Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 68 of 186
Found at i:21603003 original size:40 final size:40
Alignment explanation
Indices: 21602939--21603122 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
21602929 GCTACTCGTT
**
21602939 CAAATGCCTTCGGGACACAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21602979 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
21603019 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * *
21603058 CAAATGCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
21603099 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
21603123 ACATCATTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 75 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21603050 original size:79 final size:81
Alignment explanation
Indices: 21602941--21603123 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
21602931 TACTCGTTCA
** * *
21602941 AATGCCTTCGGGACACAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGA
* *
21603004 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
21603021 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGAA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
*
21603084 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
21603100 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21603124 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:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
TATAGTAACTTAGCAC
Found at i:21605059 original size:34 final size:34
Alignment explanation
Indices: 21605016--21605085 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
21605006 CTCTTAATAC
21605016 TTGGAGTAATTTCTT-TTTCTCCTTGGGTTGCAAG
1 TTGGAGTAA-TTCTTCTTTCTCCTTGGGTTGCAAG
21605050 TTGGAGTAATTCTTCTTTCTCCTTGGGTTGCAAG
1 TTGGAGTAATTCTTCTTTCTCCTTGGGTTGCAAG
21605084 TT
1 TT
21605086 AGATGCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 5 0.14
34 30 0.86
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (34 bp):
TTGGAGTAATTCTTCTTTCTCCTTGGGTTGCAAG
Found at i:21608423 original size:14 final size:14
Alignment explanation
Indices: 21608404--21608430 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21608394 TATCAAAGCA
21608404 ATAATTAAGAACAC
1 ATAATTAAGAACAC
21608418 ATAATTAAGAACA
1 ATAATTAAGAACA
21608431 AATCAAATAT
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:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:21610855 original size:27 final size:27
Alignment explanation
Indices: 21610824--21611001 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21610814 TAAATTGTAC
21610824 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21610851 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21610877 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21610905 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21610933 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21610960 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21610987 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21611002 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21610938 original size:82 final size:81
Alignment explanation
Indices: 21610825--21610980 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21610815 AAATTGTACA
* *
21610825 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21610889 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21610906 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21610971 TGCGAGTTGA
65 TGCGAATTGA
21610981 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21610992 original size:82 final size:81
Alignment explanation
Indices: 21610821--21611001 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21610811 GATTAAATTG
* *
21610821 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21610886 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21610902 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21610966 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21610984 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21611002 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21623485 original size:56 final size:57
Alignment explanation
Indices: 21623415--21623546 Score: 191
Period size: 56 Copynumber: 2.4 Consensus size: 57
21623405 CCAGTAGGGT
* * *
21623415 CTTACTCGCACACATATTA-CAGAATCACATATCGATGCCAACCTATTAAACGTGGC
1 CTTACTTGCGCACATATTATCAGAATCACATATCGATGCCAACATATTAAACGTGGC
*
21623471 CTTACTTGCGCACATA-TATCAGAATCACATATCGATGCCAACATATTAAACGTGGT
1 CTTACTTGCGCACATATTATCAGAATCACATATCGATGCCAACATATTAAACGTGGC
21623527 CTTAC-T-CGCACATATATATC
1 CTTACTTGCGCACATAT-TATC
21623547 GATGCCATGG
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
54 8 0.12
55 3 0.04
56 58 0.84
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (57 bp):
CTTACTTGCGCACATATTATCAGAATCACATATCGATGCCAACATATTAAACGTGGC
Found at i:21623893 original size:5 final size:5
Alignment explanation
Indices: 21623883--21623907 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21623873 ATCTTAATCA
21623883 AGCTT AGCTT AGCTT AGCTT AGCTT
1 AGCTT AGCTT AGCTT AGCTT AGCTT
21623908 CGGCGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
AGCTT
Found at i:21629744 original size:28 final size:28
Alignment explanation
Indices: 21629712--21629781 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
21629702 ATAGTAAGTC
21629712 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
21629740 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
21629768 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21629782 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:21631436 original size:28 final size:30
Alignment explanation
Indices: 21631385--21631442 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
21631375 TAATGTTTTT
21631385 AAAATATATTTTAATTTATAA-TTTAACATA
1 AAAATATATTTTAA-TTATAATTTTAACATA
21631415 AAAATATATTATTAA-TA-AATTTTAACAT
1 AAAATATATT-TTAATTATAATTTTAACAT
21631443 TTTGTGATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 2 0.08
29 10 0.38
30 10 0.38
31 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
AAAATATATTTTAATTATAATTTTAACATA
Found at i:21631852 original size:31 final size:32
Alignment explanation
Indices: 21631810--21631895 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 32
21631800 TTTGAGTTTA
*
21631810 TTTCTGACTCATGAAGCCAGAATCC-TTTTCC
1 TTTCTGGCTCATGAAGCCAGAATCCTTTTTCC
21631841 TTTCTGGCTCATGAAGCCAGAA-CCTTTTTCC
1 TTTCTGGCTCATGAAGCCAGAATCCTTTTTCC
* *
21631872 TTTCTGGCTCATGAAACCAAAATC
1 TTTCTGGCTCATGAAGCCAGAATC
21631896 TTTGAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 2 0.04
31 47 0.94
32 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (32 bp):
TTTCTGGCTCATGAAGCCAGAATCCTTTTTCC
Found at i:21637360 original size:26 final size:26
Alignment explanation
Indices: 21637331--21637380 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
21637321 TCATATGTGA
*
21637331 TTTTACATATT-TATTATTTAATTATT
1 TTTTAAATATTATATT-TTTAATTATT
21637357 TTTTAAATATTATATTTTTAATTA
1 TTTTAAATATTATATTTTTAATTA
21637381 GAGTAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAAATATTATATTTTTAATTATT
Found at i:21637573 original size:4 final size:4
Alignment explanation
Indices: 21637564--21637607 Score: 79
Period size: 4 Copynumber: 10.8 Consensus size: 4
21637554 TTCAAAATAA
21637564 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT ATAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT -TAAT TAA
21637608 CTTTAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 35 0.90
5 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:21637677 original size:20 final size:20
Alignment explanation
Indices: 21637652--21637692 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21637642 TTTTAATAAC
*
21637652 AAATAGTGTATTACTTAAAA
1 AAATAGTATATTACTTAAAA
21637672 AAATAGTATATTACTTAAAA
1 AAATAGTATATTACTTAAAA
21637692 A
1 A
21637693 GTGTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
AAATAGTATATTACTTAAAA
Found at i:21642589 original size:40 final size:40
Alignment explanation
Indices: 21642545--21642684 Score: 118
Period size: 40 Copynumber: 3.3 Consensus size: 40
21642535 TCTGTTCGAA
21642545 ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
1 ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
* * * * ** * *
21642585 ATAGCTTCGGCTATATATATATAAATAGCACTTAGCGTGCGGTCTGAA
1 ATAGCTTCGGC------TA-A-AAGTGGCACTTGGTGTGCAATTTGAG
* *
21642633 ATAGCTTTGGCTAAAAGTGGCACTTGTTGTGCAATTTGAG
1 ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
21642673 ATAGCTTCGGCT
1 ATAGCTTCGGCT
21642685 GATAGCTTCG
Statistics
Matches: 73, Mismatches: 19, Indels: 16
0.68 0.18 0.15
Matches are distributed among these distances:
40 39 0.53
41 1 0.01
42 2 0.03
46 2 0.03
47 1 0.01
48 28 0.38
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
Found at i:21642690 original size:13 final size:13
Alignment explanation
Indices: 21642672--21642697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21642662 TGCAATTTGA
21642672 GATAGCTTCGGCT
1 GATAGCTTCGGCT
21642685 GATAGCTTCGGCT
1 GATAGCTTCGGCT
21642698 ATATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
GATAGCTTCGGCT
Found at i:21649699 original size:12 final size:13
Alignment explanation
Indices: 21649684--21649712 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21649674 ATAAATATGA
21649684 TTTTATATAATT-
1 TTTTATATAATTG
21649696 TTTTATATAATTG
1 TTTTATATAATTG
21649709 TTTT
1 TTTT
21649713 TTTTGCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTATATAATTG
Found at i:21650070 original size:33 final size:33
Alignment explanation
Indices: 21650027--21650089 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
21650017 TTAAAGATAT
* *
21650027 AATTGTGATATATGTGACTCTCCAAAACAAGAA
1 AATTATGATATATATGACTCTCCAAAACAAGAA
*
21650060 AATTATGATATATATGGCTCTCCAAAACAA
1 AATTATGATATATATGACTCTCCAAAACAA
21650090 TTTCTAAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (33 bp):
AATTATGATATATATGACTCTCCAAAACAAGAA
Found at i:21653367 original size:43 final size:43
Alignment explanation
Indices: 21653337--21653454 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
21653327 AGATACATAT
* *
21653337 CGATGCCACTGTCCCAGACAGGGTCTTACATGAAACCATAATA
1 CGATGCCAATGTCCCAAACAGGGTCTTACATGAAACCATAATA
* * * *
21653380 CGATGCCAATGTCCCAAACATGGTCTTACACGCAATC-TCAATA
1 CGATGCCAATGTCCCAAACAGGGTCTTACATGAAACCAT-AATA
* * * * *
21653423 CAATGTCAATGTCCTAGACATGGTCTTACATG
1 CGATGCCAATGTCCCAAACAGGGTCTTACATG
21653455 TAATCACATC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAAACAGGGTCTTACATGAAACCATAATA
Found at i:21666592 original size:3 final size:3
Alignment explanation
Indices: 21666584--21666608 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21666574 TATTTACTTG
21666584 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
21666609 CTTGTTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:21668841 original size:21 final size:21
Alignment explanation
Indices: 21668804--21668843 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21668794 CTTCAATGTG
*
21668804 TGTCGCGACATTGAACCCCAA
1 TGTCGCGACATCGAACCCCAA
21668825 TGTCGCGACA-CGAAACCCC
1 TGTCGCGACATCG-AACCCC
21668844 TGTTTCGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.28, C:0.38, G:0.20, T:0.15
Consensus pattern (21 bp):
TGTCGCGACATCGAACCCCAA
Found at i:21673437 original size:54 final size:54
Alignment explanation
Indices: 21673355--21673465 Score: 186
Period size: 54 Copynumber: 2.1 Consensus size: 54
21673345 CTTGTCCTCA
21673355 ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
1 ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
* ** *
21673409 ATCAAAATACATATGAATGCATGAATGGATGAATTTCTGCCTTTGCATATAACT
1 ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
21673463 ATC
1 ATC
21673466 TTTTACTGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
Found at i:21676686 original size:27 final size:26
Alignment explanation
Indices: 21676656--21676712 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
21676646 ATTTACTAAA
*
21676656 ATACCCCTAAGTATG-AAAATTACTATT
1 ATACCCCT-AG-ATGCAAAATTACCATT
*
21676683 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
21676709 ATAC
1 ATAC
21676713 ACTTAGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 17 0.63
27 8 0.30
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:21676861 original size:27 final size:27
Alignment explanation
Indices: 21676823--21676916 Score: 161
Period size: 27 Copynumber: 3.4 Consensus size: 27
21676813 GAGGAAACGT
21676823 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
21676850 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
21676877 TCTGGTGGCTCTGCCATAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTG-A
21676905 TCTGGTGGCTCT
1 TCTGGTGGCTCT
21676917 TGTAACACCC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 52 0.81
28 12 0.19
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:21677733 original size:45 final size:44
Alignment explanation
Indices: 21677633--21677759 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 44
21677623 TTTTCTCAAA
* * *
21677633 TCACCGGCATT-TTGCCTGTTAGGCTCG-AGGCCCGATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAATATCAGT
21677675 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAA-AT-AGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAATATCAG--T
** * *
21677719 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-AATA
21677760 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 13 0.18
43 16 0.23
44 8 0.11
45 31 0.44
46 2 0.03
47 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAATATCAGT
Found at i:21677984 original size:43 final size:43
Alignment explanation
Indices: 21677813--21677981 Score: 284
Period size: 43 Copynumber: 3.9 Consensus size: 43
21677803 TACTAACATT
*
21677813 GCCTGCTAGGTACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* ** *
21677856 ACCTGCTAGGCACGAAGGCTTGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
21677899 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
21677942 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAC
21677982 TAANNNNNNN
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:21680905 original size:27 final size:27
Alignment explanation
Indices: 21680875--21680940 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
21680865 AACCACTTTN
*
21680875 ATCTGTTTCTGGCGGCTCTGCCACAAT
1 ATCTGTTTCTGGCGACTCTGCCACAAT
* *
21680902 ATCTGTATT-TGGTGACTCTGTCACAAT
1 ATCTGT-TTCTGGCGACTCTGCCACAAT
*
21680929 ATCT-ATTCTGGC
1 ATCTGTTTCTGGC
21680941 AGGCATGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.06
26 3 0.09
27 25 0.78
28 2 0.06
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (27 bp):
ATCTGTTTCTGGCGACTCTGCCACAAT
Found at i:21684203 original size:14 final size:14
Alignment explanation
Indices: 21684179--21684212 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21684169 TTAGAAATTG
*
21684179 AATATAACTAAGTTA
1 AATA-AACTAAGTAA
21684194 AATAAACTAAGTAA
1 AATAAACTAAGTAA
21684208 AATAA
1 AATAA
21684213 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAAACTAAGTAA
Found at i:21686140 original size:47 final size:47
Alignment explanation
Indices: 21686071--21686332 Score: 271
Period size: 47 Copynumber: 5.6 Consensus size: 47
21686061 GCCCATAAGT
21686071 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * ***
21686118 GAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGTATCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-TACATCTCTC
* * *
21686164 GAACTTGAATTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * * ***
21686211 AAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGTATCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-TACATCTCTC
* * *
21686257 GAACTTGAATTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* *
21686304 AAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
21686333 CGCTTGAATC
Statistics
Matches: 165, Mismatches: 44, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
46 69 0.42
47 96 0.58
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:21686185 original size:46 final size:46
Alignment explanation
Indices: 21686063--21686378 Score: 217
Period size: 47 Copynumber: 6.8 Consensus size: 46
21686053 TGTAACCCGC
* * * *
21686063 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTTGAACTCAACTCAACGAGTTCGGACG-CTAGTAT
* *** * * *
21686109 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
1 CCATAAGT-GAACTTGAACTCAACTCAACGAGTTCGGACGCTAGTAT
* * *
21686156 CCATAAGTGAACTTGAATTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTTGAACTCAACTCAACGAGTTCGGACG-CTAGTAT
* *** * * * *
21686202 ACATCTCTCAAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
1 CCATAAGT-GAACTTGAACTCAACTCAACGAGTTCGGACGCTAGTAT
* * *
21686249 CCATAAGTGAACTTGAATTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTTGAACTCAACTCAACGAGTTCGGACG-CTAGTAT
* *** * * * * *
21686295 ACATCTCTCAAACTCGGACTCAACTCAACGAGTTCGGACGCTTGAAT
1 CCATAAGT-GAACTTGAACTCAACTCAACGAGTTCGGACGCTAGTAT
* *
21686342 CCATAAGTGAAC-TCAGACTCAACTCAACGTGTTCGGA
1 CCATAAGTGAACTTGA-ACTCAACTCAACGAGTTCGGA
21686379 TGCCCAAATA
Statistics
Matches: 201, Mismatches: 60, Indels: 18
0.72 0.22 0.06
Matches are distributed among these distances:
46 99 0.49
47 102 0.51
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTTGAACTCAACTCAACGAGTTCGGACGCTAGTAT
Found at i:21686222 original size:93 final size:93
Alignment explanation
Indices: 21686063--21686382 Score: 534
Period size: 93 Copynumber: 3.4 Consensus size: 93
21686053 TGTAACCCGC
* * *
21686063 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTTGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGGAC
21686128 TCAACTCAACGAGTTCGGACGCTCGTAT
66 TCAACTCAACGAGTTCGGACGCTCGTAT
*
21686156 CCATAAGTGAACTTGAATTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGGAC
1 CCATAAGTGAACTTGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGGAC
21686221 TCAACTCAACGAGTTCGGACGCTCGTAT
66 TCAACTCAACGAGTTCGGACGCTCGTAT
*
21686249 CCATAAGTGAACTTGAATTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGGAC
1 CCATAAGTGAACTTGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGGAC
* *
21686314 TCAACTCAACGAGTTCGGACGCTTGAAT
66 TCAACTCAACGAGTTCGGACGCTCGTAT
* * *
21686342 CCATAAGTGAAC-TCAGACTCAACTCAACGTGTTCGGATGCC
1 CCATAAGTGAACTTGA-ACTCAACTCAACGAGCTCGGATGCC
21686383 CAAATATCCC
Statistics
Matches: 216, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 2 0.01
93 214 0.99
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (93 bp):
CCATAAGTGAACTTGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACTCGGAC
TCAACTCAACGAGTTCGGACGCTCGTAT
Found at i:21688809 original size:30 final size:30
Alignment explanation
Indices: 21688765--21688853 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
21688755 CAAAGATAAC
21688765 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
21688794 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
21688824 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
21688854 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:21688813 original size:15 final size:15
Alignment explanation
Indices: 21688765--21688844 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
21688755 CAAAGATAAC
*
21688765 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
21688779 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
21688794 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
21688809 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
21688824 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
21688839 AAGAAA
1 AAGAAA
21688845 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:21688853 original size:15 final size:15
Alignment explanation
Indices: 21688776--21688853 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
21688766 AGAAAACCGA
21688776 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
21688791 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
21688805 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
21688820 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
21688836 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
21688851 ATA
1 ATA
21688854 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:21691886 original size:93 final size:93
Alignment explanation
Indices: 21691774--21691944 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
21691764 GCCCATAAGT
* *
21691774 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21691839 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
21691867 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
21691932 CGAGTTCGGATGC
66 CGAGCTCGGATGC
21691945 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:21691941 original size:46 final size:46
Alignment explanation
Indices: 21691766--21691941 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
21691756 TGTAACCCGC
* *
21691766 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
21691812 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
21691858 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
21691905 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
21691942 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:21693407 original size:11 final size:11
Alignment explanation
Indices: 21693391--21693420 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
21693381 TCACAACATG
21693391 AATCATTCACA
1 AATCATTCACA
21693402 AATCATTCACA
1 AATCATTCACA
21693413 AATTCATT
1 AA-TCATT
21693421 ATCATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (11 bp):
AATCATTCACA
Found at i:21698592 original size:71 final size:70
Alignment explanation
Indices: 21698454--21698592 Score: 215
Period size: 70 Copynumber: 2.0 Consensus size: 70
21698444 ACATGGGTGT
* **
21698454 TAGATTGTAAAGGCCGCCATGAGTATTCTCAAGGGTTGGTCTGAAATAGGCTGAAATGGGCCGTG
1 TAGACTGTAAAGGCCGCCATGAGTATTCTCAAGGGTTGGTCTGAAATAGGCCAAAATGGGCCGTG
21698519 TGGAG
66 TGGAG
* * *
21698524 TAGACTGTAAAGGCCGTCATGAGTATTCTCATGGGTTTGGTCTGAAATAGGCCAAAATGGGTCGT
1 TAGACTGTAAAGGCCGCCATGAGTATTCTCAAGGG-TTGGTCTGAAATAGGCCAAAATGGGCCGT
21698589 GTGG
65 GTGG
21698593 CCCAATAGGC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 32 0.52
71 30 0.48
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.27
Consensus pattern (70 bp):
TAGACTGTAAAGGCCGCCATGAGTATTCTCAAGGGTTGGTCTGAAATAGGCCAAAATGGGCCGTG
TGGAG
Found at i:21706790 original size:26 final size:26
Alignment explanation
Indices: 21706761--21706841 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
21706751 TTGGCCACAT
*
21706761 ATACTGATACTGGCAGCTTTCCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
21706787 ATACTGCTACTCGCAGCTTTGCTGC-
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
21706812 ATTTCTGATACTGCCAGCTTTGCTGCG
1 A-TACTGATACTGGCAGCTTTGCTGCG
21706839 ATA
1 ATA
21706842 TTGGTGTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.02
26 43 0.96
27 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:21712921 original size:21 final size:22
Alignment explanation
Indices: 21712890--21712930 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
21712880 GGGTAGGAAC
21712890 ATTTTCTGAAAA-TTCTGCATTG
1 ATTTTCTGAAAACTT-TGCATTG
21712912 ATTTT-TGAAAACTTTGCAT
1 ATTTTCTGAAAACTTTGCAT
21712931 ATTGAGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (22 bp):
ATTTTCTGAAAACTTTGCATTG
Found at i:21717123 original size:56 final size:56
Alignment explanation
Indices: 21717037--21717268 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
21717027 ACAAGGGATG
21717037 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
21717093 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
21717149 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
21717205 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
21717261 ATGGGCAA
1 ATGGGCAA
21717269 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:21723282 original size:140 final size:140
Alignment explanation
Indices: 21723030--21723282 Score: 321
Period size: 140 Copynumber: 1.8 Consensus size: 140
21723020 CGATTCCATA
* *
21723030 TCCCAGACATGATCTTACACTAGCTCATATCTCAAGTCAATGCCATGTCCCAGACATGGTCTTAC
1 TCCCAGACATGATCTTACACTAGCACATATCTCAAGCCAATGCCATGTCCCAGACATGGTCTTAC
** * **
21723095 ACTGACTATCATCTTGTAGCCAATGCATGTCCCAGACATGTTTTACACCGGCTTAAGTCTCAAGG
66 ACTGACTATCATAATGTAGCCAATGCATGTACCAGACATGGCTTACACCGGCTTAAGTCTCAAGG
21723160 CCGATGTATG
131 CCGATGTATG
* * * * *
21723170 TCCCAGACATG-TCTTACACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCTAGACGTGGTCTT
1 TCCCAGACATGATCTTACACTAGCACAT-ATCTC-AAGCCAATGCCATGTCCCAGACATGGTCTT
* * * * *
21723233 ACACTGGCTCTCATAATGTGGCCGATGCATGTACCATACATGGCTTACAC
64 ACACTGACTATCATAATGTAGCCAATGCATGTACCAGACATGGCTTACAC
21723283 TAGCTCACAT
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
138 1 0.01
139 17 0.18
140 76 0.81
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (140 bp):
TCCCAGACATGATCTTACACTAGCACATATCTCAAGCCAATGCCATGTCCCAGACATGGTCTTAC
ACTGACTATCATAATGTAGCCAATGCATGTACCAGACATGGCTTACACCGGCTTAAGTCTCAAGG
CCGATGTATG
Found at i:21730966 original size:8 final size:8
Alignment explanation
Indices: 21730950--21730981 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
21730940 CAAGGATTGT
*
21730950 TTTGAAAA
1 TTTGTAAA
21730958 TTTGTAAA
1 TTTGTAAA
21730966 TTTGTAAA
1 TTTGTAAA
21730974 TTTGTAAA
1 TTTGTAAA
21730982 ATCTAAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (8 bp):
TTTGTAAA
Found at i:21734688 original size:106 final size:106
Alignment explanation
Indices: 21734500--21734699 Score: 253
Period size: 106 Copynumber: 1.9 Consensus size: 106
21734490 CAATATAAAC
* * * * * *
21734500 TACATGCTTTAACATTTCATGCAACTATAATATAGAAAATGACGAATAACAACATTAATTATATA
1 TACATGCATTAACATTTCATGCAAATATAACATAGAAAATAACGAATAACAACATAAATTACATA
* *
21734565 ATATACATTAACCTTTCATGCAGATATAAATAACATAAATA
66 ATATACATTAACATTTCATGCAAATATAAATAACATAAATA
* *
21734606 TACATGCATTAATATTTCATGCAAAATATAACATAGAAAATAATGAATATAACAACATAAATTAC
1 TACATGCATTAACATTTCATGC-AAATATAACATAGAAAATAACG-A-ATAACAACATAAATTAC
*
21734671 AT-ATATA-A-TAATATTTCATGCAAATATAA
63 ATAATATACATTAACATTTCATGCAAATATAA
21734700 CTTAAATCAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
106 38 0.47
107 19 0.24
108 6 0.08
109 17 0.21
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.32
Consensus pattern (106 bp):
TACATGCATTAACATTTCATGCAAATATAACATAGAAAATAACGAATAACAACATAAATTACATA
ATATACATTAACATTTCATGCAAATATAAATAACATAAATA
Found at i:21734761 original size:18 final size:18
Alignment explanation
Indices: 21734738--21734772 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21734728 ATGCGAATAT
*
21734738 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
21734756 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
21734773 TATATGAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:21735187 original size:11 final size:12
Alignment explanation
Indices: 21735105--21735180 Score: 75
Period size: 12 Copynumber: 6.3 Consensus size: 12
21735095 ATAATAGAAT
21735105 AATATATAATAA
1 AATATATAATAA
21735117 AATA-A-AGATAA
1 AATATATA-ATAA
* ***
21735128 TATAGGGAATAA
1 AATATATAATAA
*
21735140 TATATATAATAA
1 AATATATAATAA
21735152 AATATATATATAA
1 AATATATA-ATAA
21735165 AATATATAATAA
1 AATATATAATAA
21735177 AATA
1 AATA
21735181 CAAATAACCT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 8 0.15
12 32 0.59
13 13 0.24
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
AATATATAATAA
Found at i:21735269 original size:18 final size:18
Alignment explanation
Indices: 21735246--21735284 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21735236 AATGTTTGTA
* *
21735246 AAAATAATTAATATATAT
1 AAAATAATTAAAATAAAT
*
21735264 AAAATATTTAAAATAAAT
1 AAAATAATTAAAATAAAT
21735282 AAA
1 AAA
21735285 TTGTTTGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAATTAAAATAAAT
Found at i:21750984 original size:14 final size:14
Alignment explanation
Indices: 21750965--21750993 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21750955 TACAATATAT
21750965 ATAAGAATTATACG
1 ATAAGAATTATACG
21750979 ATAAGAATTATACG
1 ATAAGAATTATACG
21750993 A
1 A
21750994 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:21755950 original size:46 final size:44
Alignment explanation
Indices: 21755850--21755964 Score: 137
Period size: 46 Copynumber: 2.6 Consensus size: 44
21755840 CCGGCATTTC
* * *
21755850 GCCTGCTAGGCTCG--AGGCCCGATATCATTTTACCAGCATTATA
1 GCCTGCTAGGCTCGAAAGGCCCGA-ATAATTTCACCAGCATAATA
*
21755893 GCCTGCTAGGCTCGAAAGGCCCGAATAATGTCTCACCGGCATAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATAAT-T-TCACCAGCATAATA
*
21755939 GCTTGCTAGGCTC-AAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATA
21755965 TAATACCAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 14 0.22
44 4 0.06
45 22 0.35
46 23 0.37
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAAGGCCCGAATAATTTCACCAGCATAATA
Found at i:21756014 original size:38 final size:38
Alignment explanation
Indices: 21755963--21756106 Score: 198
Period size: 38 Copynumber: 3.8 Consensus size: 38
21755953 AAGGCCCGAA
* *
21755963 TATAATACCAGCACTAGGCCTGCGGGATTTAACCCAGT
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGT
* ** *
21756001 TATAATACCAGCACGAAGCTTGCGGGATTTAACCTGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGT
* * *
21756039 TATATTACCAGCACGAAGTCTGCGGGATTTAACCCCGT
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGT
*
21756077 TATATTACCAGCACGAAGCCTGCGGGATTT
1 TATAATACCAGCACGAAGCCTGCGGGATTT
21756107 TAAGCCCGTA
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 93 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (38 bp):
TATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGT
Found at i:21756052 original size:76 final size:76
Alignment explanation
Indices: 21755962--21756106 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 76
21755952 AAAGGCCCGA
* * *
21755962 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCAGTTATAATACCAGCACGAAGCTTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGTTATAATACCAGCACGAAGCCTGCGGG
21756027 ATTTAACCTGG
66 ATTTAACCTGG
* * * *
21756038 ATATATTACCAGCACGAAGTCTGCGGGATTTAACCCCGTTATATTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGTTATAATACCAGCACGAAGCCTGCGGG
21756103 ATTT
66 ATTT
21756107 TAAGCCCGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGTTATAATACCAGCACGAAGCCTGCGGG
ATTTAACCTGG
Found at i:21760588 original size:39 final size:39
Alignment explanation
Indices: 21760534--21760633 Score: 173
Period size: 39 Copynumber: 2.5 Consensus size: 39
21760524 TAATGGGGAA
*
21760534 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
21760573 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
21760612 TTATATCCAGGCTAAAGTCCCG
1 TTATATCCGGGCT-AAGTCCCG
21760634 TAGCCTTTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 50 0.86
40 8 0.14
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:21760655 original size:39 final size:40
Alignment explanation
Indices: 21760533--21760672 Score: 164
Period size: 39 Copynumber: 3.6 Consensus size: 40
21760523 ATAATGGGGA
*
21760533 ATTATATTCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGT
*
21760572 GTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGT
* * * * *
21760611 GTTATATCCAGGCTAAAGTCCCGTA-GCCTTTGTGCAT-GT
1 ATTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGC-TGGT
21760650 ATTATAT-CGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-TAAAGTCCCG
21760673 CATGCTTTGT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
38 4 0.04
39 76 0.84
40 10 0.11
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (40 bp):
ATTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGT
Found at i:21766237 original size:28 final size:28
Alignment explanation
Indices: 21766155--21766244 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 28
21766145 TGAGCATGAC
21766155 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
21766184 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
21766213 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
21766241 TATA
1 TATA
21766245 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:21769902 original size:16 final size:16
Alignment explanation
Indices: 21769881--21769918 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
21769871 GTAGATCGAC
*
21769881 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATACCA
*
21769897 AAAAGCCGAAATACTA
1 AAAAGCCGAAATACCA
21769913 AAAAGC
1 AAAAGC
21769919 TGAATGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.21, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATACCA
Found at i:21770218 original size:28 final size:28
Alignment explanation
Indices: 21770136--21770225 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
21770126 TGAGCATGAC
*
21770136 TATATATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
21770165 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
21770194 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
21770222 TATA
1 TATA
21770226 CAGGTATGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:21773889 original size:21 final size:21
Alignment explanation
Indices: 21773863--21773904 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21773853 GGGCACATTG
**
21773863 ATCCAAATTCAAGCAGCAACA
1 ATCCAAAGCCAAGCAGCAACA
21773884 ATCCAAAGCCAAGCAGCAACA
1 ATCCAAAGCCAAGCAGCAACA
21773905 TTGAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.31, G:0.12, T:0.10
Consensus pattern (21 bp):
ATCCAAAGCCAAGCAGCAACA
Found at i:21776615 original size:48 final size:48
Alignment explanation
Indices: 21776514--21776917 Score: 375
Period size: 48 Copynumber: 8.4 Consensus size: 48
21776504 ACAACCCAAC
* * * * ** * *
21776514 TATGGTCTTACACGATG-TCTTATAACGGTGTCGATGTTATGTCCTAGA
1 TATGGTCTTACACGA-GATCTCATATCGATGCCGATGCCATATCCCAGA
* * * * *
21776562 CATGGTCTTATACGAGACCTCATATCAATGCCAATGCCATATCCCAGA
1 TATGGTCTTACACGAGATCTCATATCGATGCCGATGCCATATCCCAGA
* * *
21776610 TATGGTCTTACATGAGATCTCATA-CTGATGTCGATGCTATATCCCAGA
1 TATGGTCTTACACGAGATCTCATATC-GATGCCGATGCCATATCCCAGA
* * *
21776658 TATGGTCTTACACGA-AGTCTCATAACGGTGCCGATGCCATGTCCCAGA
1 TATGGTCTTACACGAGA-TCTCATATCGATGCCGATGCCATATCCCAGA
* * * * * * *
21776706 CATTGTCTTATACAAGACCTCATATCGATGCCAATACCATATCCCAGA
1 TATGGTCTTACACGAGATCTCATATCGATGCCGATGCCATATCCCAGA
* * **
21776754 TATGGTCTTACATGGGATCTCATA-CTGATGTTGATGCCATATCCCAGA
1 TATGGTCTTACACGAGATCTCATATC-GATGCCGATGCCATATCCCAGA
* * * *
21776802 TATGGTCTTACACGGGATCTCATTTCGATGCCGATACCATATCCTAGA
1 TATGGTCTTACACGAGATCTCATATCGATGCCGATGCCATATCCCAGA
* * * * *
21776850 TATGGTTTTACATGGGATCTCATTTCAATGCCGATGCCATATCCCAGA
1 TATGGTCTTACACGAGATCTCATATCGATGCCGATGCCATATCCCAGA
* *
21776898 TATGGTCTTATAAGAGATCT
1 TATGGTCTTACACGAGATCT
21776918 TAATACTCAC
Statistics
Matches: 287, Mismatches: 62, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.01
48 280 0.98
49 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (48 bp):
TATGGTCTTACACGAGATCTCATATCGATGCCGATGCCATATCCCAGA
Found at i:21776714 original size:144 final size:144
Alignment explanation
Indices: 21776514--21776917 Score: 531
Period size: 144 Copynumber: 2.8 Consensus size: 144
21776504 ACAACCCAAC
* * * **
21776514 TATGGTCTTACACGATGTCTTATAACGGTGTCGATGTTATGTCCTAGACATGGTCTTATACGAGA
1 TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCTAGACATGGTCTTATACGAGA
21776579 CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGAGATCTCATACTGATGTCGA
66 CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGAGATCTCATACTGATGTCGA
*
21776644 TGCTATATCCCAGA
131 TGCCATATCCCAGA
* * *
21776658 TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGACATTGTCTTATACAAGA
1 TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCTAGACATGGTCTTATACGAGA
* * * *
21776723 CCTCATATCGATGCCAATACCATATCCCAGATATGGTCTTACATGGGATCTCATACTGATGTTGA
66 CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGAGATCTCATACTGATGTCGA
21776788 TGCCATATCCCAGA
131 TGCCATATCCCAGA
* ** * * * * * * * *
21776802 TATGGTCTTACACG-GGATCTCATTTCGATGCCGATACCATATCCTAGATATGGTTTTACATGGG
1 TATGGTCTTACACGAAG-TCTCATAACGGTGCCGATGCCATGTCCTAGACATGGTCTTATACGAG
* * * * *
21776866 ATCTCATTTCAATGCCGATGCCATATCCCAGATATGGTCTTATAAGAGATCT
65 ACCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGAGATCT
21776918 TAATACTCAC
Statistics
Matches: 224, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
143 1 0.00
144 223 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (144 bp):
TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCTAGACATGGTCTTATACGAGA
CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGAGATCTCATACTGATGTCGA
TGCCATATCCCAGA
Found at i:21777048 original size:6 final size:6
Alignment explanation
Indices: 21777039--21777074 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
21777029 ATAAAGACAG
21777039 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
21777075 TTCATGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:21779060 original size:30 final size:26
Alignment explanation
Indices: 21779028--21779079 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
21779018 AAAGGTAAGA
21779028 TTGATTGGCAAAGGAGACTTAACCTC
1 TTGATTGGCAAAGGAGACTTAACCTC
21779054 TTGATTGGCAAAGGAGACTTAACCTC
1 TTGATTGGCAAAGGAGACTTAACCTC
21779080 ATCGTGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (26 bp):
TTGATTGGCAAAGGAGACTTAACCTC
Found at i:21783313 original size:16 final size:17
Alignment explanation
Indices: 21783273--21783313 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
21783263 TGGACATAGC
*
21783273 ATATAATGGTATATGGT
1 ATATAATGGTATAAGGT
21783290 CATATAATGGTATAAGGT
1 -ATATAATGGTATAAGGT
21783308 -TATAAT
1 ATATAAT
21783314 ATGGCCTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
18 16 0.73
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (17 bp):
ATATAATGGTATAAGGT
Found at i:21783317 original size:18 final size:18
Alignment explanation
Indices: 21783272--21783307 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21783262 GTGGACATAG
*
21783272 CATATAATGGTATATGGT
1 CATATAATGGTATAAGGT
21783290 CATATAATGGTATAAGGT
1 CATATAATGGTATAAGGT
21783308 TATAATATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (18 bp):
CATATAATGGTATAAGGT
Found at i:21786831 original size:39 final size:40
Alignment explanation
Indices: 21786767--21786842 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
21786757 ACTATGTTTG
*
21786767 GCACTTAGTGTGCAATTCGAGATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATAAA
*
21786807 GCACTTA-TGTGCGAATTGGA-ATAGCTTCGGCTATAT
1 GCACTTAGTGTGC-AATTCGAGATAGCTTCGGCTATAT
21786843 GTGGCATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 20 0.61
40 13 0.39
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATAAA
Found at i:21788428 original size:41 final size:41
Alignment explanation
Indices: 21788383--21788467 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
21788373 TACATATATG
21788383 TATGTGAATGAGGTGTGTTA-CCTGGTAACGCCTCATAACCC
1 TATGTGAATGAGGTGTGTTATCC-GGTAACGCCTCATAACCC
* * *
21788424 TATGTGAATGAGGTGTGTTATCCGGTAATGCCTCGTAACTC
1 TATGTGAATGAGGTGTGTTATCCGGTAACGCCTCATAACCC
21788465 TAT
1 TAT
21788468 TCCAGCGTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 38 0.95
42 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (41 bp):
TATGTGAATGAGGTGTGTTATCCGGTAACGCCTCATAACCC
Found at i:21795983 original size:15 final size:16
Alignment explanation
Indices: 21795954--21795983 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21795944 CCGAAATGCT
21795954 GAAAAGCTGAAAAGTC
1 GAAAAGCTGAAAAGTC
21795970 GAAAAGCT-AAAAGT
1 GAAAAGCTGAAAAGT
21795984 TTGGTTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.10, G:0.23, T:0.13
Consensus pattern (16 bp):
GAAAAGCTGAAAAGTC
Found at i:21796235 original size:29 final size:29
Alignment explanation
Indices: 21796192--21796340 Score: 255
Period size: 29 Copynumber: 5.2 Consensus size: 29
21796182 GACAGCATGA
* *
21796192 ATATGAATGTGATTTGGGTCTAATGGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
21796221 ATATGAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
21796250 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
21796279 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
21796308 ATATGAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
21796336 ATATG
1 ATATG
21796341 CATGCATGTA
Statistics
Matches: 115, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 21 0.18
29 94 0.82
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:21798562 original size:48 final size:48
Alignment explanation
Indices: 21798437--21798563 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 48
21798427 TTGGGTAAGG
* * * *
21798437 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCTACGTCTCAA
* * *
21798485 GGCCGATG-CATGTCCTAGAA-AT-GTCTTACACTAGCACT-CGTTTCAA
1 TGCCGATGCCATGTCCCA-AACATGGTCTTACACTAGC-CTACGTCTCAA
21798531 TGCCGATGCCATGTCCCAAACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACAC
21798564 AAGCTCACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
46 27 0.42
47 21 0.32
48 17 0.26
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCTACGTCTCAA
Found at i:21802023 original size:40 final size:40
Alignment explanation
Indices: 21801958--21802034 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
21801948 ATTATGTTTG
*
21801958 GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGATTGGAGATAGCTTCGGCTATATAAA
21801998 GCACTTAGTGTGCGAATTGGA-ATAGCTTCGGCTATAT
1 GCACTTAGTGTGCG-ATTGGAGATAGCTTCGGCTATAT
21802035 GTGGCACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 30 0.86
41 5 0.14
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTGGAGATAGCTTCGGCTATATAAA
Found at i:21802042 original size:40 final size:40
Alignment explanation
Indices: 21801956--21802048 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
21801946 CGATTATGTT
*
21801956 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTGGAGATAGCTTCGGCTATATA
** *
21801996 AAGCACTTAGTGTGCGAATTGGA-ATAGCTTCGGCTATATG
1 TGGCACTTAGTGTGCG-ATTGGAGATAGCTTCGGCTATATA
*
21802036 TGGCACTAAGTGT
1 TGGCACTTAGTGT
21802049 ATGATACCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTGGAGATAGCTTCGGCTATATA
Found at i:21803258 original size:30 final size:30
Alignment explanation
Indices: 21803222--21803281 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21803212 GACACAGCCT
* *
21803222 AGACACATGGGCATGTCTACTGGACGTATG
1 AGACACACGGGCATGTCTACCGGACGTATG
* *
21803252 AGACACACGGGCGTGTCTACCGGATGTATG
1 AGACACACGGGCATGTCTACCGGACGTATG
21803282 GTCGGCTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (30 bp):
AGACACACGGGCATGTCTACCGGACGTATG
Found at i:21806450 original size:13 final size:13
Alignment explanation
Indices: 21806432--21806456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21806422 CTTGGAAGTC
21806432 TGTTAGAAATACT
1 TGTTAGAAATACT
21806445 TGTTAGAAATAC
1 TGTTAGAAATAC
21806457 CAGAAAATGG
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTTAGAAATACT
Found at i:21806532 original size:6 final size:5
Alignment explanation
Indices: 21806503--21806600 Score: 78
Period size: 5 Copynumber: 18.8 Consensus size: 5
21806493 TATGTCTTTC
* *
21806503 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAGT CAAAAG AAAACT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAA-T -AAAAT AAAA-T
21806551 AAAAAT AAAAT -AAAT AAAAT AAAAT AAAAT AAAAAT AAGAAT -AAAT
1 -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT
21806597 AAAA
1 AAAA
21806601 AAAGGAGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
3 3 0.04
4 7 0.09
5 41 0.53
6 18 0.23
7 8 0.10
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:21806555 original size:7 final size:6
Alignment explanation
Indices: 21806523--21806595 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
21806513 AATAAAATTG
* * * * * *
21806523 AAATGA AAATAA AAGTCA AAAGAA AACTAA AAAT-A AAATAA ATAAAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATA-A
*
21806572 AAAT-A AAATAA AAATAA GAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
21806596 TAAAAAAAGG
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
5 10 0.20
6 33 0.66
7 5 0.10
8 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:21806567 original size:9 final size:10
Alignment explanation
Indices: 21806503--21806600 Score: 78
Period size: 12 Copynumber: 9.4 Consensus size: 10
21806493 TATGTCTTTC
21806503 AAAATAAAAT
1 AAAATAAAAT
21806513 --AATAAAATT
1 AAAATAAAA-T
*
21806522 GAAATGAAAAT
1 AAAAT-AAAAT
*
21806533 AAAAGTCAAAAG
1 AAAA-T-AAAAT
21806545 AAAACTAAAAAT
1 AAAA-T-AAAAT
21806557 AAAAT-AAAT
1 AAAATAAAAT
21806566 AAAATAAAAT
1 AAAATAAAAT
21806576 AAAATAAAAAT
1 AAAAT-AAAAT
21806587 AAGAAT-AAAT
1 AA-AATAAAAT
21806597 AAAA
1 AAAA
21806601 AAAGGAGGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
8 7 0.09
9 12 0.16
10 15 0.20
11 15 0.20
12 25 0.34
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.18
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:21806597 original size:31 final size:33
Alignment explanation
Indices: 21806529--21806600 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 33
21806519 ATTGAAATGA
21806529 AAATAAAAGTCAAAAGAAAACTAAAAATAAAAT
1 AAATAAAAGTCAAAAGAAAACTAAAAATAAAAT
*
21806562 AAATAAAA-T-AAAATAAAA-TAAAAATAAGAAT
1 AAATAAAAGTCAAAAGAAAACTAAAAATAA-AAT
21806593 AAATAAAA
1 AAATAAAA
21806601 AAAGGAGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
30 9 0.24
31 19 0.51
32 1 0.03
33 8 0.22
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (33 bp):
AAATAAAAGTCAAAAGAAAACTAAAAATAAAAT
Found at i:21827282 original size:17 final size:17
Alignment explanation
Indices: 21827260--21827302 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
21827250 ATGGGAGAAA
*
21827260 TTATTTTTCTTTA-GTTT
1 TTATTTTT-TTTAGGTGT
21827277 TTATTTCTTTTTAGGTGT
1 TTATTT-TTTTTAGGTGT
21827295 TTATTTTT
1 TTATTTTT
21827303 ATTTTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (17 bp):
TTATTTTTTTTAGGTGT
Found at i:21829032 original size:27 final size:27
Alignment explanation
Indices: 21828856--21829028 Score: 208
Period size: 27 Copynumber: 6.4 Consensus size: 27
21828846 NNNNNNNNNC
*
21828856 GTTTTACCCTC-AGTTTACAGAATTACT
1 GTTTTACCCTCGA-TTTATAGAATTACT
21828883 GTTTTACCCTCGATTTATAGAATTACT
1 GTTTTACCCTCGATTTATAGAATTACT
* * * *
21828910 ATTTTACCCTCGATTTGTAAAATTACC
1 GTTTTACCCTCGATTTATAGAATTACT
*
21828937 ATTTTACCCTCGATTTATAGAATTACT
1 GTTTTACCCTCGATTTATAGAATTACT
* * *
21828964 AG-TTTACCCTCGGTTTACAAAATTA-T
1 -GTTTTACCCTCGATTTATAGAATTACT
*
21828990 CGTTTTACCCTCAATTTATAGAATTACT
1 -GTTTTACCCTCGATTTATAGAATTACT
21829018 GTTTTACCCTC
1 GTTTTACCCTC
21829029 AATTGTGAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 121 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
GTTTTACCCTCGATTTATAGAATTACT
Found at i:21829105 original size:54 final size:54
Alignment explanation
Indices: 21829037--21829204 Score: 257
Period size: 54 Copynumber: 3.1 Consensus size: 54
21829027 TCAATTGTGA
* *
21829037 AATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
21829091 AATTACTAAAATACCCTTATAGGGTAGAATTACTGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
21829145 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
21829199 AATTAC
1 AATTAC
21829205 CGAGATACCT
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 102 0.99
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (54 bp):
AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:21829213 original size:54 final size:54
Alignment explanation
Indices: 21829045--21829232 Score: 250
Period size: 54 Copynumber: 3.5 Consensus size: 54
21829035 GAAATTACTA
* * **
21829045 AAATACCCCTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
* * *
21829099 AAATACCCTTATAGGGTAGAATTACTGAAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
* *
21829153 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
* * * * *
21829207 AGATACCTTTTTGGGGTAAAATTACC
1 AAATACCCTTATAGGGTAGAATTACC
21829233 ATTTTACCCC
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
AAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCG
Found at i:21829224 original size:27 final size:27
Alignment explanation
Indices: 21829045--21829213 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
21829035 GAAATTACTA
*
21829045 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
21829072 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
21829099 AAATACCCTTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
21829126 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
21829153 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
21829180 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
21829207 AGATACC
1 AAATACC
21829214 TTTTTGGGGT
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:21829498 original size:27 final size:26
Alignment explanation
Indices: 21829431--21829510 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
21829421 CGGAGGAAGC
* *
21829431 GTTCTGGTGGCTATGCCATAAATATCT
1 GTTCTGGTGGCTCTGCCA-CAATATCT
*
21829458 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
21829484 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
21829511 ATTGACCGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.20
27 37 0.80
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21831507 original size:27 final size:27
Alignment explanation
Indices: 21831463--21832175 Score: 758
Period size: 27 Copynumber: 26.4 Consensus size: 27
21831453 NNNNNNNNNN
21831463 CGTTTTACCCTC-AGTTTACAGAATTAC
1 CGTTTTACCCTCGA-TTTACAGAATTAC
*
21831490 CATTTTACCCTCGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* *
21831517 CATTTTACCCTC-AGTTAACAGAATTAC
1 CGTTTTACCCTCGA-TTTACAGAATTAC
** *
21831544 TATTTTACCCTTGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* ** *
21831571 CGTTTTACCCTCAATTTGTAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21831598 TGTTTTACCCTCGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* ** *
21831625 CGTTTTACCCTCAATTTGTAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21831652 TGTTTTACCCTCGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* ** *
21831679 CGTTTTACCCTCAATTTGTAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21831706 TGTTTTACCCTCGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* ** *
21831733 CGTTTTACCCTCAATTTGTAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* *
21831760 TGTTTTACCCTCGATTAACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21831787 CGTTTTACCCTCGATTTACAGAATTAT
1 CGTTTTACCCTCGATTTACAGAATTAC
** ** *
21831814 CGTTTTACCCTTAATTTTTAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21831841 CGTTTTACCCTCGATTTACAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21831868 CATTTTACCCTC-AGTTTACAGAATTAC
1 CGTTTTACCCTCGA-TTTACAGAATTAC
* * ** *
21831895 CATTTTACCCTCAATTTGTAAAATT-C
1 CGTTTTACCCTCGATTTACAGAATTAC
** * *
21831921 ATATTTTCCCCTCGATTTACAGAATTAT
1 -CGTTTTACCCTCGATTTACAGAATTAC
21831949 CGTTTTACCCTC-AGTTTACAGAATTAC
1 CGTTTTACCCTCGA-TTTACAGAATTAC
* *
21831976 CATTTTACCCTCGATTTACAGAATTAT
1 CGTTTTACCCTCGATTTACAGAATTAC
21832003 CGTTTTACCCTC-AGTTTACAGAATTAC
1 CGTTTTACCCTCGA-TTTACAGAATTAC
** *
21832030 TATTTTACCCTTGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
** ** *
21832057 TATTTTACCCTCGATTTGTAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21832084 CGTTTTA-CCTCGATTTATAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* * * *
21832110 TGGTTTACACTCGATTTAC-GAAATTAT
1 CGTTTTACCCTCGATTTACAG-AATTAC
*
21832137 CATTTTACCCTCGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
21832164 TGTTTTACCCTC
1 CGTTTTACCCTC
21832176 AATTGTGAAA
Statistics
Matches: 568, Mismatches: 104, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
26 28 0.05
27 534 0.94
28 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGTTTTACCCTCGATTTACAGAATTAC
Found at i:21831652 original size:108 final size:108
Alignment explanation
Indices: 21831463--21832191 Score: 858
Period size: 108 Copynumber: 6.8 Consensus size: 108
21831453 NNNNNNNNNN
* * * *
21831463 CGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCT
1 CGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* *** * *
21831528 CAGTTAACAGAATTACTATTTTACCCTTGATTTACAGAATTAC
66 CAATTTGTAAAATTACTATTTTACCCTCGATTTACAGAATTAC
** *
21831571 CGTTTTACCCTCAATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
*
21831636 CAATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAATTAC
66 CAATTTGTAAAATTACTATTTTACCCTCGATTTACAGAATTAC
** *
21831679 CGTTTTACCCTCAATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* *
21831744 CAATTTGTAAAATTACTGTTTTACCCTCGATTAACAGAATTAC
66 CAATTTGTAAAATTACTATTTTACCCTCGATTTACAGAATTAC
* * * ** ** *
21831787 CGTTTTACCCTCGATTTACAGAATTA-TCGTTTTACCCTTAATTTTTAAAATTACCGTTTTACCC
1 CGTTTTACCCTCAATTTACAAAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTTTACCC
* ** *
21831851 TCGATTTACAAAATTACCATTTTACCCTC-AGTTTACAGAATTAC
65 TCAATTTGTAAAATTACTATTTTACCCTCGA-TTTACAGAATTAC
* ** * *
21831895 CATTTTACCCTCAATTTGTAAAATT-CATATTTTCCCCTCGATTTACAGAATTATCGTTTTACCC
1 CGTTTTACCCTCAATTTACAAAATTAC-TATTTTACCCTCGATTTACAGAATTACCGTTTTACCC
* ** * * *
21831959 TCAGTTTACAGAATTACCATTTTACCCTCGATTTACAGAATTAT
65 TCAATTTGTAAAATTACTATTTTACCCTCGATTTACAGAATTAC
* * * **
21832003 CGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCT
1 CGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* ** *
21832068 CGATTTGTAAAATTACCGTTTTA-CCTCGATTTATAGAATTAC
66 CAATTTGTAAAATTACTATTTTACCCTCGATTTACAGAATTAC
* * * * * *
21832110 TGGTTTACACTCGATTTACGAAATTA-TCATTTTACCCTCGATTTACAGAATTACTGTTTTACCC
1 CGTTTTACCCTCAATTTACAAAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTTTACCC
*
21832174 TCAA-TTGTGAAATTACTA
65 TCAATTTGTAAAATTACTA
21832192 AAATACCCCT
Statistics
Matches: 536, Mismatches: 78, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
106 12 0.02
107 75 0.14
108 446 0.83
109 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (108 bp):
CGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
CAATTTGTAAAATTACTATTTTACCCTCGATTTACAGAATTAC
Found at i:21832379 original size:27 final size:27
Alignment explanation
Indices: 21832192--21832379 Score: 241
Period size: 27 Copynumber: 7.0 Consensus size: 27
21832182 GAAATTACTA
21832192 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
21832219 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
21832246 AAATACCCTTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
21832273 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
21832300 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
21832327 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* ** * *
21832354 AGATACCTTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
21832380 ATTTTGCCGC
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:21832616 original size:27 final size:26
Alignment explanation
Indices: 21832578--21832660 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
21832568 TGGAGGAAGC
*
21832578 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
21832605 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
21832631 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
21832658 GTT
1 GTT
21832661 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21832780 original size:22 final size:22
Alignment explanation
Indices: 21832748--21832806 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21832738 CCCGCTATTA
*
21832748 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
21832770 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
21832792 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
21832807 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:21839198 original size:43 final size:41
Alignment explanation
Indices: 21839150--21839267 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 41
21839140 AGCTCGTACA
* * *
21839150 ATGCCAACGTCCCAGATATGGTCTTACATGTAATCAAATATTG
1 ATGCC-ACGTCCCAGACATGGTCTTACACGTAACCAAATA-TG
* * **
21839193 ATGCCACTGCCCCAGACAGGGTCTTACACAAAACCAAATATG
1 ATGCCAC-GTCCCAGACATGGTCTTACACGTAACCAAATATG
* *
21839235 ATGCCGATGTCCCAAACATGGTCTTACACGTAA
1 ATGCC-ACGTCCCAGACATGGTCTTACACGTAA
21839268 ATCTCAAATC
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
ATGCCACGTCCCAGACATGGTCTTACACGTAACCAAATATG
Found at i:21846379 original size:42 final size:43
Alignment explanation
Indices: 21846279--21846384 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
21846269 CAATGTCAAC
* * * *
21846279 GTCCCAGACGTGGTTTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACT
* *
21846322 G-CCCTAAACAGGGTCTTACACGAAATCAAATA-CGATGCCGA-T
1 GTCCC-AGACATGGTCTTACACGAAATCAAATATCGATGCC-ACT
21846364 GTCCCAGACATGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
21846385 ATAAATATCA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACT
Found at i:21850111 original size:37 final size:37
Alignment explanation
Indices: 21850058--21850140 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
21850048 TGTAATATTG
* *
21850058 TGTAAATTTTGGATTTTAGGGACAAAATCGTAAAAAT
1 TGTAAAATTTGAATTTTAGGGACAAAATCGTAAAAAT
* ** *
21850095 TGTAAAATTTGAATTTTAGGGACTATTTTGTAAAAAT
1 TGTAAAATTTGAATTTTAGGGACAAAATCGTAAAAAT
*
21850132 TGAAAAATT
1 TGTAAAATT
21850141 CTGAGGTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.39
Consensus pattern (37 bp):
TGTAAAATTTGAATTTTAGGGACAAAATCGTAAAAAT
Found at i:21850251 original size:15 final size:16
Alignment explanation
Indices: 21850219--21850256 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
21850209 GCTTTTTGTC
21850219 ATTAAATATTTGATAA
1 ATTAAATATTTGATAA
21850235 A-TAAATATTT-ATGAA
1 ATTAAATATTTGAT-AA
21850250 ATTAAAT
1 ATTAAAT
21850257 GATAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTAAATATTTGATAA
Found at i:21854776 original size:24 final size:24
Alignment explanation
Indices: 21854713--21854841 Score: 75
Period size: 24 Copynumber: 5.3 Consensus size: 24
21854703 GGACTCACCA
* * *
21854713 CAGCTCATATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTA-CTAT-TCT
* *
21854739 CAACTCGTAAGAGCTTACTATTCT
1 CAGCTCGTATGAGCTTACTATTCT
*
21854763 CAGCTCGTATGAGCTTACTGTT-T
1 CAGCTCGTATGAGCTTACTATTCT
* * * * *
21854786 TAGATC-AATAGAGCTTACTGTCCT
1 CAGCTCGTAT-GAGCTTACTATTCT
* *
21854810 CAGCTCAGGAGGAGCTTACTATTCAT
1 CAGCTC-GTATGAGCTTACTATTC-T
21854836 -AGCTCG
1 CAGCTCG
21854842 AAAGAGCAGA
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.03
23 16 0.20
24 27 0.34
25 19 0.24
26 16 0.20
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTATTCT
Found at i:21859294 original size:27 final size:27
Alignment explanation
Indices: 21859244--21859333 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
21859234 NNNNNNNNNN
** *
21859244 ACTTAGTGCCGCATGGTCAATTCGCAC
1 ACTTAGTGCAACATAGTCAATTCGCAC
* * *
21859271 ACTTAGTGCATCATATTCATTTCGCAC
1 ACTTAGTGCAACATAGTCAATTCGCAC
*
21859298 ACTTAGTGCAACATAGTCAAATCGCAC
1 ACTTAGTGCAACATAGTCAATTCGCAC
21859325 ACTTAGTGC
1 ACTTAGTGC
21859334 TGTACAATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (27 bp):
ACTTAGTGCAACATAGTCAATTCGCAC
Found at i:21862055 original size:46 final size:46
Alignment explanation
Indices: 21861997--21862172 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
21861987 ACATCTCATA
* *
21861997 GCCGATGTATGTCCCAAACATGTCTTACACTGGCT-TACGTC-TAGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTTA-AG
* *
21862043 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTTAAG
* * ** **
21862089 GCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTTAAG
* * * *
21862137 GTCAATGCATGTCCCAGACATGCCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
21862173 ACAATAACCC
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 56 0.51
47 31 0.28
48 22 0.20
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTTAAG
Found at i:21862116 original size:94 final size:92
Alignment explanation
Indices: 21861997--21862172 Score: 232
Period size: 94 Copynumber: 1.9 Consensus size: 92
21861987 ACATCTCATA
* *
21861997 GCCGATGTATGTCCCAAACATGTCTTACACTGGCTTACGTC-T-A-GAGGCCGATGCATGTCCCA
1 GCCGATGTATGTCCCAAACATGTCTTACACTGAC-T-C-TCATAATGAGGCCAATGCATGTCCCA
*
21862059 GACATGTCTTACACTAGCTCTCGTCTTAAT
63 GACATGCCTTACACTAGCTCTCGTCTTAAT
* * *
21862089 GCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTGGTCAATGCATGTCCCAG
1 GCCGATGT-ATGTCCCAAACAT-GTCTTACACTGACTCTCATAATGAGGCCAATGCATGTCCCAG
21862154 ACATGCCTTACACTAGCTC
64 ACATGCCTTACACTAGCTC
21862173 ACAATAACCC
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
91 2 0.03
92 10 0.14
93 14 0.19
94 47 0.64
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGTATGTCCCAAACATGTCTTACACTGACTCTCATAATGAGGCCAATGCATGTCCCAGAC
ATGCCTTACACTAGCTCTCGTCTTAAT
Found at i:21874574 original size:137 final size:140
Alignment explanation
Indices: 21874324--21874684 Score: 383
Period size: 137 Copynumber: 2.6 Consensus size: 140
21874314 TAAATTACCG
* ** * * * *
21874324 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCTGATGCCATATCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCACAATGCTGATGCCATGTCCCAGACA
* * * *
21874389 TAGTCTTG-CACTAGCGCTCGTCTCAATGCCAATGCTAAGCCCCAGACATGGTCTTATACTGGCT
66 TGGTC-TGACACTAGCGCTCGTCTCAATGCCAATGCCAAGCCCCAGACATGGTCTTACACTGGAT
21874453 CACATGTC-A-
130 CACATGTCGAC
* * **
21874462 A-GGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCACAATGCCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCACAATGCTGATGCCATGTCCCAGACA
* * * * * *
21874526 TGGTCTGACACTAGCTCTCGTCTCAATGTCGATTCCATGTCCCAGACATGGTCTTACACTGGATC
66 TGGTCTGACACTAGCGCTCGTCTCAATGCCAATGCCAAGCCCCAGACATGGTCTTACACTGGATC
*
21874591 AGATGTCGATGCC
131 ACATGTCGA---C
* * *
21874604 GATGCCATGTCCCAGACATGGCCTTACACTAGCTCACG-CA-ATGTGGTTGATGCCATGTCCCAG
1 -ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCACA-AT-GCTGATGCCATGTCCCAG
*
21874667 ACATGGTCTTACACTAGC
63 ACATGGTCTGACACTAGC
21874685 ACACATATCA
Statistics
Matches: 183, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
136 2 0.01
137 110 0.60
138 2 0.01
142 1 0.01
143 4 0.02
144 64 0.35
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (140 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCACAATGCTGATGCCATGTCCCAGACA
TGGTCTGACACTAGCGCTCGTCTCAATGCCAATGCCAAGCCCCAGACATGGTCTTACACTGGATC
ACATGTCGAC
Found at i:21874656 original size:48 final size:47
Alignment explanation
Indices: 21874321--21874684 Score: 273
Period size: 48 Copynumber: 7.7 Consensus size: 47
21874311 GGGTAAATTA
*
21874321 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAG-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAC--GTCAAGTG
* * * * * * *
21874369 CTGATGCCATATCCTAGACATAGTCTTGCACTAGCGCTCGTCTCAA-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACG--TCAAGTG
* * * * * *
21874417 CCAATGCTAAGCCCCAGACATGGTCTTATACTGGCTCA---C-A-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCAAGTG
* * * * *
21874459 TC-AAGGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCACAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCA-AGTG
* * *
21874506 CCAATGCCATGTCCCAGACATGGTCTGACACTAGCTCTCGTCTCAA-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACG--TCAAGTG
* * * * * *
21874554 TCGATTCCATGTCCCAGACATGGTCTTACACTGGATCAGATGTCGA-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC--ACGTCAAGTG
*
21874602 CCGATGCCATGTCCCAGACATGGCCTTACACTAGCTCACG-CAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCAA-GT-G
**
21874650 TTGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
21874685 ACACATATCA
Statistics
Matches: 246, Mismatches: 53, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
41 27 0.11
42 4 0.02
43 1 0.00
44 1 0.00
45 2 0.01
46 4 0.02
47 4 0.02
48 198 0.80
49 1 0.00
50 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTCAAGTG
Found at i:21876835 original size:38 final size:38
Alignment explanation
Indices: 21876781--21876896 Score: 133
Period size: 38 Copynumber: 3.0 Consensus size: 38
21876771 ATGTAGCAGA
*
21876781 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGT
* *
21876819 ATTATATCCGGCTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGT
* ** * * *
21876857 GTTATATCTAAGTTTAAAGTCCCGTAGGCTTCATGCTGGT
1 ATTATATC-CGGCTTAAA-TCCCGCAGGCTTCGTGCTGGT
21876897 GCTATGTTCA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 42 0.65
39 6 0.09
40 17 0.26
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (38 bp):
ATTATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:21882210 original size:37 final size:37
Alignment explanation
Indices: 21882160--21882238 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21882150 TTATTACGAA
* * *
21882160 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21882197 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21882234 GTCTT
1 GTCTT
21882239 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21882433 original size:49 final size:48
Alignment explanation
Indices: 21882356--21882513 Score: 273
Period size: 49 Copynumber: 3.2 Consensus size: 48
21882346 GCCCTTCGGG
21882356 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
21882406 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
*
21882455 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-AC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
21882502 ACTTTCACATTC
1 ACTTTCACATTC
21882514 TCAAAGTAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 14 0.13
49 88 0.83
50 4 0.04
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
Found at i:21882832 original size:24 final size:23
Alignment explanation
Indices: 21882784--21882841 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
21882774 TAATCAAACA
21882784 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
21882808 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
21882832 TTATT-TTATA
1 TTATTATTATA
21882842 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:21891108 original size:43 final size:43
Alignment explanation
Indices: 21891027--21891112 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
21891017 AGATCATACA
** *
21891027 ATGCCAACGTCCCAGACGTGGTCTTACGTGTAGCCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACGTGTAGACACATATCG
*
21891070 ATGCC-ACTGTCCCAGACAAGGTCTTACTTGT-GAACACATATCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACGTGTAG-ACACATATCG
21891113 GAATCAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACGTGTAGACACATATCG
Found at i:21895781 original size:224 final size:224
Alignment explanation
Indices: 21895379--21895820 Score: 706
Period size: 224 Copynumber: 2.0 Consensus size: 224
21895369 GAATGACTTC
*
21895379 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACATCATCATGTAAAGTCA
1 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACATCATCATCTAAAGTCA
* * * *
21895444 GCCCATCCATAGCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTTGGAAAG
66 ACCAATCCATACCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTCGGAAAG
* * * * *
21895509 AACAGATCTCGAACCATTAAAGGACAATTCTTATATACCTTATCAACCATATCACACCAGCCTAA
131 AACAGATCTCAAACCATTAAAGGACAATTCTTACACACCTTATCAACCATAACACACCAGCCCAA
21895574 GGGTTTGACACTCTAATCACAAACTTAGT
196 GGGTTTGACACTCTAATCACAAACTTAGT
*
21895603 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTGCAATTTACAACAGT-ATCATCTAAAGTC
1 ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACA-TCATCATCTAAAGTC
* *
21895667 AACCAATCCATACCCAGAATTAATTTGAACTCAGCAAATGGTAGTAACATCAAATCAGTCGGAAA
65 AACCAATCCATACCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTCGGAAA
* * * * *
21895732 GCACAGATCTCAAACTATTAAAGGACAATTCTTACACACCTTCTCAACCATAACACACCGGCCCC
130 GAACAGATCTCAAACCATTAAAGGACAATTCTTACACACCTTATCAACCATAACACACCAGCCCA
21895797 AGGGTTTGACACTCTAATCACAAA
195 AGGGTTTGACACTCTAATCACAAA
21895821 TTCAGTAGAC
Statistics
Matches: 199, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
224 198 0.99
225 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (224 bp):
ATTATTCTGGTTCCATAGATCAATGGTCTTTCTTTTACAATTTACAACATCATCATCTAAAGTCA
ACCAATCCATACCCAGAATTAAGTTGAACTCAACAAATGGTAGTAACATCAAATCAGTCGGAAAG
AACAGATCTCAAACCATTAAAGGACAATTCTTACACACCTTATCAACCATAACACACCAGCCCAA
GGGTTTGACACTCTAATCACAAACTTAGT
Found at i:21907240 original size:177 final size:173
Alignment explanation
Indices: 21907007--21907596 Score: 627
Period size: 177 Copynumber: 3.3 Consensus size: 173
21906997 ACTGTAACTG
* * * * *
21907007 CAGGGAGATAAGACTTGTGGCTAAAATCTGCTCCCTTACTACCTCGGGAAGATAAGATCTACAAT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGAT-T-C-AT
* * * * * *
21907072 CTTC-AGTCTACTTCCTTGCTACCTCAAAAAGATAAGATAACAATTCTTGA-CCTGCTCCCTTGC
63 CTTCGA-TCTGC-TCCTTGCTACCTCAGAGAGATAAGATTACAA-TCTTCAGTCTGCTCCCTTGC
* * * *
21907135 TACCTCAAGAAGATAAGACTACAAT-TTTCGGCCTACTCCCTTGCTACCT
125 TACCTCAGGAAGATAAGACTACAATCATT-AGCCTGCTCCCTTGCTACCT
* * *
21907184 CAGGAAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGTTACCTTGGGAAGATAAGATTCATCGT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCATC-T
* * * * *
21907249 CTCCGATCTGCTCCACTGCT-GCTCAGGGAGATAAGATTTACCATCTTTAGTCTGCTCCGTCTT-
65 -T-CGATCTGCTCC-TTGCTACCTCAGAGAGATAAGA-TTACAATCTTCAGTCTGCTCC--CTTG
*
21907312 -TACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTCGCTACCT
124 CTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCT
* *
21907361 CGGGAAGATAAGGCTAGTGGCTAAAATCTGCTCTCCTGCTACCTC-GGAAGATAAGATTTTCCAT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGA--TT-CAT
* * * * * * *
21907425 CTTCGATCTGCTCTGTTGCTATCTGAGCGAGATAAAATCTGCAATCTTCAGTCTGCTTCCTTGCT
63 CTTCGATCTGCTC-CTTGCTACCTCAGAGAGATAAGAT-TACAATCTTCAGTCTGCTCCCTTGCT
* *
21907490 ACCTCAGGAAGATAAGACTACAATCATTAGTCTGCTCTCTTGCTACCT
126 ACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCT
* *
21907538 CAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAAGATT
1 CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATT
21907597 TGTCATTTTT
Statistics
Matches: 350, Mismatches: 44, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
174 3 0.01
175 5 0.01
176 50 0.14
177 268 0.77
178 17 0.05
179 7 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (173 bp):
CAGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCATCTT
CGATCTGCTCCTTGCTACCTCAGAGAGATAAGATTACAATCTTCAGTCTGCTCCCTTGCTACCTC
AGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCT
Found at i:21907503 original size:45 final size:45
Alignment explanation
Indices: 21907033--21907549 Score: 239
Period size: 44 Copynumber: 11.7 Consensus size: 45
21907023 GTGGCTAAAA
* * *
21907033 TCTGCTCCCTTACTACCTCGGGAAGATAAGATCTACAATCTTCAG
1 TCTGCTCTCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAG
* ** * *
21907078 TCTACT-TCCTTGCTACCTCAAAAAGATAAGAT-AACAATTCTTGA-
1 TCTGCTCT-CTTGCTACCTCAGGAAGATAAGATCTACAA-TCTTCAG
* * * * *
21907122 CCTGCTCCCTTGCTACCTCAAGAAGATAAGA-CTACAATTTTCGG
1 TCTGCTCTCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAG
* * * * ***** ** *
21907166 CCTACTCCCTTGCTACCTCAGGAAGATAAG-GCTGGTGGCTAAAA
1 TCTGCTCTCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAG
* * * ** *
21907210 TCTGCTCCCCTGTTACCTTGGGAAGATAAGAT-T-C-ATCGTCTCCG
1 TCTGCTCTCTTGCTACCTCAGGAAGATAAGATCTACAATC-T-TCAG
* * * * * *
21907254 ATCTGCTC-CACTGCT-GCTCAGGGAGATAAGATTTACCATCTTTAG
1 -TCTGCTCTC-TTGCTACCTCAGGAAGATAAGATCTACAATCTTCAG
21907299 TCTGCTCCGTCTT--TACCTCAGGAAGATAAGA-CTACAATCATT-AG
1 TCTGCT-C-TCTTGCTACCTCAGGAAGATAAGATCTACAATC-TTCAG
* * * * * **** ** *
21907343 CCTGCTCCCTCGCTACCTCGGGAAGATAAG-GCTAGTGGCTAAAA
1 TCTGCTCTCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAG
* * * *
21907387 TCTGCTCTCCTGCTACCTC-GGAAGATAAGATTTTCCATCTTC-G
1 TCTGCTCTCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAG
* * * * *
21907430 ATCTGCTCTGTTGCTATCTGAGCG-AGATAAAATCTGCAATCTTCAG
1 -TCTGCTCTCTTGCTACCTCAG-GAAGATAAGATCTACAATCTTCAG
21907476 TCTGCT-TCCTTGCTACCTCAGGAAGATAAGA-CTACAATCATT-AG
1 TCTGCTCT-CTTGCTACCTCAGGAAGATAAGATCTACAATC-TTCAG
*
21907520 TCTGCTCTCTTGCTACCTCAGGGAGATAAG
1 TCTGCTCTCTTGCTACCTCAGGAAGATAAG
21907550 GCTAGTGGCT
Statistics
Matches: 348, Mismatches: 92, Indels: 65
0.69 0.18 0.13
Matches are distributed among these distances:
42 3 0.01
43 16 0.05
44 216 0.62
45 104 0.30
46 5 0.01
47 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (45 bp):
TCTGCTCTCTTGCTACCTCAGGAAGATAAGATCTACAATCTTCAG
Found at i:21915807 original size:47 final size:47
Alignment explanation
Indices: 21915659--21915987 Score: 532
Period size: 47 Copynumber: 6.9 Consensus size: 47
21915649 NNNNNNNNNN
*
21915659 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTT
1 AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
*
21915708 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTT
1 AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
21915757 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
21915804 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
21915851 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* * *
21915898 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCG
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* * * * *
21915945 AGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
21915988 TCCCGAAGGG
Statistics
Matches: 269, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 192 0.71
49 77 0.29
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
Found at i:21916162 original size:37 final size:37
Alignment explanation
Indices: 21916106--21916184 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21916096 CCGAGCTCTA
* * *
21916106 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21916143 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21916180 AAGAC
1 AAGAC
21916185 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21919658 original size:19 final size:20
Alignment explanation
Indices: 21919636--21919680 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
21919626 TGATGGACTT
*
21919636 TAATGCATATG-ATGTAATG
1 TAATGCAGATGCATGTAATG
*
21919655 TAATGCAGATGCATGTAGTG
1 TAATGCAGATGCATGTAATG
21919675 -AATGCA
1 TAATGCA
21919681 AAAAGGCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (20 bp):
TAATGCAGATGCATGTAATG
Found at i:21923278 original size:14 final size:14
Alignment explanation
Indices: 21923261--21923338 Score: 54
Period size: 14 Copynumber: 5.4 Consensus size: 14
21923251 GATATGTCTA
21923261 AAAAAATAAAGAAT
1 AAAAAATAAAGAAT
21923275 AAAAAATAAATGATAT
1 AAAAAATAAA-GA-AT
*
21923291 GAAAAAGAT-TAGAAT
1 -AAAAA-ATAAAGAAT
** *
21923306 AAGTAATAAAAGAGT
1 AAAAAAT-AAAGAAT
21923321 -AAAAATAAA-AAT
1 AAAAAATAAAGAAT
21923333 AAAAAA
1 AAAAAA
21923339 AATAAAAAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
12 2 0.04
13 10 0.20
14 17 0.35
15 8 0.16
16 4 0.08
17 6 0.12
18 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (14 bp):
AAAAAATAAAGAAT
Found at i:21923526 original size:29 final size:28
Alignment explanation
Indices: 21923475--21923544 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
21923465 TATAAAATAA
*
21923475 TTTAAAACAATTAATATGCAAAATGATT
1 TTTAAAACAATTAATATACAAAATGATT
* *
21923503 TTTAAAATAATATAATATATAAAATGA--
1 TTTAAAACAAT-TAATATACAAAATGATT
*
21923530 TTTAGAACAATTAAT
1 TTTAAAACAATTAAT
21923545 TTAAAAGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.11
27 9 0.25
28 10 0.28
29 13 0.36
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (28 bp):
TTTAAAACAATTAATATACAAAATGATT
Found at i:21937384 original size:13 final size:13
Alignment explanation
Indices: 21937358--21937428 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
21937348 AGTTCTTCAT
*
21937358 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
* *
21937371 TGCTGTAGAGAAG
1 TGCTTTTGAGAAG
21937384 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
21937397 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
21937410 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
21937423 TGCTTT
1 TGCTTT
21937429 GGAAAAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:21945795 original size:27 final size:27
Alignment explanation
Indices: 21945765--21945820 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
21945755 GGCTTCCATA
*
21945765 TCATGATT-CGCCACAAAGGATTTTCTT
1 TCATG-TTACGCCAAAAAGGATTTTCTT
*
21945792 TCATGTTACGCCAAAAAGGCTTTTCTT
1 TCATGTTACGCCAAAAAGGATTTTCTT
21945819 TC
1 TC
21945821 CTGACATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (27 bp):
TCATGTTACGCCAAAAAGGATTTTCTT
Found at i:21957483 original size:3 final size:3
Alignment explanation
Indices: 21957475--21957507 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21957465 TCTTAATTTC
21957475 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21957508 TTGCAATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21962137 original size:17 final size:17
Alignment explanation
Indices: 21962114--21962153 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
21962104 CATCAAGTTA
21962114 TTTTATTATATATT-TT
1 TTTTATTATATATTATT
21962130 TATTTATTATATATTATT
1 T-TTTATTATATATTATT
21962148 TTTTAT
1 TTTTAT
21962154 ATTCTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.82
18 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTATATATTATT
Found at i:21968963 original size:72 final size:72
Alignment explanation
Indices: 21968846--21969000 Score: 310
Period size: 72 Copynumber: 2.2 Consensus size: 72
21968836 CACCTAGAGA
21968846 TAGGGTGTTAAGATTTTATTGAATTAGGGTGAAACCTAATAAGGAGATCCATAGATCGAGTTAAT
1 TAGGGTGTTAAGATTTTATTGAATTAGGGTGAAACCTAATAAGGAGATCCATAGATCGAGTTAAT
21968911 GCAACAC
66 GCAACAC
21968918 TAGGGTGTTAAGATTTTATTGAATTAGGGTGAAACCTAATAAGGAGATCCATAGATCGAGTTAAT
1 TAGGGTGTTAAGATTTTATTGAATTAGGGTGAAACCTAATAAGGAGATCCATAGATCGAGTTAAT
21968983 GCAACAC
66 GCAACAC
21968990 TAGGGTGTTAA
1 TAGGGTGTTAA
21969001 TTAGCAAGAG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 83 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (72 bp):
TAGGGTGTTAAGATTTTATTGAATTAGGGTGAAACCTAATAAGGAGATCCATAGATCGAGTTAAT
GCAACAC
Found at i:21976153 original size:42 final size:42
Alignment explanation
Indices: 21976106--21976268 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
21976096 TTCCGATGTG
21976106 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGTATT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGTATT
* * * *
21976148 TGATTTTGTGCAAGACCTTGTTTAGGACATTGGCATCGTATT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGTATT
* * * * *
21976190 TGATTTTGTGTAAGACCCTGTCTAGGG-CAGTGGCATTGATATT
1 TGATTTCGTGTAAGACCATGT-TTGGGACATTGGCATCG-TATT
* * * * *
21976233 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCAT
21976269 TATATGAGCA
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
42 69 0.70
43 30 0.30
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.36
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGTATT
Found at i:21983985 original size:40 final size:40
Alignment explanation
Indices: 21983925--21984185 Score: 445
Period size: 40 Copynumber: 6.5 Consensus size: 40
21983915 ACCCAAGTAT
* * *
21983925 CTTCGGGATTTAG-CCGGATATAACT-ACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGTAACTTGCACAAATGC
* * *
21983964 CTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
21984004 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
21984044 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
21984084 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
21984124 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
21984164 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
21984186 CATCCGAATA
Statistics
Matches: 213, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 13 0.06
40 200 0.94
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
Found at i:21987184 original size:43 final size:41
Alignment explanation
Indices: 21987136--21987300 Score: 161
Period size: 43 Copynumber: 3.9 Consensus size: 41
21987126 TTCCGATGTG
* *
21987136 TGATTTCATGTAGGACCACGTTTGGGACATTGGCATCAATT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCAATT
* * *
21987177 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCATATT
1 T--GATTT-CATGTAAGACCACGTCTGGGACATTGGCATCA-ATT
* * *
21987222 TGATTTCGTGTAAAACC-CTGTCTGGGACAGTGGCATCAATAT
1 TGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATCAAT-T
* * *
21987264 CTGATTACATGTAAGACCACGTCTGAGACTTTGGCAT
1 -TGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
21987301 TGTATGAGCT
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
41 3 0.03
42 28 0.28
43 38 0.38
44 28 0.28
45 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCAATT
Found at i:21987245 original size:42 final size:42
Alignment explanation
Indices: 21987158--21987288 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
21987148 GGACCACGTT
*
21987158 TGGGACATTGGCATCA-ATTTGAGATTTACGTGTAAGACCATGTC
1 TGGGACA-TGGCATCATATTT--GATTTACGTGTAAAACCATGTC
*
21987202 TGGGACATCGGCATCATATTTGATTT-CGTGTAAAACCCTGTC
1 TGGGACAT-GGCATCATATTTGATTTACGTGTAAAACCATGTC
* * * *
21987244 TGGGACAGTGGCATCAATATCTGA-TTACATGTAAGACCACGTC
1 TGGGACA-TGGCATC-ATATTTGATTTACGTGTAAAACCATGTC
21987287 TG
1 TG
21987289 AGACTTTGGC
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
42 29 0.39
43 28 0.37
44 14 0.19
45 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGGGACATGGCATCATATTTGATTTACGTGTAAAACCATGTC
Done.