Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 225 of 322
Found at i:74415803 original size:20 final size:20
Alignment explanation
Indices: 74415778--74415819 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
74415768 AGACTGCCAA
*
74415778 GGGATCGCATATCCTCCTTG
1 GGGATCGCATATCCTCCCTG
74415798 GGGATCGCATATCCTCCCTG
1 GGGATCGCATATCCTCCCTG
74415818 GG
1 GG
74415820 ATTAGCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (20 bp):
GGGATCGCATATCCTCCCTG
Found at i:74419933 original size:17 final size:17
Alignment explanation
Indices: 74419911--74419943 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
74419901 ATATTTAATA
74419911 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
74419928 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
74419944 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:74427980 original size:6 final size:6
Alignment explanation
Indices: 74427969--74427999 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
74427959 AATGATTCTT
74427969 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA A
1 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA A
74428000 GGATGCAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
ATGTGA
Found at i:74430588 original size:36 final size:36
Alignment explanation
Indices: 74430533--74430603 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
74430523 CCCAAGGCTG
74430533 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
1 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
* * *
74430569 AGCACCACCCAGAATTCCTAGAAGAGGAAAAATAT
1 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATAT
74430604 GCAAGGTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.51, C:0.23, G:0.14, T:0.13
Consensus pattern (36 bp):
AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
Found at i:74443340 original size:12 final size:12
Alignment explanation
Indices: 74443311--74443383 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
74443301 TCTTCACTCG
*
74443311 TTTCTTTTGCAA
1 TTTCTTTTTCAA
**
74443323 ACTCTTTTTCAA
1 TTTCTTTTTCAA
*
74443335 TTTCTTTTTCCACTC
1 TTTCTTTTT-CA--A
74443350 TTTCTTTTTC--
1 TTTCTTTTTCAA
*
74443360 -TTCTCTTTCAA
1 TTTCTTTTTCAA
74443371 TTTCTTTTTCAA
1 TTTCTTTTTCAA
74443383 T
1 T
74443384 CCCTTTTTGC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 8 0.17
12 27 0.57
13 2 0.04
14 1 0.02
15 9 0.19
ACGTcount: A:0.14, C:0.23, G:0.01, T:0.62
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:74443448 original size:21 final size:23
Alignment explanation
Indices: 74443424--74443470 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
74443414 TGAAATCTCA
* *
74443424 TTTCCATTTTTTTTTC-AT-TTC
1 TTTCAATTTATTTTTCAATGTTC
74443445 TTTCAATTTATTTTTCAATGTTC
1 TTTCAATTTATTTTTCAATGTTC
74443468 TTT
1 TTT
74443471 TCTCGCTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 2 0.09
23 6 0.27
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTCAATTTATTTTTCAATGTTC
Found at i:74445653 original size:20 final size:20
Alignment explanation
Indices: 74445628--74445672 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
74445618 TAAATTCAAG
74445628 TAATTAAAAC-AAGACAC-AAT
1 TAATT-AAACTAAGAC-CTAAT
74445648 TAATTAAACTAAGACCTAAT
1 TAATTAAACTAAGACCTAAT
74445668 TAATT
1 TAATT
74445673 CGGTTAGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (20 bp):
TAATTAAACTAAGACCTAAT
Found at i:74447657 original size:48 final size:48
Alignment explanation
Indices: 74447602--74447707 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
74447592 TTGTCTTTTC
*
74447602 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
74447650 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
74447698 TTTCTTTTTC
1 TTTCTTTTTC
74447708 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:74447704 original size:18 final size:17
Alignment explanation
Indices: 74447683--74447767 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 17
74447673 TTTTCACATC
74447683 CTTTTTCAATCTCAATTT
1 CTTTTTCAATCTC-ATTT
* *
74447701 CTTTTTCCATGACACTCGTTT
1 CTTTTT-CA--A-TCTCATTT
* *
74447722 CTTTTACACTCTCATTT
1 CTTTTTCAATCTCATTT
*
74447739 CTTTCTTCAATCTCACTCT
1 CTTT-TTCAATCTCA-TTT
74447758 CTTTTTCAAT
1 CTTTTTCAAT
74447768 TTCTTGTTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
17 10 0.19
18 20 0.38
19 8 0.15
20 2 0.04
21 9 0.17
22 3 0.06
ACGTcount: A:0.18, C:0.28, G:0.02, T:0.52
Consensus pattern (17 bp):
CTTTTTCAATCTCATTT
Found at i:74457818 original size:20 final size:21
Alignment explanation
Indices: 74457768--74457819 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
74457758 ATTTTAAAAT
*
74457768 AAATAATATATAAGTCAATTTA
1 AAATGATATATAAG-CAATTTA
74457790 AAATGATATATAA-CAAGTTTA
1 AAATGATATATAAGCAA-TTTA
*
74457811 AGAT-ATATA
1 AAATGATATA
74457820 ATATGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 7 0.26
22 12 0.44
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATGATATATAAGCAATTTA
Found at i:74466267 original size:13 final size:13
Alignment explanation
Indices: 74466249--74466273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74466239 CCTGACACAC
74466249 GCCCATGTCTATG
1 GCCCATGTCTATG
74466262 GCCCATGTCTAT
1 GCCCATGTCTAT
74466274 AAACCTTGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (13 bp):
GCCCATGTCTATG
Found at i:74481161 original size:20 final size:20
Alignment explanation
Indices: 74481138--74481181 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
74481128 GGACACGGGT
74481138 GTGTCCCAATGCACACGAGC
1 GTGTCCCAATGCACACGAGC
*
74481158 GTGTCCCAATGCACACGGGC
1 GTGTCCCAATGCACACGAGC
74481178 GTGT
1 GTGT
74481182 GCATGATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (20 bp):
GTGTCCCAATGCACACGAGC
Found at i:74485417 original size:47 final size:48
Alignment explanation
Indices: 74485343--74485706 Score: 290
Period size: 47 Copynumber: 7.6 Consensus size: 48
74485333 CGTATAATGC
*
74485343 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGT
1 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCATCACATCAAGT
* * * * * * *
74485390 CGATGCCATGTCCCAAATATGACCTTACACTGACT-ATCAAAATCGAGGC
1 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCATC-ACATC-AAGT
* * * *
74485439 CAACGCCATGTCCCAGACATGATCTTACACTAGCTC-TCACAT-ATCCGT
1 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCATCACATCA--AGT
*
74485487 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGT
1 --CGATGCCATGTCCCAGACATGATCTTACACTGGCTCATCACATCAAGT
* ***
74485536 CGATGCCATGTCCCAAACATGATCTTACACTGGCTTACAT-A-ATGTGGT
1 CGATGCCATGTCCCAGACATGATCTTACACTGGC-T-CATCACATCAAGT
* * * *
74485584 CGATG-CATGTCCCAGACATG-TCTTACACTAGCTC-TCGTC-TTAATGC
1 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCATC-ACATCAA-GT
* ***
74485630 CGATGCCATGTCCCAAACATGATCTTACACTGGCTTACAT-A-ATGTGGT
1 CGATGCCATGTCCCAGACATGATCTTACACTGGC-T-CATCACATCAAGT
74485678 CGATG-CATGTCCCAGACATG-TCTTACACT
1 CGATGCCATGTCCCAGACATGATCTTACACT
74485707 AGCACACAAA
Statistics
Matches: 251, Mismatches: 43, Indels: 47
0.74 0.13 0.14
Matches are distributed among these distances:
43 1 0.00
44 1 0.00
45 2 0.01
46 30 0.12
47 104 0.41
48 34 0.14
49 39 0.16
50 36 0.14
51 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGATCTTACACTGGCTCATCACATCAAGT
Found at i:74485640 original size:94 final size:93
Alignment explanation
Indices: 74485443--74485709 Score: 371
Period size: 94 Copynumber: 2.8 Consensus size: 93
74485433 CGAGGCCAAC
* * *
74485443 GCCATGTCCCAGACATGATCTTACACTAGCTCTCACAT-ATCCGT-GCCGATGCCATGTCCCAGA
1 GCCATGTCCCAAACATGATCTTACACTGGCT-T-ACATAAT--GTGGTCGATG-CATGTCCCAGA
* *
74485506 CATGGTCTTACACTGGCTCATCCATCAAGTCGAT
61 CAT-GTCTTACACTAGCTCATCCATCAAGCCGAT
74485540 GCCATGTCCCAAACATGATCTTACACTGGCTTACATAATGTGGTCGATGCATGTCCCAGACATGT
1 GCCATGTCCCAAACATGATCTTACACTGGCTTACATAATGTGGTCGATGCATGTCCCAGACATGT
*
74485605 CTTACACTAGCTC-TCGTC-TTAATGCCGAT
66 CTTACACTAGCTCATC--CATCAA-GCCGAT
74485634 GCCATGTCCCAAACATGATCTTACACTGGCTTACATAATGTGGTCGATGCATGTCCCAGACATGT
1 GCCATGTCCCAAACATGATCTTACACTGGCTTACATAATGTGGTCGATGCATGTCCCAGACATGT
74485699 CTTACACTAGC
66 CTTACACTAGC
74485710 ACACAAATAA
Statistics
Matches: 159, Mismatches: 6, Indels: 13
0.89 0.03 0.07
Matches are distributed among these distances:
92 2 0.01
93 17 0.11
94 98 0.62
95 10 0.06
96 3 0.02
97 29 0.18
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
GCCATGTCCCAAACATGATCTTACACTGGCTTACATAATGTGGTCGATGCATGTCCCAGACATGT
CTTACACTAGCTCATCCATCAAGCCGAT
Found at i:74488864 original size:25 final size:25
Alignment explanation
Indices: 74488830--74488903 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 25
74488820 TCTTATACAT
74488830 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
* * * * *
74488855 GTATGATCACATGACCTATGAAAATGG
1 GTATGCTCACACGAGCTGTG--AATCG
*
74488882 GTTTGCTCACACGAGCTGTGAA
1 GTATGCTCACACGAGCTGTGAA
74488904 AATGAGCCTA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
25 18 0.49
27 19 0.51
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:74492548 original size:19 final size:19
Alignment explanation
Indices: 74492524--74492574 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
74492514 GACAAAGCCC
74492524 AATAAATGATAAT-GCTTGA
1 AATAAATGATAATGGC-TGA
74492543 AATAAATGATAATGGCTGA
1 AATAAATGATAATGGCTGA
* *
74492562 AACAAAGGATAAT
1 AATAAATGATAAT
74492575 ACCCGATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.93
20 2 0.07
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (19 bp):
AATAAATGATAATGGCTGA
Found at i:74505987 original size:28 final size:29
Alignment explanation
Indices: 74505842--74505980 Score: 151
Period size: 29 Copynumber: 4.9 Consensus size: 29
74505832 TACATACACA
*
74505842 CATATGGCCCACTT-GGCCC--ATCTCATT
1 CATATGGCCCA-TTAGGCCCAAATCACATT
*
74505869 CATATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * * *
74505898 CATATGGCCCATCATGCCCAATTCATATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * *
74505927 CATATGGCCTATTTGGCCCAAATCACCTT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
74505956 -ATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCATTAGGCCCAAATCAC
74505981 CTTATATTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 16 0.17
28 22 0.23
29 54 0.57
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:74510549 original size:29 final size:29
Alignment explanation
Indices: 74510449--74510565 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
74510439 TGGCACATCT
* *
74510449 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCTATCAGGCCCAAATCA
* *
74510478 CATTCATATGG-CTCATCATGCCCAATTCA
1 CATTCATATGGCCT-ATCAGGCCCAAATCA
* *
74510507 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCTATCAGGCCCAAATCA
* * * *
74510536 CCTTTATATGGCCTGTTAGGCCCAAATCA
1 CATTCATATGGCCTATCAGGCCCAAATCA
74510565 C
1 C
74510566 CTTATATTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
28 1 0.01
29 73 0.96
30 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCTATCAGGCCCAAATCA
Found at i:74510818 original size:16 final size:16
Alignment explanation
Indices: 74510784--74510826 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
74510774 GTAGCCAAAC
* *
74510784 TTTCAACTTTTCGGTA
1 TTTCAACTTTTAGGCA
*
74510800 TTTCGACTTTTAGGCA
1 TTTCAACTTTTAGGCA
*
74510816 TTTCAGCTTTT
1 TTTCAACTTTT
74510827 CAGCTTTTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAACTTTTAGGCA
Found at i:74512102 original size:16 final size:16
Alignment explanation
Indices: 74512078--74512109 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74512068 AAGTTCTGGA
74512078 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
74512094 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
74512110 GCGTTACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:74512783 original size:20 final size:19
Alignment explanation
Indices: 74512757--74512808 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
74512747 AGCAATGAAT
74512757 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
*
74512777 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
74512794 CTGTTCATCAAGAGA
1 CTGTTCA-CAAGAGA
74512809 CAGAACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:74528156 original size:8 final size:8
Alignment explanation
Indices: 74528139--74528177 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
74528129 ATATATATAC
74528139 TAAT-AAA
1 TAATAAAA
74528146 TAATAAAA
1 TAATAAAA
74528154 TAATAAAA
1 TAATAAAA
*
74528162 TAAT-ATA
1 TAATAAAA
74528169 TAATAAAA
1 TAATAAAA
74528177 T
1 T
74528178 GAAGATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 10 0.36
8 18 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TAATAAAA
Found at i:74528158 original size:3 final size:3
Alignment explanation
Indices: 74528139--74528237 Score: 55
Period size: 3 Copynumber: 31.7 Consensus size: 3
74528129 ATATATATAC
*
74528139 TAA TAAA TAA TAA -AA TAA TAA -AA TAA TATA TAA TAA -AA TGAA -GA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA
* *
74528183 TAA T-A TAGA GAA CAA TATA TAA TAA TATA TAA TATA TAA TAA TATA
1 TAA TAA TA-A TAA TAA TA-A TAA TAA TA-A TAA TA-A TAA TAA TA-A
74528229 TATA TAA TA
1 TA-A TAA TA
74528238 TACAATGAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
2 9 0.12
3 43 0.55
4 26 0.33
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:74528211 original size:10 final size:10
Alignment explanation
Indices: 74528131--74528258 Score: 68
Period size: 10 Copynumber: 12.3 Consensus size: 10
74528121 TTTTAATTAT
*
74528131 ATATATACTA
1 ATATATAATA
*
74528141 ATAAATAATAAA
1 ATATATAAT--A
*
74528153 ATAATAAAATA
1 AT-ATATAATA
74528164 ATATATAATA
1 ATATATAATA
*
74528174 AAATGA-AGATA
1 ATAT-ATA-ATA
* *
74528185 ATATAGAGAACA
1 ATAT--ATAATA
74528197 ATATATAAT-
1 ATATATAATA
74528206 A-ATAT-ATA
1 ATATATAATA
74528214 ATATATAATA
1 ATATATAATA
74528224 ATATATATATA
1 ATATATA-ATA
*
74528235 ATATACAATGA
1 ATATATAAT-A
74528246 A-ATATAAGTA
1 ATATATAA-TA
74528256 ATA
1 ATA
74528259 CGATAAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
7 2 0.02
8 5 0.05
9 5 0.05
10 40 0.43
11 23 0.25
12 11 0.12
13 6 0.07
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (10 bp):
ATATATAATA
Found at i:74528214 original size:7 final size:7
Alignment explanation
Indices: 74528199--74528239 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
74528189 AGAGAACAAT
74528199 ATATAATA
1 ATAT-ATA
74528207 ATATATA
1 ATATATA
74528214 ATATATA
1 ATATATA
74528221 ATA-ATA
1 ATATATA
74528227 TATATATA
1 -ATATATA
74528235 ATATA
1 ATATA
74528240 CAATGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.10
7 21 0.68
8 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATATA
Found at i:74528218 original size:17 final size:17
Alignment explanation
Indices: 74528196--74528234 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
74528186 TATAGAGAAC
74528196 AATATATAATAATATAT
1 AATATATAATAATATAT
74528213 AATATATAATAATATAT
1 AATATATAATAATATAT
74528230 -ATATA
1 AATATA
74528235 ATATACAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATATAATAATATAT
Found at i:74528258 original size:21 final size:21
Alignment explanation
Indices: 74528201--74528251 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
74528191 AGAACAATAT
*
74528201 ATAATA-ATATATAATATATA
1 ATAATATATATATAATATACA
74528221 ATAATATATATATAATATACA
1 ATAATATATATATAATATACA
74528242 ATGAA-ATATA
1 AT-AATATATA
74528252 AGTAATACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.21
21 20 0.71
22 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAATATATATATAATATACA
Found at i:74530422 original size:44 final size:44
Alignment explanation
Indices: 74529874--74530406 Score: 671
Period size: 44 Copynumber: 12.1 Consensus size: 44
74529864 CAGGAATGTT
* * * * *
74529874 AAATCTGTTATCTTCGATCTACTCCCCGTCCAATACAAAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGT-CAATACAGAGACGCC
** * * *
74529919 AAATCTG-TCATCTTTAATCTGATCTCTGTCAACACAGAGATGCC
1 AAATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
*
74529963 AAATCTGCTATCTTCGATCTACTCTCTGTCAATACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * *
74530007 AAATCTACTATCGGT-GATCTGCTCTCTGTCAATACAGAGATGCC
1 AAATCTGCTATC-TTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * *
74530051 AAATCTGCTATCGGT-GATCTGCTCTCTATCAATACAGAGATGCC
1 AAATCTGCTATC-TTCGATCTGCTCTCTGTCAATACAGAGACGCC
* *
74530095 AAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
*
74530139 AAATC-GACTATCTTCGATCTGCTCTCTGTCACTACAGAGACGCC
1 AAATCTG-CTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * ** *
74530183 AGATCT-ATCATCTTCGATCTGCTCTCTGAGAATATAGAGACGCC
1 AAATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * * * * *
74530227 AAATCGGCTCTCTTAGATCTACTCTCTGACAATACAGAGACGTC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* *
74530271 AAATATGCTATCTTCGATCTCCTCTCTGTCAATACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
74530315 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
*
74530359 AAATCTGCTATCTTCGATCTGCTCTCTGTCACTACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
74530403 AAAT
1 AAAT
74530407 TTGTCATCTT
Statistics
Matches: 428, Mismatches: 52, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
43 3 0.01
44 401 0.94
45 24 0.06
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
Found at i:74541012 original size:7 final size:7
Alignment explanation
Indices: 74541000--74541035 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
74540990 ATATATATGC
74541000 TAATAAA
1 TAATAAA
74541007 TAATAAA
1 TAATAAA
74541014 TAATAAAA
1 TAAT-AAA
*
74541022 TAATATA
1 TAATAAA
74541029 TAATAAA
1 TAATAAA
74541036 ATGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:74541078 original size:17 final size:15
Alignment explanation
Indices: 74541000--74541097 Score: 94
Period size: 17 Copynumber: 6.3 Consensus size: 15
74540990 ATATATATGC
*
74541000 TAAT-AAATAATAAA
1 TAATAAAATAATATA
74541014 TAATAAAATAATATA
1 TAATAAAATAATATA
*
74541029 TAATAAAATGAAGATA
1 TAATAAAAT-AATATA
*
74541045 -ATATAGAGAACAATATA
1 TA-ATA-A-AATAATATA
74541062 TAATAATATATAATATA
1 TAATAA-A-ATAATATA
74541079 TAATAAAAT-ATATA
1 TAATAAAATAATATA
74541093 TAATA
1 TAATA
74541098 TACAATGAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
14 14 0.20
15 21 0.30
16 11 0.15
17 22 0.31
18 3 0.04
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (15 bp):
TAATAAAATAATATA
Found at i:74541111 original size:19 final size:20
Alignment explanation
Indices: 74541061--74541103 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
74541051 AGAACAATAT
* *
74541061 ATAATAATATATAATATATA
1 ATAAAAATATATAATATACA
74541081 ATAAAATATATATAATATACA
1 ATAAAA-ATATATAATATACA
74541102 AT
1 AT
74541104 GAAATATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAAATATATAATATACA
Found at i:74541118 original size:21 final size:21
Alignment explanation
Indices: 74541072--74541111 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
74541062 TAATAATATA
*
74541072 TAATATATAATAAAATATATA
1 TAATATACAATAAAATATATA
*
74541093 TAATATACAATGAAATATA
1 TAATATACAATAAAATATA
74541112 AGTAATACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TAATATACAATAAAATATATA
Found at i:74545775 original size:20 final size:21
Alignment explanation
Indices: 74545737--74545786 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
74545727 GTCATCTAAA
*
74545737 AAAATTTA-AAATTAAAATATT
1 AAAATTTATAAA-TAAAATACT
74545758 AAAATTTATAAA-AAAATACT
1 AAAATTTATAAATAAAATACT
74545778 AAAATTTAT
1 AAAATTTAT
74545787 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 16 0.59
21 8 0.30
22 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTTATAAATAAAATACT
Found at i:74545803 original size:9 final size:10
Alignment explanation
Indices: 74545750--74545821 Score: 51
Period size: 10 Copynumber: 7.5 Consensus size: 10
74545740 ATTTAAAATT
74545750 AAAA-TATTA
1 AAAATTATTA
* *
74545759 AAATTTATAA
1 AAAATTATTA
* *
74545769 AAAAATACTA
1 AAAATTATTA
* *
74545779 AAATTTATTT
1 AAAATTATTA
74545789 AAAATT-TTA
1 AAAATTATTA
**
74545798 AAAATTGGT-
1 AAAATTATTA
74545807 AAAATTATTA
1 AAAATTATTA
74545817 AAAAT
1 AAAAT
74545822 GTCTAAATAT
Statistics
Matches: 45, Mismatches: 15, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
9 18 0.40
10 27 0.60
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (10 bp):
AAAATTATTA
Found at i:74547194 original size:24 final size:25
Alignment explanation
Indices: 74547162--74547208 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
74547152 CTAATTAAAT
*
74547162 TTTATAAATAATTAATATTTATAGC
1 TTTATAAATAATTAAAATTTATAGC
*
74547187 TTTA-AAATATTTAAAATTTATA
1 TTTATAAATAATTAAAATTTATA
74547209 TTTCATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTATAAATAATTAAAATTTATAGC
Found at i:74547210 original size:30 final size:30
Alignment explanation
Indices: 74547166--74547232 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
74547156 TTAAATTTTA
74547166 TAAATAATTAATATTT-ATAGCT-TTAAAATAT
1 TAAA-AATTAATATTTCATA--TATTAAAATAT
* *
74547197 TTAAAATTTATATTTCATATATTAAAATAT
1 TAAAAATTAATATTTCATATATTAAAATAT
74547227 TAAAAA
1 TAAAAA
74547233 CAAGTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 1 0.03
30 24 0.77
31 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
TAAAAATTAATATTTCATATATTAAAATAT
Found at i:74547418 original size:13 final size:12
Alignment explanation
Indices: 74547402--74547454 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
74547392 TTTAAACCAA
74547402 ACTTTTCAATAGC
1 ACTTTTCAA-AGC
* *
74547415 ACTTCTCAAAAGT
1 ACTTTTC-AAAGC
74547428 ACTTTTCCAAAGC
1 ACTTTT-CAAAGC
74547441 ACTTTTCCAAAGC
1 ACTTTT-CAAAGC
74547454 A
1 A
74547455 TTTCTGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 31 0.91
14 3 0.09
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTTTTCAAAGC
Found at i:74551915 original size:7 final size:6
Alignment explanation
Indices: 74551894--74551927 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
74551884 ACCAACGGAG
*
74551894 TTTTCT TTTTCT TTTTCTT TTTTCT TCTTCT TTT
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTT
74551928 GCTAATTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:74551917 original size:13 final size:13
Alignment explanation
Indices: 74551894--74551927 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
74551884 ACCAACGGAG
74551894 TTTTC-TTTTTCT
1 TTTTCTTTTTTCT
74551906 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
*
74551919 TCTTCTTTT
1 TTTTCTTTT
74551928 GCTAATTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:74573251 original size:91 final size:90
Alignment explanation
Indices: 74573097--74573306 Score: 246
Period size: 91 Copynumber: 2.3 Consensus size: 90
74573087 GACAGTTTAT
* *
74573097 CTGCAAACACTGGTGGTTTATCCACAAACTTACTGGCCACTTTTATCTACAAACCCATTGTGTAT
1 CTGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACCCATTGTGTAT
*
74573162 TTACAACTATTGACAACGTATTAAC
66 TCACAACTATTGACAACGTATTAAC
* * * **
74573187 CTGCAAGCACTGGT-GTTACATCCACAATCTTCACTGGCAACTTTTATCTGCAAACCTGTTGTGT
1 CTGCAAACACTGGTGGTT-CATCCACAAACTT-ACTGGCAACTTTTATCTACAAACCCATTGTGT
* **
74573251 ATTCACAACTATT-AGTAACACATTAAC
64 ATTCACAACTATTGA-CAACGTATTAAC
* * *
74573278 CTAC-AATACTAGTGGTTCATCCACAAACT
1 CTGCAAACACTGGTGGTTCATCCACAAACT
74573307 GCAGTGTTCG
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
89 3 0.03
90 42 0.42
91 55 0.55
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (90 bp):
CTGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACCCATTGTGTAT
TCACAACTATTGACAACGTATTAAC
Found at i:74574363 original size:17 final size:17
Alignment explanation
Indices: 74574341--74574373 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
74574331 GATATGATAC
74574341 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
74574358 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
74574374 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:74574374 original size:18 final size:17
Alignment explanation
Indices: 74574341--74574374 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
74574331 GATATGATAC
*
74574341 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
74574358 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
74574375 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:74574665 original size:22 final size:21
Alignment explanation
Indices: 74574630--74574724 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
74574620 AAAAGGTATC
* *
74574630 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
74574651 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
74574674 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
74574693 TGC-TATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
74574711 TGCATATCATATCT
1 TACAAATCATATCT
74574725 AAGATTGCAT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
18 18 0.28
19 17 0.26
21 4 0.06
22 15 0.23
23 11 0.17
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:74574673 original size:23 final size:22
Alignment explanation
Indices: 74574630--74574687 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
74574620 AAAAGGTATC
* *
74574630 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
74574651 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
74574674 TACATATCATATCT
1 TACAAATCATATCT
74574688 AAGATTGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:74574690 original size:19 final size:19
Alignment explanation
Indices: 74574666--74574739 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
74574656 AATCATATCT
*
74574666 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
74574685 TCTAAGATTGC-TATCATA
1 TCTAAGATTGCATATCATA
74574703 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
74574722 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
74574740 TGAAGATTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
18 18 0.34
19 35 0.66
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:74574711 original size:37 final size:38
Alignment explanation
Indices: 74574659--74574739 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 38
74574649 ATTACAAAAT
74574659 CATATC-T-TCTAAGATTACATATCATATCTAAGATTG
1 CATATCATATCTAAGATTACATATCATATCTAAGATTG
*
74574695 C-TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTACATATCATATCTAAGATTG
74574732 CATATCAT
1 CATATCAT
74574740 TGAAGATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 4 0.10
36 2 0.05
37 29 0.71
38 6 0.15
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:74574759 original size:37 final size:37
Alignment explanation
Indices: 74574669--74574748 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
74574659 CATATCTTCT
*
74574669 AAGATTACATATCATATCTAAGATTGCTATCATATCT
1 AAGATTACATATCATATCTAAGATTGCTATCATATCG
*
74574706 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCTAAGATTGC-TATCATATCG
74574742 AAGATTA
1 AAGATTA
74574749 TATTTCCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 6 0.15
37 27 0.69
38 6 0.15
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGCTATCATATCG
Found at i:74574895 original size:21 final size:20
Alignment explanation
Indices: 74574858--74574896 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
74574848 TTGGACTTCA
**
74574858 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
74574878 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
74574897 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:74575421 original size:78 final size:78
Alignment explanation
Indices: 74575291--74575505 Score: 349
Period size: 78 Copynumber: 2.8 Consensus size: 78
74575281 GAAAACATCC
* * * * *
74575291 GAAGGTTAGATTTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGTGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
74575356 GATCTGCTTCAAT
66 GATCTGCTTCAAT
*
74575369 GAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
74575434 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * *
74575447 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
74575506 TGTTTCTTTG
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 127 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
GATCTGCTTCAAT
Found at i:74582798 original size:6 final size:6
Alignment explanation
Indices: 74582787--74582816 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
74582777 TACAACGGTC
*
74582787 ATGCAA ATGCAA ATACAA ATGCAA ATGCAA
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA
74582817 TGTATTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (6 bp):
ATGCAA
Found at i:74583206 original size:22 final size:21
Alignment explanation
Indices: 74583171--74583246 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
74583161 AAAAGGTATC
* *
74583171 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
74583192 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
74583215 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
74583234 TGC-AATCATATCT
1 TACAAATCATATCT
74583247 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:74583263 original size:35 final size:37
Alignment explanation
Indices: 74583200--74583297 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
74583190 ATTACAAAAT
74583200 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
74583236 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
74583271 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
74583298 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:74583305 original size:17 final size:19
Alignment explanation
Indices: 74583207--74583297 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
74583197 AATCATATCT
74583207 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
74583226 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
74583244 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
74583261 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
74583280 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
74583298 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:74583447 original size:16 final size:16
Alignment explanation
Indices: 74583406--74583449 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
74583396 TGGACTGAAC
*
74583406 TTGGACTTCTTTTTTT
1 TTGGACTTATTTTTTT
**
74583422 TTGGGTTTATTTTTTT
1 TTGGACTTATTTTTTT
74583438 TTGGACTTATTT
1 TTGGACTTATTT
74583450 CTGGGCCCGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.07, G:0.16, T:0.68
Consensus pattern (16 bp):
TTGGACTTATTTTTTT
Found at i:74584785 original size:15 final size:15
Alignment explanation
Indices: 74584765--74584794 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74584755 GACATATGAC
74584765 AAAAATGATAAAAAT
1 AAAAATGATAAAAAT
*
74584780 AAAAATTATAAAAAT
1 AAAAATGATAAAAAT
74584795 TATTAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAAATGATAAAAAT
Found at i:74584793 original size:10 final size:10
Alignment explanation
Indices: 74584780--74584890 Score: 68
Period size: 10 Copynumber: 11.4 Consensus size: 10
74584770 TGATAAAAAT
74584780 AAAAATTAT-
1 AAAAATTATA
*
74584789 AAAAATTATT
1 AAAAATTATA
**
74584799 AAATTTTAATA
1 AAAAATT-ATA
*
74584810 AAAAA--ATT
1 AAAAATTATA
* *
74584818 AAAATTTATT
1 AAAAATTATA
*
74584828 AAAAATTAGA
1 AAAAATTATA
*
74584838 AAAAATTTTA
1 AAAAATTATA
*
74584848 AAAAATTTTA
1 AAAAATTATA
**
74584858 AAATTTTAT-
1 AAAAATTATA
*
74584867 AAAAATAATA
1 AAAAATTATA
*
74584877 ATAAATTATA
1 AAAAATTATA
74584887 AAAA
1 AAAA
74584891 TATATAGAAC
Statistics
Matches: 76, Mismatches: 21, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
8 6 0.08
9 15 0.20
10 50 0.66
11 5 0.07
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAAATTATA
Found at i:74584820 original size:29 final size:29
Alignment explanation
Indices: 74584788--74584885 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
74584778 ATAAAAATTA
74584788 TAAAAATTATTAAATTTTAATAAAAAAAT
1 TAAAAATTATTAAATTTTAATAAAAAAAT
* ** **
74584817 TAAAATTTATTAAAAATTAGA-AAAAATTT
1 TAAAAATTATTAAATTTTA-ATAAAAAAAT
74584846 TAAAAAATT-TTAAAATTTT-ATAAAAATAA-
1 T-AAAAATTATT-AAATTTTAATAAAAA-AAT
74584875 TAATAAATTAT
1 TAA-AAATTAT
74584886 AAAAATATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
28 3 0.06
29 36 0.69
30 13 0.25
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
TAAAAATTATTAAATTTTAATAAAAAAAT
Found at i:74584871 original size:19 final size:20
Alignment explanation
Indices: 74584785--74584872 Score: 87
Period size: 19 Copynumber: 4.5 Consensus size: 20
74584775 AAAATAAAAA
74584785 TTATAAAAATTATT-AAATT
1 TTATAAAAATTATTAAAATT
*
74584804 TTAATAAAAA-AATTAAAA-T
1 TT-ATAAAAATTATTAAAATT
**
74584823 TTATTAAAAATTAGAAAAAATT
1 TTA-TAAAAATTA-TTAAAATT
74584845 TTA-AAAAATT-TTAAAATT
1 TTATAAAAATTATTAAAATT
74584863 TTATAAAAAT
1 TTATAAAAAT
74584873 AATAATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
18 10 0.18
19 20 0.36
20 18 0.32
21 4 0.07
22 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
TTATAAAAATTATTAAAATT
Found at i:74584953 original size:19 final size:18
Alignment explanation
Indices: 74584931--74584988 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
74584921 TTTATTAAGT
74584931 TGTAAGAAAATTATAAAAA
1 TGTAA-AAAATTATAAAAA
*
74584950 TGTAAAGAAA-TATAAAAT
1 TGTAAA-AAATTATAAAAA
74584968 TCGTACAAAAATTATAAAAA
1 T-GTA-AAAAATTATAAAAA
74584988 T
1 T
74584989 TATCGTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 9 0.27
19 14 0.42
20 10 0.30
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (18 bp):
TGTAAAAAATTATAAAAA
Found at i:74584959 original size:20 final size:21
Alignment explanation
Indices: 74584934--74584988 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
74584924 ATTAAGTTGT
74584934 AAGAAAATTATAAAAAT-GTA
1 AAGAAAATTATAAAAATCGTA
*
74584954 AAG-AAA-TATAAAATTCGTA
1 AAGAAAATTATAAAAATCGTA
*
74584973 CA-AAAATTATAAAAAT
1 AAGAAAATTATAAAAAT
74584989 TATCGTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
20 11 0.38
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (21 bp):
AAGAAAATTATAAAAATCGTA
Found at i:74585203 original size:31 final size:32
Alignment explanation
Indices: 74585145--74585213 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
74585135 CTTTTTTATG
74585145 TTTTTTTTATGATTATTATAAAATTTTACA-A
1 TTTTTTTTATGATTATTATAAAATTTTACATA
* ** *
74585176 TTTTTTTTATGATTTTTATAATTTTTTATATA
1 TTTTTTTTATGATTATTATAAAATTTTACATA
74585208 TTTTTT
1 TTTTTT
74585214 GCCATATGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (32 bp):
TTTTTTTTATGATTATTATAAAATTTTACATA
Found at i:74585213 original size:21 final size:21
Alignment explanation
Indices: 74585168--74585212 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
74585158 TATTATAAAA
*
74585168 TTTTACAATTTTTTTTATGAT
1 TTTTACAATTTTTTATATGAT
*
74585189 TTTTATAATTTTTTATAT-AT
1 TTTTACAATTTTTTATATGAT
74585209 TTTT
1 TTTT
74585213 TGCCATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTACAATTTTTTATATGAT
Found at i:74586214 original size:41 final size:41
Alignment explanation
Indices: 74586120--74586201 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
74586110 GGTGAAAGAA
*
74586120 AAAAAATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
1 AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
74586161 AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
1 AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
74586202 TTAGTGTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (41 bp):
AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
Found at i:74591868 original size:46 final size:46
Alignment explanation
Indices: 74591808--74591923 Score: 196
Period size: 46 Copynumber: 2.5 Consensus size: 46
74591798 ATGGGGGTGT
* *
74591808 TAGGATATTATTATTAGATATTATTTTTTAGTAATTTGATTTCTAA
1 TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
*
74591854 TAGGATATTTTTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
1 TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
*
74591900 TAGGATAGTATTATTAGATATTAT
1 TAGGATATTATTATTAGATATTAT
74591924 AAATTCAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.52
Consensus pattern (46 bp):
TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
Found at i:74596244 original size:133 final size:134
Alignment explanation
Indices: 74595976--74596245 Score: 282
Period size: 133 Copynumber: 2.0 Consensus size: 134
74595966 ACGACATGAT
* * * * *
74595976 AATTTTGTGGGGATTTTCTTGCATTGTAGGTTTAGTTCTTGAAGACCCTTGTATGTTTTTGACTC
1 AATTTTCTGGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTGTATGTTTTCGACTC
** * * * * *
74596041 TCTGTTTGCATGTATATGGTGCATCTTGGGAACAATTTGTATCAAGACATGCCTTTGATTATTTA
66 TCTGAATGCATGCATATGGTGCATCTTGGAAACAATTTGTATCAAGACATGCATTTGATCAATTA
74596106 TTAA
131 TTAA
74596110 AATTTTCTAGGGG-TTTTCTTGCATTGTAGGTTTAATTCATGAA-AACCTTGCT-TGTTTTCGAC
1 AATTTTCT-GGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTG-TATGTTTTCGAC
* * * * * * *
74596172 -CGTCTGAATGCATGCGTCTGGTGCATTTTGGAAACAATTATTGTGTCCAGACGT-CATTTTATC
64 TC-TCTGAATGCATGCATATGGTGCATCTTGGAAACAA-T-TTGTATCAAGACATGCATTTGATC
74596235 AATTA-TAA
126 AATTATTAA
74596243 AAT
1 AAT
74596246 CCTTGAAAGT
Statistics
Matches: 112, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
132 1 0.01
133 49 0.44
134 47 0.42
135 15 0.13
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (134 bp):
AATTTTCTGGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTGTATGTTTTCGACTC
TCTGAATGCATGCATATGGTGCATCTTGGAAACAATTTGTATCAAGACATGCATTTGATCAATTA
TTAA
Found at i:74603447 original size:18 final size:18
Alignment explanation
Indices: 74603421--74603456 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74603411 CAAGTTGGTT
*
74603421 CTCTCCATCTATTGCCAA
1 CTCTCCATCTACTGCCAA
*
74603439 CTCTGCATCTACTGCCAA
1 CTCTCCATCTACTGCCAA
74603457 TTAGTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.39, G:0.08, T:0.31
Consensus pattern (18 bp):
CTCTCCATCTACTGCCAA
Found at i:74606752 original size:21 final size:21
Alignment explanation
Indices: 74606726--74606766 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
74606716 TCCAGCAACC
*
74606726 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
74606747 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
74606767 CTGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:74611398 original size:21 final size:21
Alignment explanation
Indices: 74611372--74611412 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
74611362 TCCAGCAACC
*
74611372 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
74611393 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
74611413 CTGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:74627052 original size:93 final size:93
Alignment explanation
Indices: 74626945--74627115 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
74626935 GCCCCTAAGT
* *
74626945 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74627010 CGAGTTCGGATGCCTAGTTACATCTCGC
66 CGAGTTCGGATGCCTAGTTACATCTCGC
*
74627038 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74627103 CGAGTTCGGATGC
66 CGAGTTCGGATGC
74627116 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCGC
Found at i:74627112 original size:46 final size:46
Alignment explanation
Indices: 74626940--74627112 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
74626930 AACCCGCCCC
* * *
74626940 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
74626986 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
74627034 T-CGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
74627079 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
74627113 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 62 0.57
47 30 0.28
48 1 0.01
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:74627569 original size:30 final size:30
Alignment explanation
Indices: 74627535--74627594 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
74627525 ATTTAATACG
74627535 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
74627565 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
74627595 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:74630927 original size:48 final size:48
Alignment explanation
Indices: 74630856--74631135 Score: 425
Period size: 48 Copynumber: 5.8 Consensus size: 48
74630846 CATTAGGGTT
* *
74630856 ATATGAGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
74630904 ATATGAGATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
74630952 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
74631000 ATATGAGATCCCATGTAAGACCATGTCTGGGACTTGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * *
74631048 ATAAGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* ** * *
74631096 ATATGTGATTTCGTGTAAGACCATGTTTGGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
74631136 CGATATGAGA
Statistics
Matches: 210, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 210 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:74631003 original size:96 final size:96
Alignment explanation
Indices: 74630856--74631229 Score: 409
Period size: 96 Copynumber: 4.0 Consensus size: 96
74630846 CATTAGGGTT
* *
74630856 ATATGAGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATTGATATGAGATCCTATGTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
74630921 AGACCATATCTGGGACATGGCATTGGCATCG
66 AGACCATATCTGGGACATGGCATTGGCATCG
*
74630952 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCCATGTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
* * *
74631017 AGACCATGTCTGGGACTTGACATTGGCATCG
66 AGACCATATCTGGGACATGGCATTGGCATCG
* * * * * * *
74631048 ATAAGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATCGATATGTGAT-TTCGTGT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCT-ATGT
* *
74631112 AAGACCATGTTTGGG--A---CA-TGGCATCG
65 AAGACCATATCTGGGACATGGCATTGGCATCG
* * *
74631138 ATATGAGA-CATCATGTAAGACCATAG-CTGGG-C-T---ATCGGAATCGATATGTGAGATACC-
1 ATATGAGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA--TGAGAT-CCT
* *
74631195 ATGTAAGACCATATATGGGATATGGCATTGGCATC
61 ATGTAAGACCATATCTGGGACATGGCATTGGCATC
74631230 TTACTATGTG
Statistics
Matches: 237, Mismatches: 28, Indels: 29
0.81 0.10 0.10
Matches are distributed among these distances:
85 10 0.04
87 21 0.09
88 1 0.00
89 2 0.01
90 33 0.14
91 2 0.01
92 2 0.01
93 7 0.03
96 159 0.67
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (96 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
AGACCATATCTGGGACATGGCATTGGCATCG
Found at i:74637633 original size:21 final size:21
Alignment explanation
Indices: 74637558--74637633 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
74637548 TGGTCTCGAG
*
74637558 GTGGAGGTGAA-GGACCTTGTT
1 GTGGAGGTAAACGG-CCTTGTT
**
74637579 GTGGAGGTAAACATCCTTGTT
1 GTGGAGGTAAACGGCCTTGTT
*** *
74637600 GTGGTTTTAAACGGGCTTGTT
1 GTGGAGGTAAACGGCCTTGTT
*
74637621 GTGGAGGTGAACG
1 GTGGAGGTAAACG
74637634 TCCTCATTGT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.20, C:0.11, G:0.38, T:0.32
Consensus pattern (21 bp):
GTGGAGGTAAACGGCCTTGTT
Found at i:74638196 original size:12 final size:11
Alignment explanation
Indices: 74638154--74638202 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
74638144 AAATTGATTC
*
74638154 TTTTTTTTTGC
1 TTTTTTTTTGA
*
74638165 TTTTTTTTTGC
1 TTTTTTTTTGA
*
74638176 TTTTTTTTCGA
1 TTTTTTTTTGA
*
74638187 TTTTTTTTTCA
1 TTTTTTTTTGA
74638198 TTTTT
1 TTTTT
74638203 GAACTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.04, C:0.08, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:74638202 original size:11 final size:11
Alignment explanation
Indices: 74638153--74638195 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
74638143 AAAATTGATT
74638153 CTTTTTTTTTG
1 CTTTTTTTTTG
74638164 CTTTTTTTTTG
1 CTTTTTTTTTG
*
74638175 CTTTTTTTTCG
1 CTTTTTTTTTG
*
74638186 ATTTTTTTTT
1 CTTTTTTTTT
74638196 CATTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTG
Found at i:74647518 original size:16 final size:16
Alignment explanation
Indices: 74647499--74647529 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74647489 CTTCTTCACT
74647499 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
74647515 TACTTACTTACTTAA
1 TACTCACTTACTTAA
74647530 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:74647535 original size:20 final size:20
Alignment explanation
Indices: 74647496--74647535 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
74647486 AAACTTCTTC
* *
74647496 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
74647516 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
74647536 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:74647850 original size:53 final size:54
Alignment explanation
Indices: 74647721--74647972 Score: 257
Period size: 55 Copynumber: 4.7 Consensus size: 54
74647711 ACACGGGTAC
* * * * *
74647721 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * *
74647770 TTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * * * * *
74647823 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-GAAA
** *
74647878 CTTTTCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* *
74647931 CCTTACCAATTGCCATGTCTAGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATC
74647973 CTTAAACCCT
Statistics
Matches: 167, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 33 0.20
53 48 0.29
54 13 0.08
55 73 0.44
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
Found at i:74649576 original size:28 final size:29
Alignment explanation
Indices: 74649539--74649612 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 29
74649529 AAGTCTACAT
*
74649539 ACATGCATATGGCCCATTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
74649567 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
74649596 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
74649613 CCGACCCGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 22 0.52
29 20 0.48
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:74652820 original size:16 final size:16
Alignment explanation
Indices: 74652799--74652829 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74652789 ATATATTTTC
*
74652799 ATTTGCATCATATATA
1 ATTTGCATCACATATA
74652815 ATTTGCATCACATAT
1 ATTTGCATCACATAT
74652830 CAAATAGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:74653043 original size:43 final size:43
Alignment explanation
Indices: 74652991--74654070 Score: 819
Period size: 43 Copynumber: 24.8 Consensus size: 43
74652981 CAATGCCAAA
* * * *
74652991 GTCCAAGACATGGTCTTACATGTAATAACATATCGATGCCATT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
74653034 GTCCCAGACACGGTCTTACACG-AATCAAATA-CGATGCCGA-T
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* *
74653075 GTCCCAGACATGGTCTTACACGTAATCACATATCAATTCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
74653118 GTCCCAGACGTGGTCTTACACGTAATCACATATCAATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
74653161 ATCCCAGACAGGGTCTTACACGTAATCACATATCGATTCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * * * * *
74653204 GTCCTAGACGTGGTCTTACATGTAATCACATATCAAATACTTACCTT
1 GTCCCAGACATGGTCTTACACGTAATCACATATC-GATGC-CA-C-T
* *** * * *
74653251 ATTTTA-AAATAGG-CAATT-TA-GCT-ATCACATACCTGAT--CACT
1 GTCCCAGACAT-GGTC--TTACACG-TAATCACATATC-GATGCCACT
* * * * * * *
74653292 -T--TAG-CTTGAT-TACACATTCGATAATAACTTAT-TATTGCC-CGTT
1 GTCCCAGACATGGTCT-TACA--CG-TAATCACATATCGA-TGCCAC--T
* * * ** ** *
74653335 GAACCATTCA-AAATTGAATAGGATACTGGGATAATCACACATATCGTACAATGCCAAT
1 G-TCC---CAGACA-TG-GT--CTTAC-ACG-TAAT--CACATATCG----ATGCCACT
* **
74653393 GTCCAAGATGTGGTCTTACATC-TAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACA-CGTAATCACATATCGATGCCACT
* * *
74653436 GTCCCAGACAGGGTCTTACAC-AAATCAAATA-CGATGCCGA-T
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* * *
74653477 GTCCCAGACATGGTCTTACACGTAATCACAAATTGATTCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
74653520 GTCCCAGACGT-GTCTTACACATAATCACATATCAATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
74653562 GTCCCAGACAAGGTCTTAGACGTAATCACATATCGACGCCAAC-
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
74653605 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * * *
74653648 ATCCCAGACAGGGTCTTACACGTAATCACATATCGACGCCAAT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
74653691 GTCCCAGACGTGGTCTTACACGTATTCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
74653734 GTCCCAGACGTGGTCTTACATGTGATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
74653777 GTCCCAGACAGGGTCTTACACATAATCACATATTGATGCCAAC-
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* * *
74653820 GTCCCAAACGTGGTCTTACAAGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * * *
74653863 GTCCCAGACAGGGTCTTACATGTAATCACATATCGATGACAAT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
** *
74653906 GTCCCAGATGTGGTCTTACATGTAATCACATATCGATGCCAAC-
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* * * **
74653949 GTCCCAGACGTGGTCTTACAAGTAATCACATATCGGTGCCAAA
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
** * *
74653992 GTCCCAGATGTGGTCTTACACGTAATCACGTATCGATGCCGCT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
74654035 GTCCCAGAC-TAGGTCTTACGCATAATCACATATCGA
1 GTCCCAGACAT-GGTCTTACACGTAATCACATATCGA
74654071 AAATCCTATG
Statistics
Matches: 832, Mismatches: 144, Indels: 122
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.00
37 2 0.00
38 3 0.00
39 1 0.00
40 4 0.00
41 65 0.08
42 78 0.09
43 595 0.72
44 8 0.01
45 1 0.00
46 16 0.02
47 17 0.02
48 2 0.00
49 4 0.00
50 1 0.00
51 5 0.01
52 2 0.00
53 7 0.01
54 5 0.01
55 6 0.01
57 2 0.00
58 2 0.00
59 4 0.00
60 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
Found at i:74654709 original size:25 final size:25
Alignment explanation
Indices: 74654675--74654724 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
74654665 AATCCAAAAC
74654675 ATATCTTTCATAATTCATCATCTAA
1 ATATCTTTCATAATTCATCATCTAA
74654700 ATATCTTTCATAATTCATCATCTAA
1 ATATCTTTCATAATTCATCATCTAA
74654725 CATCACAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATCTTTCATAATTCATCATCTAA
Found at i:74657796 original size:20 final size:20
Alignment explanation
Indices: 74657771--74657808 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
74657761 CGTTTTGGCC
74657771 CTAAATCAGGCTGTTACAGT
1 CTAAATCAGGCTGTTACAGT
*
74657791 CTAAATCGGGCTGTTACA
1 CTAAATCAGGCTGTTACA
74657809 CATACTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (20 bp):
CTAAATCAGGCTGTTACAGT
Found at i:74664113 original size:43 final size:43
Alignment explanation
Indices: 74664047--74664133 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
74664037 AAATCATACA
**
74664047 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAGCCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
74664090 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
74664133 A
1 A
74664134 AATCACAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:74676419 original size:23 final size:22
Alignment explanation
Indices: 74676393--74676437 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
74676383 ATTTTTTAGG
*
74676393 TCATTTAGG-TTTTTATAGAAGAT
1 TCATTAAGGATTTTT-T-GAAGAT
74676416 TCATTAAGGATTTTTTGAAGAT
1 TCATTAAGGATTTTTTGAAGAT
74676438 ATCTAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TCATTAAGGATTTTTTGAAGAT
Found at i:74683180 original size:16 final size:14
Alignment explanation
Indices: 74683148--74683174 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
74683138 GTTTTAGATT
74683148 TTTTTGTTGAATGC
1 TTTTTGTTGAATGC
74683162 TTTTTGTTGAATG
1 TTTTTGTTGAATG
74683175 TTCTTTAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.22, T:0.59
Consensus pattern (14 bp):
TTTTTGTTGAATGC
Found at i:74684074 original size:11 final size:11
Alignment explanation
Indices: 74684043--74684077 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
74684033 TGATTACTGT
74684043 CAACAAATGAC
1 CAACAAATGAC
74684054 CATCACAAATGAC
1 CA--ACAAATGAC
74684067 CAACAAATGAC
1 CAACAAATGAC
74684078 ACATGTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.51, C:0.29, G:0.09, T:0.11
Consensus pattern (11 bp):
CAACAAATGAC
Found at i:74685323 original size:26 final size:26
Alignment explanation
Indices: 74685286--74685369 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
74685276 TGATACAAAT
* *
74685286 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
74685312 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
74685338 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
74685364 TGATAA
1 TGATAA
74685370 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:74698628 original size:20 final size:20
Alignment explanation
Indices: 74698600--74698712 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
74698590 ATTCATTTCT
*
74698600 ATTCGTATAAACTGTAGTTC
1 ATTCGTATAAACAGTAGTTC
* *
74698620 ATTCATATAACCAGTAGTTC
1 ATTCGTATAAACAGTAGTTC
*
74698640 ATCCGTATAAACAGTAGTTC
1 ATTCGTATAAACAGTAGTTC
*
74698660 A-TCAGTA-ATAACAGTAATTC
1 ATTC-GTATA-AACAGTAGTTC
* * *
74698680 ATCCGTATGAACAGTAATTC
1 ATTCGTATAAACAGTAGTTC
* *
74698700 ATCCATATAAACA
1 ATTCGTATAAACA
74698713 CGTATCTTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 74 0.96
21 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (20 bp):
ATTCGTATAAACAGTAGTTC
Found at i:74698658 original size:40 final size:39
Alignment explanation
Indices: 74698603--74698709 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
74698593 CATTTCTATT
* *
74698603 CGTATAAACTGTAGTTCATTCATATAACCAGTAGTTCATC
1 CGTATAAACAGTAGTTCATTCATATAA-CAGTAATTCATC
74698643 CGTATAAACAGTAGTTCA-TCAGTAATAACAGTAATTCATC
1 CGTATAAACAGTAGTTCATTCA-T-ATAACAGTAATTCATC
* * *
74698683 CGTATGAACAGTAATTCATCCATATAA
1 CGTATAAACAGTAGTTCATTCATATAA
74698710 ACACGTATCT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
39 7 0.12
40 46 0.78
41 6 0.10
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (39 bp):
CGTATAAACAGTAGTTCATTCATATAACAGTAATTCATC
Found at i:74698961 original size:24 final size:23
Alignment explanation
Indices: 74698857--74698991 Score: 80
Period size: 23 Copynumber: 5.7 Consensus size: 23
74698847 CCATGAACAC
**
74698857 TAAGCTC-TATTGAGCTGAAACGG
1 TAAGCTCATA-TGAGCTGAAATAG
* *
74698880 TAAGCTC-TATCAAGGTG-AATAG
1 TAAGCTCATAT-GAGCTGAAATAG
* **
74698902 TAACCTCATATGAGCTGAAACGG
1 TAAGCTCATATGAGCTGAAATAG
*
74698925 TAAGCTCCA-ATGAGTTGAAAATAG
1 TAAGCT-CATATGAGCTG-AAATAG
* *
74698949 TAAGCTCTTATGAGCTGATATATCGG
1 TAAGCTCATATGAGCTGA-A-AT-AG
*
74698975 TAAGCTCATACGAGCTG
1 TAAGCTCATATGAGCTG
74698992 TGGTAAATAC
Statistics
Matches: 85, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
22 14 0.16
23 33 0.39
24 20 0.24
25 2 0.02
26 16 0.19
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (23 bp):
TAAGCTCATATGAGCTGAAATAG
Found at i:74698966 original size:47 final size:45
Alignment explanation
Indices: 74698857--74698981 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
74698847 CCATGAACAC
*
74698857 TAAGCTCTATTGAGCTGAAACGGTAAGCT-CTATCAAGGTGAATAG
1 TAAGCTCTA-TGAGCTGAAACGGTAAGCTCCAATCAAGGTGAATAG
* * *
74698902 TAACCTCATATGAGCTGAAACGGTAAGCTCCAAT-GAGTTGAAAATAG
1 TAAGCTC-TATGAGCTGAAACGGTAAGCTCCAATCAAGGTG--AATAG
74698949 TAAGCTCTTATGAGCTGATATATCGGTAAGCTC
1 TAAGCTC-TATGAGCTGA-A-A-CGGTAAGCTC
74698982 ATACGAGCTG
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
45 29 0.43
46 5 0.07
47 21 0.31
48 1 0.01
49 1 0.01
50 10 0.15
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (45 bp):
TAAGCTCTATGAGCTGAAACGGTAAGCTCCAATCAAGGTGAATAG
Found at i:74701767 original size:18 final size:18
Alignment explanation
Indices: 74701744--74701989 Score: 106
Period size: 18 Copynumber: 13.3 Consensus size: 18
74701734 GAATAATTAT
74701744 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
74701762 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* *
74701780 TTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAA
*
74701798 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
*
74701824 TTATTCAAT-A-AATCAGA
1 TTATTCAGTAACAATCA-A
* * *
74701841 -TATTTAGTAACTATTAA
1 TTATTCAGTAACAATCAA
* *
74701858 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAATCAA
* * *
74701876 TTCATTCAGTGACAATTAG
1 TT-ATTCAGTAACAATCAA
**
74701895 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
74701913 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
* *
74701931 TTATTTAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
74701950 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
74701967 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
74701985 TTATT
1 TTATT
74701990 TTATACCTTT
Statistics
Matches: 164, Mismatches: 47, Indels: 34
0.67 0.19 0.14
Matches are distributed among these distances:
16 10 0.06
17 8 0.05
18 115 0.70
19 15 0.09
20 1 0.01
24 1 0.01
25 2 0.01
26 12 0.07
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:74702234 original size:45 final size:45
Alignment explanation
Indices: 74702163--74702306 Score: 207
Period size: 45 Copynumber: 3.2 Consensus size: 45
74702153 AATAGCAACA
* * * *
74702163 GTAACAGTAACAGTATTCAACTCACACAGTGCCGAATCGATAACG
1 GTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACG
*
74702208 GTAACAGTAACAATATTCGACACACACAGTGTCGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACG
* * *
74702253 GTAACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACA
1 GTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACG
*
74702298 GTAGCAGTA
1 GTAACAGTA
74702307 GCGTTAACAG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 89 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACG
Found at i:74702731 original size:5 final size:5
Alignment explanation
Indices: 74702720--74702761 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
74702710 AATTAATCAT
* *
74702720 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
74702762 CTTTTCCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:74703987 original size:38 final size:38
Alignment explanation
Indices: 74703944--74704022 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
74703934 TCAAAATATC
74703944 AACTTAATTTCATCAAAA-TCTTGTTCCAAAGCTTCTAA
1 AACTTAATTTCATCAAAACT-TTGTTCCAAAGCTTCTAA
* * *
74703982 AACTTAATTTCATCAAAACTTTTTTCTAAAGCTTTTAA
1 AACTTAATTTCATCAAAACTTTGTTCCAAAGCTTCTAA
74704020 AAC
1 AAC
74704023 ATCAAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (38 bp):
AACTTAATTTCATCAAAACTTTGTTCCAAAGCTTCTAA
Found at i:74704112 original size:4 final size:4
Alignment explanation
Indices: 74704103--74704133 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
74704093 CCTTTTCTCC
74704103 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
74704134 CCCTTGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:74704209 original size:13 final size:13
Alignment explanation
Indices: 74704191--74704222 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
74704181 TTTTATTTCA
74704191 TTTATTTCTTTAT
1 TTTATTTCTTTAT
74704204 TTTATTTCTTTAT
1 TTTATTTCTTTAT
74704217 TTTATT
1 TTTATT
74704223 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:74718208 original size:27 final size:29
Alignment explanation
Indices: 74718158--74718213 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
74718148 ATTCAACTTC
* *
74718158 TCTTTGAGCTTTTCTTTTTCAAGATTTTT
1 TCTTTGAGCTTTTCTTTTACAAGAGTTTT
*
74718187 TCTTT-AG-TTTTCTTTTAGAAGAGTTTT
1 TCTTTGAGCTTTTCTTTTACAAGAGTTTT
74718214 AACAATCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 17 0.71
28 2 0.08
29 5 0.21
ACGTcount: A:0.16, C:0.11, G:0.12, T:0.61
Consensus pattern (29 bp):
TCTTTGAGCTTTTCTTTTACAAGAGTTTT
Found at i:74718653 original size:27 final size:28
Alignment explanation
Indices: 74718623--74718675 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
74718613 AAAAATTGTT
*
74718623 AAAACTCTTCTAAAAG-AAAACTCAAGA
1 AAAACTCTTCAAAAAGAAAAACTCAAGA
* *
74718650 AAAATTCTTGAAAAAGAAAAACTCAA
1 AAAACTCTTCAAAAAGAAAAACTCAA
74718676 AGAGAAGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (28 bp):
AAAACTCTTCAAAAAGAAAAACTCAAGA
Found at i:74726644 original size:82 final size:82
Alignment explanation
Indices: 74726548--74726711 Score: 301
Period size: 82 Copynumber: 2.0 Consensus size: 82
74726538 TGTTAACTCC
74726548 TGCAACTGAGCCTTCAATTCTTTTAATTCAGTCGGAGCCATTCTATATGGAGCAATCGAGATCGG
1 TGCAACTGAGCCTTCAATTCTTTTAATTCAGTCGGAGCCATTCTATATGGAGCAATCGAGATCGG
*
74726613 TGCAGTACCCGGCAACA
66 TGCAGTACCCGACAACA
* *
74726630 TGCAACTGAGCCTTCAATTCTTTTAATTCAGTCGGAGCGATTCTATATGGAGCAATCGAGATTGG
1 TGCAACTGAGCCTTCAATTCTTTTAATTCAGTCGGAGCCATTCTATATGGAGCAATCGAGATCGG
74726695 TGCAGTACCCGACAACA
66 TGCAGTACCCGACAACA
74726712 AATCAATGGC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (82 bp):
TGCAACTGAGCCTTCAATTCTTTTAATTCAGTCGGAGCCATTCTATATGGAGCAATCGAGATCGG
TGCAGTACCCGACAACA
Found at i:74734623 original size:12 final size:12
Alignment explanation
Indices: 74734606--74734636 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
74734596 TTTTTTTCCC
74734606 TTCTTCTCCGTT
1 TTCTTCTCCGTT
74734618 TTCTTCTCCGTT
1 TTCTTCTCCGTT
74734630 TTCTTCT
1 TTCTTCT
74734637 TTTTCGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.06, T:0.61
Consensus pattern (12 bp):
TTCTTCTCCGTT
Found at i:74735148 original size:18 final size:18
Alignment explanation
Indices: 74735118--74735163 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
74735108 AAATTTGGGC
74735118 CGTGTGA-CCCACACAGG
1 CGTGTGAGCCCACACAGG
* *
74735135 CGTGTGGGCCCACACGGG
1 CGTGTGAGCCCACACAGG
74735153 CGTGTGAGCCC
1 CGTGTGAGCCC
74735164 TTTTAATCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.15, C:0.35, G:0.37, T:0.13
Consensus pattern (18 bp):
CGTGTGAGCCCACACAGG
Found at i:74738014 original size:17 final size:17
Alignment explanation
Indices: 74737992--74738025 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
74737982 ATAGGAAAAA
74737992 TAATCTTAA-AAGATTTG
1 TAATC-TAATAAGATTTG
74738009 TAATCTAATAAGATTTG
1 TAATCTAATAAGATTTG
74738026 ATTTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
TAATCTAATAAGATTTG
Found at i:74739376 original size:19 final size:19
Alignment explanation
Indices: 74739340--74739375 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
74739330 TAATTTTTAA
*
74739340 TTTATTTATTATCTAAAAG
1 TTTATTTATTACCTAAAAG
74739359 TTTATTTATT-CCTAAAA
1 TTTATTTATTACCTAAAA
74739376 ATTAACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTATTTATTACCTAAAAG
Found at i:74740158 original size:48 final size:48
Alignment explanation
Indices: 74740016--74740150 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
74740006 AAAAGATGCT
* *
74740016 AATATGTTGTGGATGAACCATTGGTTGTGTAGATAAACTGCCGACTAA
1 AATATGTTGTGGATGAACCATTGGTCGTGCAGATAAACTGCCGACTAA
* *
74740064 AATATGTTGTGGATGAACCACTGGTCATGCAGATAAACTGCCGACTAA
1 AATATGTTGTGGATGAACCATTGGTCGTGCAGATAAACTGCCGACTAA
*
74740112 AATATGTTGTGGATGAACCATTAGTCGTGCAGATAAACT
1 AATATGTTGTGGATGAACCATTGGTCGTGCAGATAAACT
74740151 ATCGACTACT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (48 bp):
AATATGTTGTGGATGAACCATTGGTCGTGCAGATAAACTGCCGACTAA
Found at i:74740232 original size:33 final size:34
Alignment explanation
Indices: 74740202--74740311 Score: 123
Period size: 34 Copynumber: 3.3 Consensus size: 34
74740192 TGCAACATAA
74740202 TTATAACAAATCAATACGGTAGCAA-TAACATGC
1 TTATAACAAATCAATACGGTAGCAATTAACATGC
* ** * *
74740235 TTATAACAAGTTGATACTGTAGCAATTATCATGC
1 TTATAACAAATCAATACGGTAGCAATTAACATGC
* * * *
74740269 TTATAATAGATCAATACGGTAGCAGTAAACATGC
1 TTATAACAAATCAATACGGTAGCAATTAACATGC
*
74740303 TTATGACAA
1 TTATAACAA
74740312 GTGTTCAATT
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
33 21 0.36
34 38 0.64
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (34 bp):
TTATAACAAATCAATACGGTAGCAATTAACATGC
Found at i:74742699 original size:54 final size:55
Alignment explanation
Indices: 74742563--74742706 Score: 186
Period size: 54 Copynumber: 2.6 Consensus size: 55
74742553 AATGAAATAA
* ** *
74742563 TAAAATTTAAAATCATAAAAAACTAATTAAC-TTAAAAAAACCTTTTTTATAATATT
1 TAAAATTTAAAATCATAAAAAACTAATTAACTTTAAAAAAA-C-GTTCAAAAATATT
*
74742619 TAAAATTTAAAATCATAAAAATCTAATTAACTTTAAAAAAA-GTTCAAAAAT-TT
1 TAAAATTTAAAATCATAAAAAACTAATTAACTTTAAAAAAACGTTCAAAAATATT
*
74742672 TCAAATTTTAAAATCATAAAAAACTAATTAACTTT
1 T-AAAATTTAAAATCATAAAAAACTAATTAACTTT
74742707 TAATAATTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 37 0.47
56 30 0.38
57 9 0.11
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (55 bp):
TAAAATTTAAAATCATAAAAAACTAATTAACTTTAAAAAAACGTTCAAAAATATT
Found at i:74759278 original size:12 final size:12
Alignment explanation
Indices: 74759261--74759314 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
74759251 ACTATTTTAA
74759261 TAAATTTAATAT
1 TAAATTTAATAT
*
74759273 TAAATTTAATAA
1 TAAATTTAATAT
*
74759285 AATAATTATCAATAT
1 TA-AATT-T-AATAT
74759300 T-AATTTAATAT
1 TAAATTTAATAT
74759311 TAAA
1 TAAA
74759315 GTGATTAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.18
12 15 0.44
13 8 0.24
14 1 0.03
15 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTTAATAT
Found at i:74759290 original size:20 final size:19
Alignment explanation
Indices: 74759243--74759290 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
74759233 AACTATTCCA
*
74759243 AAAATAATACTATTTTAAT
1 AAAATAATACTAATTTAAT
* *
74759262 AAATTTAATATTAAATTTAAT
1 AAA-ATAATACT-AATTTAAT
74759283 AAAATAAT
1 AAAATAAT
74759291 TATCAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 10 0.43
21 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATACTAATTTAAT
Found at i:74761561 original size:25 final size:26
Alignment explanation
Indices: 74761507--74761566 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
74761497 TACCCCTAGC
*
74761507 AAAATTTTGACTATTTTGTCCTTGAT
1 AAAATTTTGACAATTTTGTCCTTGAT
* *
74761533 AAAATTTTGACAATTTT-TTCTTGGT
1 AAAATTTTGACAATTTTGTCCTTGAT
74761558 AAAATTTTG
1 AAAATTTTG
74761567 GGAAAAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (26 bp):
AAAATTTTGACAATTTTGTCCTTGAT
Found at i:74768209 original size:46 final size:46
Alignment explanation
Indices: 74768077--74768294 Score: 144
Period size: 46 Copynumber: 4.7 Consensus size: 46
74768067 ATATCTGTGT
*
74768077 CGATGCCATGCCCCAGACATGGTCTTACACTAGCAC-C-TCTCATTGC
1 CGATG-CATGCCCCAGACAT-GTCTTACACTAGCACTCGTCTCATGGC
* * *
74768123 CGATGCATGTCCCAGACATGTCTTACATTGGCTTA-T-GTCTCGA-GGC
1 CGATGCATGCCCCAGACATGTCTTACACTAGC--ACTCGTCTC-ATGGC
* *
74768169 CGATGCATGCCCCAAACATGTCTTACACTAGCACTCGTCTCAAT-AC
1 CGATGCATGCCCCAGACATGTCTTACACTAGCACTCGTCTC-ATGGC
* * * * * * * *
74768215 TGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGCCCCAGACAT-GTCTTACACTAGCACTCGT-CTCATGGC
* * * *
74768263 TGATTCATGTCCTAGACATGTCTTACACTAGC
1 CGATGCATGCCCCAGACATGTCTTACACTAGC
74768295 TTACAATAAC
Statistics
Matches: 138, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 63 0.46
47 27 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGCCCCAGACATGTCTTACACTAGCACTCGTCTCATGGC
Found at i:74768282 original size:94 final size:90
Alignment explanation
Indices: 74768077--74768294 Score: 233
Period size: 94 Copynumber: 2.4 Consensus size: 90
74768067 ATATCTGTGT
* *
74768077 CGATGCCATGCCCCAGACATGGTCTTACACTAGCACCTCTCATTGCCGATGCATGTCCCAGACAT
1 CGATG-CATGCCCCAGACAT-GTCTTACACTAGCACCTCTCAATACCGATGCATGTCCCAGACAT
* **
74768142 GTCTTACATTGGCTTATGTCTCGAGGC
64 GTCTTACACTGGCTTATGAATCGAGGC
* * *
74768169 CGATGCATGCCCCAAACATGTCTTACACTAGCACTCGTCTCAATACTGATGCCATGTCCTAGACA
1 CGATGCATGCCCCAGACATGTCTTACACTAGCAC-C-TCTCAATACCGATG-CATGTCCCAGACA
*
74768234 TGGTCTTACACTGGCTCTCAT-AAT-GTGGC
63 T-GTCTTACACTGGCT-T-ATGAATCGAGGC
* * * *
74768263 TGATTCATGTCCTAGACATGTCTTACACTAGC
1 CGATGCATGCCCCAGACATGTCTTACACTAGC
74768295 TTACAATAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
90 15 0.14
91 14 0.13
92 16 0.15
93 13 0.12
94 44 0.42
95 2 0.02
96 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (90 bp):
CGATGCATGCCCCAGACATGTCTTACACTAGCACCTCTCAATACCGATGCATGTCCCAGACATGT
CTTACACTGGCTTATGAATCGAGGC
Found at i:74772243 original size:46 final size:44
Alignment explanation
Indices: 74772113--74772273 Score: 119
Period size: 46 Copynumber: 3.5 Consensus size: 44
74772103 TGTGTGAGCT
* * * * *
74772113 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG-AGTAC
1 AGTGTAAGACATGTCTAGGACAT-ACATCGACCTCGAGA-GAAG-AC
* * * *
74772159 TAGTGTAAGACATGTCTGGGACATGCTTCGACCTCGAGATGTAAGCC
1 -AGTGTAAGACATGTCTAGGACATACATCGACCTCGAGA-G-AAGAC
* *
74772206 AGTGTAAGACATGTCTAGGACATACATCG-GCTACGAGAGATGAC
1 AGTGTAAGACATGTCTAGGACATACATCGACCT-CGAGAGAAGAC
* *
74772250 AGGGTAAGACCATGTCTAGCACAT
1 AGTGTAAGA-CATGTCTAGGACAT
74772274 GGCACCGACA
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 11 0.11
45 16 0.17
46 43 0.45
47 24 0.25
48 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATACATCGACCTCGAGAGAAGAC
Found at i:74789335 original size:79 final size:81
Alignment explanation
Indices: 74789226--74789408 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
74789216 TACTCGTTCA
* *
74789226 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
74789289 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
74789306 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
74789369 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
74789385 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
74789409 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:74789408 original size:40 final size:40
Alignment explanation
Indices: 74789205--74789408 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
74789195 CGGAATTTAA
** *
74789205 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
74789245 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
74789285 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
74789324 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
74789364 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
74789404 CCGGA
1 CCGGA
74789409 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:74794101 original size:16 final size:16
Alignment explanation
Indices: 74794080--74794130 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
74794070 CTTTGCCAAA
*
74794080 GATTGAAGATCTATTT
1 GATTGATGATCTATTT
74794096 GATTGATGATCTATTT
1 GATTGATGATCTATTT
74794112 GATTGATGATCTATTT
1 GATTGATGATCTATTT
74794128 GAT
1 GAT
74794131 CAATTCAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.20, T:0.47
Consensus pattern (16 bp):
GATTGATGATCTATTT
Found at i:74801793 original size:90 final size:90
Alignment explanation
Indices: 74801699--74801867 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 90
74801689 GGTAAGTGAT
* * * ** * * *
74801699 TTCATATAAGCCCATGTCTGGGACATGGCATCAATATGAGGTCCCGTATAAGACCATGTCTGGGA
1 TTCATATAAGACCATATCTAGGACATGAAATCAATATGAGATCCCATATAAGACCATGTCTAGGA
74801764 CATGGCATTGGCACTGATTTGAGAC
66 CATGGCATTGGCACTGATTTGAGAC
* * * * * *
74801789 TTCATATAAGACCATATCTAGGATATGAAATCGATGTGTGATCCCATGTAAGACCATGTTTAGGA
1 TTCATATAAGACCATATCTAGGACATGAAATCAATATGAGATCCCATATAAGACCATGTCTAGGA
*
74801854 CATGGCTTTGGCAC
66 CATGGCATTGGCAC
74801868 CCTATTTGGT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (90 bp):
TTCATATAAGACCATATCTAGGACATGAAATCAATATGAGATCCCATATAAGACCATGTCTAGGA
CATGGCATTGGCACTGATTTGAGAC
Found at i:74820565 original size:28 final size:28
Alignment explanation
Indices: 74820533--74820591 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
74820523 GTAATGATAC
74820533 ATATAATTCCAATCAATAATATCTCAAA
1 ATATAATTCCAATCAATAATATCTCAAA
*
74820561 ATATAATTCCTATCAATAATATCTCAAA
1 ATATAATTCCAATCAATAATATCTCAAA
74820589 ATA
1 ATA
74820592 AACCATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (28 bp):
ATATAATTCCAATCAATAATATCTCAAA
Done.