGGAAGGCAAGATCTGCTATT
* * * * ** * *
16516279 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTTTCTTCGATCTGCTTCACTGTCGGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
*
16516344 GCAGGAAGGCAAGATCTGCTATT
66 ACAGGAAGGCAAGATCTGCTATT
* * * * * ** * **
16516367 TTT-AGC--CTGCGCTGCAACCCAGGGAGACAAGGCTGGTGT-ATTTGATCTGCTTCGCTACCGG
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCA-TCAATCTGCTTCACTGTCGG
* *
16516428 TGCAGGAAGGCAAGATCTTCTATT
65 TACAGGAAGGCAAGATCTGCTATT
* * * * * * * * * * * * *
16516452 TTTAGCTTGCTCCGCTGCAACCTAGGGAGGCAATGTTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
* *
16516517 GCAGGAAGGTAAGATCTGCTATT
66 ACAGGAAGGCAAGATCTGCTATT
* * ** * * * * * * ** **
16516540 TTT-ACCTTCTCCGCTGTAACCCAGGGAGGCAAGGCTAGTGACTTCGATCTGCTTCGTTGTTAGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
*
16516604 ATAGGAAGGCAAGATCTGCTAT
66 ACAGGAAGGCAAGATCTGCTAT
16516626 CTTCACTGAT
Statistics
Matches: 288, Mismatches: 53, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
85 72 0.25
87 71 0.25
88 145 0.50
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (88 bp):
TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
ACAGGAAGGCAAGATCTGCTATT
Found at i:16516429 original size:85 final size:86
Alignment explanation
Indices: 16516238--16516625 Score: 492
Period size: 88 Copynumber: 4.5 Consensus size: 86
16516228 GGGGTCATCA
* *
16516238 ATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT-AGCT-CTCCGCTGCAACCCA
* *
16516303 GGGAGGCAAGGCTGGTTTCTTCG
64 GGGAGGCAAGGCTGGTGTATTCG
* *
16516326 ATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGC-CTGCGCTGCAACCCAGG
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTCTCCGCTGCAACCCAGG
* *
16516390 GAGACAAGGCTGGTGTATTTG
66 GAGGCAAGGCTGGTGTATTCG
** * *
16516411 ATCTGCTTCGCTACCGGTGCAGGAAGGCAAGATCTTCTATTTTTAGCTTGCTCCGCTGCAACCTA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGC-T-CTCCGCTGCAACCCA
* * *
16516476 GGGAGGCAATGTTGGTGTCTTCG
64 GGGAGGCAAGGCTGGTGTATTCG
* * *
16516499 ATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTACCTTCTCCGCTGTAACCCAG
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGC-TCTCCGCTGCAACCCAG
*
16516564 GGAGGCAAGGCTAGTG-ACTTCG
65 GGAGGCAAGGCTGGTGTA-TTCG
* ** **
16516586 ATCTGCTTCGTTGTTAGTATAGGAAGGCAAGATCTGCTAT
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
16516626 CTTCACTGAT
Statistics
Matches: 260, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
85 76 0.29
87 67 0.26
88 117 0.45
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (86 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTCTCCGCTGCAACCCAGG
GAGGCAAGGCTGGTGTATTCG
Found at i:16516501 original size:173 final size:174
Alignment explanation
Indices: 16516238--16516625 Score: 528
Period size: 173 Copynumber: 2.2 Consensus size: 174
16516228 GGGGTCATCA
**
16516238 ATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
*
16516303 GGGAGGCAAGGCTGGTTTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
66 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
* * * *
16516368 TTAGC-CTGCGCTGCAACCCAGGGAGACAAGGCTGGTGTA-TTTG
131 TTACCTCTCCGCTGCAACCCAGGGAGACAAGGCTAGTG-ACTTCG
* * * * *
16516411 ATCTGCTTCGCTACCGGTGCAGGAAGGCAAGATCTTCTATTTTTAGCTTGCTCCGCTGCAACCTA
1 ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
* * * *
16516476 GGGAGGCAATGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTT
66 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
* *
16516541 TTACCTTCTCCGCTGTAACCCAGGGAGGCAAGGCTAGTGACTTCG
131 TTACC-TCTCCGCTGCAACCCAGGGAGACAAGGCTAGTGACTTCG
* **** *
16516586 ATCTGCTTCGTTGTTAGTATAGGAAGGCAAGATCTGCTAT
1 ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTAT
16516626 CTTCACTGAT
Statistics
Matches: 186, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
173 122 0.66
174 1 0.01
175 63 0.34
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (174 bp):
ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
TTACCTCTCCGCTGCAACCCAGGGAGACAAGGCTAGTGACTTCG
Found at i:16522401 original size:30 final size:28
Alignment explanation
Indices: 16522362--16522425 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
16522352 TATATAGATT
16522362 ATAAGAAATAATTACATATAAATAAAATAAA
1 ATAA-AAATAATTACAT-TAAATAAAA-AAA
* *
16522393 ATAAAAATAATTACATTATATTAAAAAA
1 ATAAAAATAATTACATTAAATAAAAAAA
16522421 ATAAA
1 ATAAA
16522426 TATGCGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 8 0.26
29 7 0.23
30 12 0.39
31 4 0.13
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAAAAATAATTACATTAAATAAAAAAA
Found at i:16522466 original size:25 final size:26
Alignment explanation
Indices: 16522437--16522486 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16522427 ATGCGTATGT
*
16522437 ATATATA-A-ATATGTGTAAAAAATAC
1 ATATATACATATAT-TGAAAAAAATAC
16522462 ATATATACATATATTGAAAAAAATA
1 ATATATACATATATTGAAAAAAATA
16522487 ATTAAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (26 bp):
ATATATACATATATTGAAAAAAATAC
Found at i:16522466 original size:27 final size:26
Alignment explanation
Indices: 16522436--16522486 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
16522426 TATGCGTATG
* *
16522436 TATATATAAATATGTGTAAAAAATACA
1 TATATACAAATAT-TGAAAAAAATACA
*
16522463 TATATACATATATTGAAAAAAATA
1 TATATACAAATATTGAAAAAAATA
16522487 ATTAAATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (26 bp):
TATATACAAATATTGAAAAAAATACA
Found at i:16524163 original size:182 final size:183
Alignment explanation
Indices: 16523850--16524221 Score: 728
Period size: 182 Copynumber: 2.0 Consensus size: 183
16523840 TTTCTCTTTA
*
16523850 AATTATTTTGTTACATGTTTCTAATATGTTTACATTTTTCCTGCATTCTAATTAGTTTTTTTTCA
1 AATTTTTTTGTTACATGTTTCTAATATGTTTACATTTTTCCTGCATTCTAATTAGTTTTTTTTCA
16523915 ATATTATAAGAAATCATGGATTAAGAAAAATGTTTTTATGAAAAACTACCAAATCTAATGAAAAG
66 ATATTATAAGAAATCATGGATTAAGAAAAATGTTTTTATGAAAAACTACCAAATCTAATGAAAAG
16523980 CAACATATTACAAACTCAATAAAAAAAAGAGTAAAACAACAAAAATTAATGTT
131 CAACATATTACAAACTCAATAAAAAAAAGAGTAAAACAACAAAAATTAATGTT
16524033 AATTTTTTTGTTACA-GTTTCTAATATGTTTACATTTTTCCTGCATTCTAATTAGTTTTTTTTCA
1 AATTTTTTTGTTACATGTTTCTAATATGTTTACATTTTTCCTGCATTCTAATTAGTTTTTTTTCA
16524097 ATATTATAAGAAATCATGGATTAAGAAAAATGTTTTTATGAAAAACTACCAAATCTAATGAAAAG
66 ATATTATAAGAAATCATGGATTAAGAAAAATGTTTTTATGAAAAACTACCAAATCTAATGAAAAG
16524162 CAACATATTACAAACTCAATAAAAAAAAGAGTAAAACAACAAAAATTAATGTT
131 CAACATATTACAAACTCAATAAAAAAAAGAGTAAAACAACAAAAATTAATGTT
16524215 AATTTTT
1 AATTTTT
16524222 CTCTTTTGGG
Statistics
Matches: 188, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
182 174 0.93
183 14 0.07
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (183 bp):
AATTTTTTTGTTACATGTTTCTAATATGTTTACATTTTTCCTGCATTCTAATTAGTTTTTTTTCA
ATATTATAAGAAATCATGGATTAAGAAAAATGTTTTTATGAAAAACTACCAAATCTAATGAAAAG
CAACATATTACAAACTCAATAAAAAAAAGAGTAAAACAACAAAAATTAATGTT
Found at i:16529434 original size:71 final size:71
Alignment explanation
Indices: 16529344--16529477 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
16529334 AGCACTTGGT
* * *
16529344 GCAAATCTTCTGTCAGTTTATCTGACTAGTGCTG-GCCACAACTGCCGTCGGTTATCCGACTAGT
1 GCAAATCTTCTATCAGTTTATCTGACTAATGCTGAG-CACAACTACCGTCGGTTATCCGACTAGT
16529408 GCTAAAC
65 GCTAAAC
* * *
16529415 GCAAATCTTCTATTAGTTTATTTGACTAATGCTGAGCACAACTATCGTCGGTTATCCGACTAG
1 GCAAATCTTCTATCAGTTTATCTGACTAATGCTGAGCACAACTACCGTCGGTTATCCGACTAG
16529478 CTGGGCGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 55 0.98
72 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (71 bp):
GCAAATCTTCTATCAGTTTATCTGACTAATGCTGAGCACAACTACCGTCGGTTATCCGACTAGTG
CTAAAC
Found at i:16530621 original size:42 final size:42
Alignment explanation
Indices: 16530575--16530655 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
16530565 GTTCGAAGGT
* * * *
16530575 TACACGGCCTGAGACATGGGCGTGTGCCTCAGTCGTGTGAGG
1 TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTGAGG
16530617 TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTG
1 TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTG
16530656 GGGCACACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.27, G:0.35, T:0.20
Consensus pattern (42 bp):
TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTGAGG
Found at i:16530832 original size:41 final size:42
Alignment explanation
Indices: 16530766--16530844 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
16530756 TTATTATACT
16530766 TACATGTTATTTTTTTTAAAATAAAAAAAT-TGAAAAAATTAG
1 TACATGTTATTTTTTTTAAAAT-AAAAAATGTGAAAAAATTAG
***
16530808 TACAT-TTATTTTTTTTACCTTAAAAAATGTGAAAAAA
1 TACATGTTATTTTTTTTAAAATAAAAAATGTGAAAAAA
16530845 AGAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 7 0.21
41 21 0.64
42 5 0.15
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (42 bp):
TACATGTTATTTTTTTTAAAATAAAAAATGTGAAAAAATTAG
Done.