Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 10 of 259
Found at i:2866777 original size:10 final size:10
Alignment explanation
Indices: 2866762--2866791 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2866752 TGCCTTTGTG
2866762 ATAAAATTTT
1 ATAAAATTTT
2866772 ATAAAATTTT
1 ATAAAATTTT
2866782 A-AAAATTTT
1 ATAAAATTTT
2866791 A
1 A
2866792 ACCCTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:2870709 original size:27 final size:27
Alignment explanation
Indices: 2870679--2870740 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
2870669 GAAAAGATGA
2870679 AGAATCAAAGGAAGTAAAGGAAGGAGT
1 AGAATCAAAGGAAGTAAAGGAAGGAGT
2870706 AGAATCAAAGGAAGTAAAGGAAGGAGT
1 AGAATCAAAGGAAGTAAAGGAAGGAGT
*
2870733 AGCATCAA
1 AGAATCAA
2870741 TAGCATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.52, C:0.06, G:0.31, T:0.11
Consensus pattern (27 bp):
AGAATCAAAGGAAGTAAAGGAAGGAGT
Found at i:2871161 original size:28 final size:29
Alignment explanation
Indices: 2871117--2871171 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
2871107 TCTAAGAAGG
*
2871117 TGAATCAATTGGTTCC-TCTACTATTACA
1 TGAATCAATTAGTTCCTTCTACTATTACA
*
2871145 TGAATCAATTTAG-TCCTTTTACTATTA
1 TGAATCAA-TTAGTTCCTTCTACTATTA
2871172 AAAGGAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (29 bp):
TGAATCAATTAGTTCCTTCTACTATTACA
Found at i:2871909 original size:2 final size:2
Alignment explanation
Indices: 2871902--2871938 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2871892 TTCCACAAAA
2871902 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2871939 ACACACACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2881049 original size:18 final size:20
Alignment explanation
Indices: 2881026--2881069 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2881016 AATTCTTTTT
*
2881026 TTTTGCT-ATTTT-TTACTA
1 TTTTGCTCATTTTCTCACTA
2881044 TTTTGCTGCATTTTCTCACTA
1 TTTTGCT-CATTTTCTCACTA
2881065 TTTTG
1 TTTTG
2881070 TTACCATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
20 5 0.23
21 10 0.45
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTTGCTCATTTTCTCACTA
Found at i:2882989 original size:25 final size:25
Alignment explanation
Indices: 2882957--2883112 Score: 120
Period size: 25 Copynumber: 6.3 Consensus size: 25
2882947 GCCCTCTCTT
2882957 GAGCCATATAATAGGAAGCTCATCA
1 GAGCCATATAATAGGAAGCTCATCA
* *
2882982 GAGCCATATAATAGGAAGCTTATCC
1 GAGCCATATAATAGGAAGCTCATCA
* ** * *
2883007 GAGCTATATAACGGGAAGCTTATAA
1 GAGCCATATAATAGGAAGCTCATCA
* * ***
2883032 GAGCCATA-ATTGGGAAGCTCAAGT
1 GAGCCATATAATAGGAAGCTCATCA
* *
2883056 GAGCCATA-AATAGGAAGCTTATCC
1 GAGCCATATAATAGGAAGCTCATCA
* ** *
2883080 GGGTTATATAAT-GAGAAGCTCATAA
1 GAGCCATATAATAG-GAAGCTCATCA
2883105 GAGCCATA
1 GAGCCATA
2883113 ATTGGGAAGT
Statistics
Matches: 100, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
24 34 0.34
25 66 0.66
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCCATATAATAGGAAGCTCATCA
Found at i:2883075 original size:73 final size:74
Alignment explanation
Indices: 2882982--2883147 Score: 237
Period size: 73 Copynumber: 2.3 Consensus size: 74
2882972 AAGCTCATCA
* *
2882982 GAGCCATATAATAGGAAGCTTATCCGAGCTATATAACGGGAAGCTTATAAGAGCCATAATTGGGA
1 GAGCCATATAATAGGAAGCTTATCCGAGCTATATAACGAGAAGCTCATAAGAGCCATAATTGGGA
2883047 AGCTCAAGT
66 AGCTCAAGT
* * *
2883056 GAGCCATA-AATAGGAAGCTTATCCGGGTTATATAATGAGAAGCTCATAAGAGCCATAATTGGGA
1 GAGCCATATAATAGGAAGCTTATCCGAGCTATATAACGAGAAGCTCATAAGAGCCATAATTGGGA
* *
2883120 AGTTCATGT
66 AGCTCAAGT
* *
2883129 GAGCCA-ATAACAGGTAGCT
1 GAGCCATATAATAGGAAGCT
2883148 CCAAAGAGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
72 1 0.01
73 73 0.89
74 8 0.10
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (74 bp):
GAGCCATATAATAGGAAGCTTATCCGAGCTATATAACGAGAAGCTCATAAGAGCCATAATTGGGA
AGCTCAAGT
Found at i:2883261 original size:26 final size:26
Alignment explanation
Indices: 2883232--2883282 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2883222 TGGAGAACCA
2883232 TTAATCAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
* **
2883258 TTAATCGGGAAGCTCATGAAGAGCC
1 TTAATCAGGAAGCTCACAAAGAGCC
2883283 ATATAACGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Found at i:2884218 original size:16 final size:16
Alignment explanation
Indices: 2884199--2884231 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2884189 TTTGTTTACG
2884199 TTATTTT-TCCCATTTT
1 TTATTTTAT-CCATTTT
2884215 TTATTTTATCCATTTT
1 TTATTTTATCCATTTT
2884231 T
1 T
2884232 CTTTTGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTATCCATTTT
Found at i:2885708 original size:34 final size:34
Alignment explanation
Indices: 2885585--2885703 Score: 114
Period size: 34 Copynumber: 3.5 Consensus size: 34
2885575 TTCTGATATG
* * * **
2885585 ATATAACATTTTGATATATTATATGTTTCTAAAA
1 ATATGACATTCTGATATAGTATATGTTTCTGGAA
* *
2885619 ATATGACATTCTAATCTAGTATATGTTTCTGGAA
1 ATATGACATTCTGATATAGTATATGTTTCTGGAA
* * * *
2885653 ATATGACATTTTGGT-TTGATATATGTTTCTGGTA
1 ATATGACATTCTGATATAG-TATATGTTTCTGGAA
*
2885687 ATCTGACATTCTGATAT
1 ATATGACATTCTGATAT
2885704 GATATTGTAT
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
33 2 0.03
34 65 0.96
35 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (34 bp):
ATATGACATTCTGATATAGTATATGTTTCTGGAA
Found at i:2893703 original size:15 final size:15
Alignment explanation
Indices: 2893683--2893748 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
2893673 ACTGCAAAAA
2893683 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
2893698 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
2893717 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
2893732 ATTCA-TATTAA-AT
1 ATTTATTATTAATAT
2893745 ATTT
1 ATTT
2893749 TCAATAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
13 5 0.12
14 6 0.14
15 13 0.31
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:2893795 original size:16 final size:16
Alignment explanation
Indices: 2893767--2893803 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2893757 ATGTGAAGAA
2893767 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
2893783 TATT-TTTACAAATTAT
1 TATTATTTA-AAATTAT
2893799 TATTA
1 TATTA
2893804 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:2895417 original size:13 final size:13
Alignment explanation
Indices: 2895399--2895423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2895389 ATTTCACAAG
2895399 ATAAAAATAAAAA
1 ATAAAAATAAAAA
2895412 ATAAAAATAAAA
1 ATAAAAATAAAA
2895424 CCCCCTAAAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:2897695 original size:6 final size:6
Alignment explanation
Indices: 2897684--2897719 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2897674 ATAAGACGCA
* *
2897684 ATATGT ATATGT ATATGT ATATGT ACATGT ACATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
2897720 TTTTGTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (6 bp):
ATATGT
Found at i:2898390 original size:7 final size:7
Alignment explanation
Indices: 2898378--2898410 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
2898368 ATTTCCGATC
2898378 GGCAAAT
1 GGCAAAT
2898385 GGCAAAT
1 GGCAAAT
2898392 GGCAAAT
1 GGCAAAT
2898399 GGCAAAT
1 GGCAAAT
2898406 GGCAA
1 GGCAA
2898411 TGAGGGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.30, T:0.12
Consensus pattern (7 bp):
GGCAAAT
Found at i:2898659 original size:34 final size:34
Alignment explanation
Indices: 2898616--2898685 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
2898606 TGACCTTTGT
*
2898616 TACACTCTTTGAAGATGAAGGATGAACGTATATA
1 TACACTCTTTGAAGATGAAGGATGAACATATATA
2898650 TACACTCTTTGAAGATGAAGGATGAACATATATA
1 TACACTCTTTGAAGATGAAGGATGAACATATATA
2898684 TA
1 TA
2898686 TATACACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (34 bp):
TACACTCTTTGAAGATGAAGGATGAACATATATA
Found at i:2898696 original size:6 final size:6
Alignment explanation
Indices: 2898687--2898729 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
2898677 ATATATATAT
2898687 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC A
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC A
2898730 GGGACCTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (6 bp):
ATACAC
Found at i:2902073 original size:21 final size:21
Alignment explanation
Indices: 2902047--2902107 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
2902037 CAACACAAGG
*
2902047 TTGTGTGTTGCAACACAGACA
1 TTGTGTGTTGCAACACACACA
* **
2902068 TTGTGTGTCGCATGACACACA
1 TTGTGTGTTGCAACACACACA
2902089 TTGTGTGTCATGCAACACA
1 TTGTGTGT--TGCAACACA
2902108 AGGCATTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 25 0.81
23 6 0.19
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (21 bp):
TTGTGTGTTGCAACACACACA
Found at i:2906638 original size:168 final size:168
Alignment explanation
Indices: 2906349--2906692 Score: 616
Period size: 168 Copynumber: 2.0 Consensus size: 168
2906339 CCTAGAACAT
2906349 GGGCGTGTGCCTAGGCCGTGTGAAGTCTACACCAAATTTTAGAATTTAATTCACCACACGGCCTA
1 GGGCGTGTGCCTAGGCCGTGTGAAGTCTACACCAAATTTTAGAATTTAATTCACCACACGGCCTA
2906414 AGCACACGAGTGTGTGATTTGGCCGTATGACCTTATTTTGGATAATGACATCATAGTCAGAGAGT
66 AGCACACGAGTGTGTGATTTGGCCGTATGACCTTATTTTGGATAATGACATCATAGTCAGAGAGT
2906479 TACACGGGTTGAGGACACGAGCGTGTCCCAAACCACAC
131 TACACGGGTTGAGGACACGAGCGTGTCCCAAACCACAC
* **
2906517 GGGCGTGTGCCTAGGCCGTGTGAAGTCTGCACCTGATTTTAGAATTTAATTCACCACACGGCCTA
1 GGGCGTGTGCCTAGGCCGTGTGAAGTCTACACCAAATTTTAGAATTTAATTCACCACACGGCCTA
* * **
2906582 AGCACACGAGTGTGTGATTTGGCCGTGTGACCTTATTTTGGATGATGAGGTCATAGTCAGAGAGT
66 AGCACACGAGTGTGTGATTTGGCCGTATGACCTTATTTTGGATAATGACATCATAGTCAGAGAGT
*
2906647 TACACGGGTTGAGGACACGGGCGTGTCCCAAACCACAC
131 TACACGGGTTGAGGACACGAGCGTGTCCCAAACCACAC
2906685 GGGCGTGT
1 GGGCGTGT
2906693 ATGACCACAC
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (168 bp):
GGGCGTGTGCCTAGGCCGTGTGAAGTCTACACCAAATTTTAGAATTTAATTCACCACACGGCCTA
AGCACACGAGTGTGTGATTTGGCCGTATGACCTTATTTTGGATAATGACATCATAGTCAGAGAGT
TACACGGGTTGAGGACACGAGCGTGTCCCAAACCACAC
Found at i:2907653 original size:11 final size:11
Alignment explanation
Indices: 2907640--2907694 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
2907630 GACAAAAAGT
* *
2907640 AGCAGCAAAAT
1 AGCACCAAAAC
2907651 AGCACCAAAAC
1 AGCACCAAAAC
*
2907662 AGCAGCAAAAC
1 AGCACCAAAAC
2907673 AGCACC-AAAC
1 AGCACCAAAAC
*
2907683 AGCAACAAAAC
1 AGCACCAAAAC
2907694 A
1 A
2907695 ACACAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.56, C:0.29, G:0.13, T:0.02
Consensus pattern (11 bp):
AGCACCAAAAC
Found at i:2907684 original size:21 final size:22
Alignment explanation
Indices: 2907640--2907703 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
2907630 GACAAAAAGT
*
2907640 AGCAGCAAAATAGCACCAAAAC
1 AGCAGCAAAACAGCACCAAAAC
2907662 AGCAGCAAAACAGCACC-AAAC
1 AGCAGCAAAACAGCACCAAAAC
* * *
2907683 AGCAACAAAACAACACAAAAA
1 AGCAGCAAAACAGCACCAAAA
2907704 ACAACATCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.59, C:0.28, G:0.11, T:0.02
Consensus pattern (22 bp):
AGCAGCAAAACAGCACCAAAAC
Found at i:2907700 original size:10 final size:10
Alignment explanation
Indices: 2907640--2907702 Score: 63
Period size: 11 Copynumber: 5.9 Consensus size: 10
2907630 GACAAAAAGT
*
2907640 AGCAGCAAAAT
1 AGCA-CAAAAC
2907651 AGCACCAAAAC
1 AGCA-CAAAAC
2907662 AGCAGCAAAAC
1 AGCA-CAAAAC
*
2907673 AGCACCAAAC
1 AGCACAAAAC
2907683 AGCAACAAAAC
1 AGC-ACAAAAC
*
2907694 AACACAAAA
1 AGCACAAAA
2907703 AACAACATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
10 14 0.31
11 31 0.69
ACGTcount: A:0.59, C:0.29, G:0.11, T:0.02
Consensus pattern (10 bp):
AGCACAAAAC
Found at i:2908598 original size:26 final size:26
Alignment explanation
Indices: 2908569--2908619 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
2908559 GATAAAAATT
*
2908569 GATAATGGGTTAGGTAAATGTTCCAC
1 GATAATAGGTTAGGTAAATGTTCCAC
2908595 GATAATAGGTTAGGTAAATGTTCCA
1 GATAATAGGTTAGGTAAATGTTCCA
2908620 TGATGGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (26 bp):
GATAATAGGTTAGGTAAATGTTCCAC
Found at i:2910157 original size:26 final size:26
Alignment explanation
Indices: 2910105--2910157 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2910095 ATTACAATTT
*
2910105 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
2910131 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
2910157 T
1 T
2910158 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:2913890 original size:19 final size:20
Alignment explanation
Indices: 2913861--2913898 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2913851 TCTCTGCAAA
*
2913861 ATATAAATATTTTTAATTAG
1 ATATAAATATTTTAAATTAG
2913881 ATAT-AATATTTTAAATTA
1 ATATAAATATTTTAAATTA
2913899 TCTTGAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATAAATATTTTAAATTAG
Found at i:2914005 original size:13 final size:13
Alignment explanation
Indices: 2913987--2914013 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2913977 GTGTTTGTTT
2913987 TAAAGACATCAAA
1 TAAAGACATCAAA
2914000 TAAAGACATCAAA
1 TAAAGACATCAAA
2914013 T
1 T
2914014 TGTTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (13 bp):
TAAAGACATCAAA
Found at i:2917169 original size:3 final size:3
Alignment explanation
Indices: 2917161--2917520 Score: 113
Period size: 3 Copynumber: 121.0 Consensus size: 3
2917151 CAATTCAATC
* * * *
2917161 TAT TAT TAT TAAC TAT TAT T-T TAC TAT TAT TAT CA- AAT ATAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * * *
2917206 CAT TAT CT-C TAT TAT TAC T-T TAT TAT TGT AACT TAA TA- TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * ** * *
2917250 TAT TAT TA- TAT TAC TAT CAT TAT TAT TAT TAT TAC CGT TAG CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2917297 T-T TCAT TAC TAT TA- TAT T-T TAT TGAT TA- TAT TAC TA- TATT TGT
1 TAT T-AT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA-T TAT
* * * * * * * *
2917340 TA- TAT TAT CAT TAT CAT TCT TAC TAT TGT TAT TAT TAC TAC TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
2917387 TAT TCT TAT TAA CA- TAT TAT TAT TAT TTT TAC TA- TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
2917433 TCT TTT TTT TCACT TAT TAA TAT TAT TGA- TAT TAA CAT ATAT TAAT
1 TAT TAT TAT T-A-T TAT TAT TAT TAT T-AT TAT TAT TAT -TAT T-AT
* *
2917479 GTAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAC TAC TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2917521 CATTTTTAAA
Statistics
Matches: 259, Mismatches: 69, Indels: 58
0.67 0.18 0.15
Matches are distributed among these distances:
2 27 0.10
3 208 0.80
4 21 0.08
5 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:2917188 original size:11 final size:13
Alignment explanation
Indices: 2917160--2917193 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
2917150 TCAATTCAAT
2917160 CTATTATTATTAA
1 CTATTATTATTAA
2917173 CTATTATT-TT-A
1 CTATTATTATTAA
2917184 CTATTATTAT
1 CTATTATTAT
2917194 CAAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 3 0.15
13 8 0.40
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (13 bp):
CTATTATTATTAA
Found at i:2917427 original size:20 final size:20
Alignment explanation
Indices: 2917360--2917433 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
2917350 TTATCATTCT
* *
2917360 TACTATTGTTATTATTACTA
1 TACTATTATTATTTTTACTA
* *
2917380 CTACTATTATTCTTATTAAC-A
1 -TACTATTATTATT-TTTACTA
*
2917401 TATTATTATTATTTTTACTA
1 TACTATTATTATTTTTACTA
2917421 TACTATTATTATT
1 TACTATTATTATT
2917434 CTTTTTTTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.09
20 24 0.56
21 12 0.28
22 3 0.07
ACGTcount: A:0.31, C:0.11, G:0.01, T:0.57
Consensus pattern (20 bp):
TACTATTATTATTTTTACTA
Found at i:2917427 original size:23 final size:23
Alignment explanation
Indices: 2917375--2917439 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
2917365 TTGTTATTAT
* * * *
2917375 TACTACTACTATTATTCTTATTA
1 TACTATTATTATTATTTTTACTA
2917398 -ACATATTATTATTATTTTTACTA
1 TAC-TATTATTATTATTTTTACTA
*
2917421 TACTATTATTATTCTTTTT
1 TACTATTATTATTATTTTT
2917440 TTTCACTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 2 0.06
23 31 0.89
24 2 0.06
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.58
Consensus pattern (23 bp):
TACTATTATTATTATTTTTACTA
Found at i:2917430 original size:26 final size:26
Alignment explanation
Indices: 2917400--2917459 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
2917390 TCTTATTAAC
2917400 ATATTATTATTATTTTT-ACTATACTA
1 ATATTATTATTATTTTTCACT-TACTA
* * * *
2917426 TTATTATTCTTTTTTTTCACTTATTA
1 ATATTATTATTATTTTTCACTTACTA
2917452 ATATTATT
1 ATATTATT
2917460 GATATTAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 25 0.89
27 3 0.11
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.63
Consensus pattern (26 bp):
ATATTATTATTATTTTTCACTTACTA
Found at i:2917869 original size:14 final size:14
Alignment explanation
Indices: 2917850--2917887 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2917840 ATATTTTCAT
2917850 TATATATGTATATG
1 TATATATGTATATG
* *
2917864 TATATATATATTTG
1 TATATATGTATATG
2917878 TATATA-GTAT
1 TATATATGTAT
2917888 TATTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (14 bp):
TATATATGTATATG
Found at i:2917950 original size:3 final size:3
Alignment explanation
Indices: 2917944--2917979 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
2917934 TGTATTTCAA
*
2917944 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
2917980 GTGTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2918144 original size:139 final size:139
Alignment explanation
Indices: 2917820--2918404 Score: 652
Period size: 139 Copynumber: 4.1 Consensus size: 139
2917810 TATTTTCATC
*
2917820 TTATTATTATATATTAGTGTATATTTTCATTATATATGTATATGTATATATATATTTGTATATAG
1 TTATTATTATATATTAGTGTATATTTTCATTATATATGTATATG-ATATATATATTTATATATAG
*
2917885 TATTATTTTTATTA-TTTATTTTAATATTTTTATTATATTTGCTTTTTTTTGTATTTCAATATTA
65 TATTATTTTTATTACTTTATTTTAATATTTATATTATA-----TTTTTTTTGTATTTCAATATTA
2917949 TTACTATTATTATTA
125 TTACTATTATTATTA
* * * *
2917964 TTATTATTATATATTAGTGTATATTTTTATTGTATAGGTATATG-TATATATATTTATATCTAGT
1 TTATTATTATATATTAGTGTATATTTTCATTATATATGTATATGATATATATATTTATATATAGT
* * *
2918028 ATTACTTTTTATTACTTTATTTTAATATTTATATTATATATATTTTGTATTTCAATATTATTACC
66 ATTA-TTTTTATTACTTTATTTTAATATTTATATTATATTTTTTTTGTATTTCAATATTATTACT
2918093 ATTATTATTA
130 ATTATTATTA
*
2918103 TTATTATTATATATTAGTCTATATTTTCATTATATATGTATATGTATATATATATTTATATATAG
1 TTATTATTATATATTAGTGTATATTTTCATTATATATGTATATG-ATATATATATTTATATATAG
*
2918168 TATTATTTTTAATTACTTTATTTCAATATTTTTATTGTATTATATTTGCTTTTTGTATTTCAATA
65 TATTATTTTT-ATTACTTTATTTTAATA--TTTA---TATTATATTT--TTTTTGTATTTCAATA
*
2918233 TTATTGCTATTATTATTA
122 TTATTACTATTATTATTA
* * * *
2918251 TTGTTATTA-CTATTAGTGTATA-TTT--TTAT-TA--TATATG-CATATATATTTATATATAGC
1 TTATTATTATATATTAGTGTATATTTTCATTATATATGTATATGATATATATATTTATATATAGT
* * * *
2918308 ACTATTTTCAATTACTTTATTTTAACATTATTATTATATTCTATTTGCTTTTTGTATTTCATTAT
66 ATTATTTT-TATTACTTTATTTT-A-A-TA-T-TTATATTATATTT--TTTTTGTATTTCAATAT
* * *
2918373 TATTGCTAGTGTTATTA
123 TATTACTATTATTATTA
* *
2918390 TCATTATCAT-TATTA
1 TTATTATTATATATTA
2918405 TTAACATATA
Statistics
Matches: 389, Mismatches: 34, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
139 164 0.42
140 6 0.02
141 48 0.12
142 27 0.07
143 15 0.04
144 67 0.17
146 12 0.03
147 11 0.03
148 39 0.10
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (139 bp):
TTATTATTATATATTAGTGTATATTTTCATTATATATGTATATGATATATATATTTATATATAGT
ATTATTTTTATTACTTTATTTTAATATTTATATTATATTTTTTTTGTATTTCAATATTATTACTA
TTATTATTA
Found at i:2919450 original size:13 final size:11
Alignment explanation
Indices: 2919404--2919462 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
2919394 TTGTTTACTG
*
2919404 TTTTGCCATTA
1 TTTTGCTATTA
* *
2919415 TTTTTCCATT-
1 TTTTGCTATTA
2919425 TTTTGCTATTA
1 TTTTGCTATTA
2919436 TTTTGCTATTA
1 TTTTGCTATTA
* * *
2919447 TATTACTACTA
1 TTTTGCTATTA
2919458 TTTTG
1 TTTTG
2919463 TTGCTATTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
10 8 0.21
11 31 0.79
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.61
Consensus pattern (11 bp):
TTTTGCTATTA
Found at i:2925626 original size:14 final size:14
Alignment explanation
Indices: 2925606--2925638 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2925596 AAACATGCAT
2925606 AAATATT-TTTAAA
1 AAATATTATTTAAA
2925619 ATAATATTATTTAAA
1 A-AATATTATTTAAA
2925634 AAATA
1 AAATA
2925639 AAAATTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 10 0.56
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATATTATTTAAA
Found at i:2926684 original size:5 final size:5
Alignment explanation
Indices: 2926674--2926699 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2926664 GTTTTTTTTG
2926674 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
2926700 AGAACCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:2927418 original size:20 final size:21
Alignment explanation
Indices: 2927390--2927428 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
2927380 TCGTTATTAT
*
2927390 TATTATTAGTA-TATTTTTAC
1 TATTATTAGAATTATTTTTAC
*
2927410 TATTCTTAGAATTATTTTT
1 TATTATTAGAATTATTTTT
2927429 TAGTTTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
TATTATTAGAATTATTTTTAC
Found at i:2927649 original size:22 final size:21
Alignment explanation
Indices: 2927603--2927676 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 21
2927593 TTACCCTTAT
2927603 TATATTTGTTATTA-ATAT-TA
1 TATATTT-TTATTACATATGTA
2927623 GTATATGTTTTATTACATATGTA
1 -TATAT-TTTTATTACATATGTA
*
2927646 TATATCTTTTAATACATATATGTA
1 TATAT-TTTTATTAC--ATATGTA
2927670 TATATTT
1 TATATTT
2927677 ATGTAATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 11 0.24
22 19 0.41
23 4 0.09
24 12 0.26
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (21 bp):
TATATTTTTATTACATATGTA
Found at i:2928054 original size:20 final size:20
Alignment explanation
Indices: 2928029--2928080 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2928019 TTTAATATTG
*
2928029 TATTTTTATTATTATGTATA
1 TATTTTTATTATTACGTATA
* *
2928049 TATTTTTAATACTACGTATA
1 TATTTTTATTATTACGTATA
2928069 TATTTTT-TTATT
1 TATTTTTATTATT
2928081 TCTATTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTTATTATTACGTATA
Found at i:2934017 original size:20 final size:19
Alignment explanation
Indices: 2933967--2934026 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
2933957 TAAAATACAA
*
2933967 ATTTTAGAATTTTTATAAA-T
1 ATTTTA-AA-TTTTAAAAATT
2933987 ATTTTAAATTTTAAAAATT
1 ATTTTAAATTTTAAAAATT
*
2934006 ATTTTCAAATTTTGAAAATT
1 ATTTT-AAATTTTAAAAATT
2934026 A
1 A
2934027 CTTTGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 20 0.56
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTTTAAATTTTAAAAATT
Found at i:2934571 original size:3 final size:3
Alignment explanation
Indices: 2934563--2934591 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2934553 CCATAATCAA
2934563 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
2934592 ATATTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:2934805 original size:4 final size:4
Alignment explanation
Indices: 2934804--2934833 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
2934794 TATGTATTTA
*
2934804 TTGT TTAT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
2934834 ATTATTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:2934819 original size:12 final size:12
Alignment explanation
Indices: 2934804--2934836 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2934794 TATGTATTTA
2934804 TTGTTTATTTGT
1 TTGTTTATTTGT
*
2934816 TTGTTTGTTTGT
1 TTGTTTATTTGT
2934828 TTGTTTATT
1 TTGTTTATT
2934837 ATTCATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (12 bp):
TTGTTTATTTGT
Found at i:2938165 original size:23 final size:23
Alignment explanation
Indices: 2938101--2938165 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 23
2938091 ATAATTAATA
* *
2938101 ATAAATATTATGTGA-TTTTATT
1 ATAAATATTATTTAATTTTTATT
* *
2938123 A-AAATTAGTA-TAAATATTTTATT
1 ATAAA-TATTATTTAAT-TTTTATT
2938146 ATAAATATTATTTAATTTTT
1 ATAAATATTATTTAATTTTT
2938166 GAATAAAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
21 4 0.12
22 5 0.16
23 16 0.50
24 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
ATAAATATTATTTAATTTTTATT
Found at i:2957498 original size:26 final size:26
Alignment explanation
Indices: 2957462--2957545 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
2957452 CATGAAATTC
*
2957462 TTATCATGAAACATTTACCGAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2957488 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2957514 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2957540 TTATCA
1 TTATCA
2957546 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2964254 original size:79 final size:79
Alignment explanation
Indices: 2964070--2964293 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 79
2964060 GCTCCTCGTT
* * * *
2964070 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCG-GGCTTAGCCCG
*
2964134 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
*
2964150 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
*
2964215 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * *
2964229 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTTACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCC
2964290 CGGA
62 CGGA
2964294 TAGCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 61 0.48
80 53 0.41
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:2964294 original size:39 final size:42
Alignment explanation
Indices: 2964070--2964295 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 42
2964060 GCTCCTCGTT
* * *
2964070 CAAATGCCTTCGGGACATAGCCCGGTTA-TAG-TAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTTACTTCGCA
* * *
2964110 CAAATGCCTTCGAGACTTAACCCGGAT-TTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTTACTTCGCA
* *
2964150 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTTACTTCGCA
2964190 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAG-TA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTTACT-TCGCA
* *
2964229 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTTACTTCGCA
2964270 C-AA-GCCTTCGGGACTTAGCCCGGATA
1 CAAATGCCTTCGGGACTTAGCCCGGATA
2964296 GCATTCAAAT
Statistics
Matches: 163, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.29
40 100 0.61
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (42 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTTACTTCGCA
Found at i:2972036 original size:40 final size:40
Alignment explanation
Indices: 2971992--2972255 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
2971982 GCTCCTCGTT
* *
2971992 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
2972032 CAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
2972072 CAAATGCTTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
2972112 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
2972152 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
2972191 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
2972232 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2972256 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 142 0.70
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:2974442 original size:26 final size:26
Alignment explanation
Indices: 2974406--2974489 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
2974396 CATGAAATTT
2974406 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2974432 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2974458 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2974484 TTATCA
1 TTATCA
2974490 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2980076 original size:14 final size:14
Alignment explanation
Indices: 2980057--2980095 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2980047 TTGTTTCACT
2980057 GAAAATGACTTTC-A
1 GAAAATGA-TTTCTA
2980071 GAAAATGATTTCTA
1 GAAAATGATTTCTA
*
2980085 GAAAATAATTT
1 GAAAATGATTT
2980096 ACTTTTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:2983416 original size:19 final size:19
Alignment explanation
Indices: 2983380--2983418 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2983370 TATTATTAAT
**
2983380 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
2983399 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
2983418 A
1 A
2983419 CTTGAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:2983459 original size:21 final size:20
Alignment explanation
Indices: 2983425--2983478 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
2983415 TAAACTTGAA
2983425 ATATTAAATAATTTA-TTA-T
1 ATATT-AATAATTTATTTAGT
2983444 -T-TTAATAATTATATTTAGT
1 ATATTAATAATT-TATTTAGT
2983463 ATATTAATAATTTATT
1 ATATTAATAATTTATT
2983479 ATATGACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
16 7 0.23
17 4 0.13
18 4 0.13
19 1 0.03
20 5 0.17
21 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATTAATAATTTATTTAGT
Found at i:2986491 original size:24 final size:24
Alignment explanation
Indices: 2986362--2986521 Score: 119
Period size: 24 Copynumber: 6.7 Consensus size: 24
2986352 CAACCGATTT
* * *
2986362 CGCACACATAGTGCTAAAT-AAATT
1 CGCACACATAGTGC-CATTCAAATC
* *
2986386 CGCACACATAGTGCCATGCTACA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
2986410 CGCACACATAGTGCC-TTGAAGATT
1 CGCACACATAGTGCCATTCAA-ATC
* * ** * * *
2986434 CACTCATGTATTGACATCCAAATC
1 CGCACACATAGTGCCATTCAAATC
* *
2986458 AGCACACATAGTGCCATTCAATTC
1 CGCACACATAGTGCCATTCAAATC
2986482 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
2986506 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
2986522 ACGTAAACCC
Statistics
Matches: 101, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
22 1 0.01
23 3 0.03
24 92 0.91
25 5 0.05
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:2987893 original size:26 final size:26
Alignment explanation
Indices: 2987856--2987939 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
2987846 TGATACAAAT
* *
2987856 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
2987882 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
2987908 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
2987934 TGATAA
1 TGATAA
2987940 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:2989476 original size:26 final size:26
Alignment explanation
Indices: 2989424--2989476 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2989414 TTTACAGTTT
*
2989424 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
2989450 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
2989476 T
1 T
2989477 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:2990665 original size:16 final size:16
Alignment explanation
Indices: 2990644--2990674 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2990634 ATGGGTTTAT
*
2990644 AAAAACAAAGATTTTC
1 AAAAACAAAAATTTTC
2990660 AAAAACAAAAATTTT
1 AAAAACAAAAATTTT
2990675 ATAAAGAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAACAAAAATTTTC
Found at i:2999674 original size:3 final size:3
Alignment explanation
Indices: 2999666--2999730 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
2999656 TGATATTTTC
* * * *
2999666 TAT TAT TAT TCAC CAT TAT T-T T-T TAT TGT AAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2999710 TAT TAT T-T TA- TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
2999731 GTATATATCT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 10 0.20
3 38 0.78
4 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3005555 original size:26 final size:26
Alignment explanation
Indices: 3005526--3005578 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
3005516 TCAAACATGC
3005526 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
3005552 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
3005578 A
1 A
3005579 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:3007097 original size:26 final size:25
Alignment explanation
Indices: 3007059--3007142 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
3007049 CATGAAATTC
*
3007059 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
3007085 TTATCATCGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
3007111 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
3007137 TTATCA
1 TTATCA
3007143 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
26 54 0.98
27 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:3008297 original size:12 final size:12
Alignment explanation
Indices: 3008280--3008304 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3008270 AGTGTCGAAT
3008280 CGGTAACAGTAA
1 CGGTAACAGTAA
3008292 CGGTAACAGTAA
1 CGGTAACAGTAA
3008304 C
1 C
3008305 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:3009384 original size:5 final size:5
Alignment explanation
Indices: 3009374--3009416 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
3009364 TGTCTCTTTT
3009374 ATATA ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
3009417 CTTAATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 32 0.89
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:3010571 original size:26 final size:26
Alignment explanation
Indices: 3010535--3010616 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
3010525 TGATACAAAT
*
3010535 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3010561 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
3010587 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3010613 TGAT
1 TGAT
3010617 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:3012125 original size:26 final size:26
Alignment explanation
Indices: 3012096--3012148 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3012086 TTTACAATTT
3012096 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
3012122 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
3012148 T
1 T
3012149 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:3012867 original size:34 final size:34
Alignment explanation
Indices: 3012824--3012892 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
3012814 TTATTTTAAA
3012824 CAACTTTAAATTGATGGATACTAATTCAAATGGG
1 CAACTTTAAATTGATGGATACTAATTCAAATGGG
3012858 CAACTTTAAATTGATGGATACTAATTCAAATGGG
1 CAACTTTAAATTGATGGATACTAATTCAAATGGG
3012892 C
1 C
3012893 TAGACTTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (34 bp):
CAACTTTAAATTGATGGATACTAATTCAAATGGG
Found at i:3012888 original size:20 final size:20
Alignment explanation
Indices: 3012831--3012888 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 20
3012821 AAACAACTTT
3012831 AAATTGATGGATACTAATTC
1 AAATTGATGGATACTAATTC
3012851 AAA-TG--GGCA-ACT--TT-
1 AAATTGATGG-ATACTAATTC
3012865 AAATTGATGGATACTAATTC
1 AAATTGATGGATACTAATTC
3012885 AAAT
1 AAAT
3012889 GGGCTAGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 16
0.65 0.00 0.35
Matches are distributed among these distances:
14 3 0.10
15 4 0.13
16 1 0.03
17 10 0.33
18 1 0.03
19 4 0.13
20 7 0.23
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (20 bp):
AAATTGATGGATACTAATTC
Found at i:3016517 original size:118 final size:119
Alignment explanation
Indices: 3016334--3016565 Score: 358
Period size: 118 Copynumber: 2.0 Consensus size: 119
3016324 TATTTCCGGT
*
3016334 TAGCGGAGTTTTACCCAACACGTCACACAACTTTTTTGACGCGAAGTAGAATGACAACCCAAGCA
1 TAGCGGAGTTTTACCCAACACGTCACACAACTCTTTTGACGCGAAGTAGAATGACAACCCAAGCA
* *
3016399 CCCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
**** *
3016453 TAGCGGAGTTTTACTTGTCACGTCACATAAC-CTTTTGACGCGAAGTAGAATGACAACCCAAGCA
1 TAGCGGAGTTTTACCCAACACGTCACACAACTCTTTTGACGCGAAGTAGAATGACAACCCAAGCA
* **
3016517 CCCTACCCCGGTTACTTAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
3016566 ATGGAAAACT
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
118 76 0.75
119 26 0.25
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (119 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACTCTTTTGACGCGAAGTAGAATGACAACCCAAGCA
CCCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:3017529 original size:7 final size:7
Alignment explanation
Indices: 3017508--3017570 Score: 53
Period size: 7 Copynumber: 9.1 Consensus size: 7
3017498 GAAATTTATT
3017508 AATATAAA
1 AATA-AAA
3017516 AAT-AAA
1 AATAAAA
3017522 AAT-AAA
1 AATAAAA
3017528 AAT--AA
1 AATAAAA
3017533 AATAAAA
1 AATAAAA
*
3017540 TAATAAAT
1 -AATAAAA
*
3017548 AATAAAT
1 AATAAAA
3017555 AATAAATA
1 AATAAA-A
3017563 AATAAAA
1 AATAAAA
3017570 A
1 A
3017571 GATTGGGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
5 5 0.10
6 12 0.24
7 17 0.35
8 15 0.31
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AATAAAA
Found at i:3017534 original size:11 final size:10
Alignment explanation
Indices: 3017511--3017570 Score: 61
Period size: 10 Copynumber: 5.7 Consensus size: 10
3017501 ATTTATTAAT
3017511 ATAAAAATAAAA
1 ATAAAAAT--AA
3017523 ATAAAAATAA
1 ATAAAAATAA
3017533 A-ATAAAAT-A
1 ATA-AAAATAA
3017542 ATAAATAATAA
1 ATAAA-AATAA
3017553 ATAATAAATAA
1 ATAA-AAATAA
3017564 ATAAAAA
1 ATAAAAA
3017571 GATTGGGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
9 5 0.12
10 15 0.35
11 14 0.33
12 9 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:3024031 original size:27 final size:26
Alignment explanation
Indices: 3024001--3024062 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
3023991 AGATAATTAA
3024001 AATAAAATCCTAA-ATGTGAATAATCCT
1 AATAAAATCCTAATAT-T-AATAATCCT
* * *
3024028 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAATATTAATAATCCT
3024055 AATAAAAT
1 AATAAAAT
3024063 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 7 0.24
29 2 0.07
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAATATTAATAATCCT
Found at i:3024500 original size:47 final size:48
Alignment explanation
Indices: 3024446--3024577 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 48
3024436 CACAATCGAT
* *
3024446 AAGTACCTATACCATGACCCATAGCCAAATCAAGGTAACTTATCCCAG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAG
* ** *
3024494 -AGTACCTATACCATGGCTCATAGCCAAATCAAGGTAACTCATTTCTG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAG
* *
3024541 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
3024578 TCACTCGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 41 0.55
48 33 0.45
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAG
Found at i:3025640 original size:40 final size:40
Alignment explanation
Indices: 3025578--3025653 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
3025568 GCTATACTAG
* *
3025578 CATTAGTGGCGTTTGTTGT-AAAACGCCGCAATATATCTGT
1 CATTAGCGGCGTTTGTAGTAAAAACGCCGCAA-ATATCTGT
3025618 CATTAGCGGCGTTT-TAGCTAAAAACGCCGCAAATAT
1 CATTAGCGGCGTTTGTAG-TAAAAACGCCGCAAATAT
3025654 GTTTAAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.06
40 18 0.56
41 12 0.38
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (40 bp):
CATTAGCGGCGTTTGTAGTAAAAACGCCGCAAATATCTGT
Found at i:3026320 original size:21 final size:22
Alignment explanation
Indices: 3026275--3026330 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
3026265 TAAGGGTTGG
* * **
3026275 GGTTTAAGGGTTATGGGTTTGT
1 GGTTTAGGGGTTATGGATTAAT
3026297 GG-TTAGGGGTTATGGATTAAT
1 GGTTTAGGGGTTATGGATTAAT
*
3026318 GGTTTAGGTGTTA
1 GGTTTAGGGGTTA
3026331 AGGCTTAGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (22 bp):
GGTTTAGGGGTTATGGATTAAT
Found at i:3026352 original size:29 final size:29
Alignment explanation
Indices: 3026320--3026379 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
3026310 GGATTAATGG
* *
3026320 TTTA-GGTGTTAAGGCTTAGGGGTTATTGT
1 TTTATGGT-TTAAGGCTTAGGGGATATAGT
* *
3026349 TTTATGGTTTAGGGTTTAGGGGATATAGT
1 TTTATGGTTTAAGGCTTAGGGGATATAGT
3026378 TT
1 TT
3026380 AGGGTACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (29 bp):
TTTATGGTTTAAGGCTTAGGGGATATAGT
Found at i:3026561 original size:29 final size:29
Alignment explanation
Indices: 3026502--3026577 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
3026492 AATTCATACA
* * * *
3026502 TTTTGT-GTTTAAGGCTTAGGGGTTATTG
1 TTTTGTGGTTTAAGGTTTAAGGGATATAG
*
3026530 TTTTGTGGTTTATGGTTTAAGGGATATAG
1 TTTTGTGGTTTAAGGTTTAAGGGATATAG
**
3026559 TTTAATGGTTTAAGGTTTA
1 TTTTGTGGTTTAAGGTTTA
3026578 GGGTTTTGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (29 bp):
TTTTGTGGTTTAAGGTTTAAGGGATATAG
Found at i:3026583 original size:22 final size:21
Alignment explanation
Indices: 3026536--3026583 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
3026526 ATTGTTTTGT
*
3026536 GGTTTATGGTTTAAGGGATAT
1 GGTTTATGGTTTAAGGGATAG
* **
3026557 AGTTTAATGGTTTAAGGTTTAG
1 GGTTT-ATGGTTTAAGGGATAG
3026579 GGTTT
1 GGTTT
3026584 TGATTAATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
GGTTTATGGTTTAAGGGATAG
Found at i:3028769 original size:25 final size:25
Alignment explanation
Indices: 3028736--3028807 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
3028726 TAGTCCTCCG
* *
3028736 CATCGTCGTCGGCAGCCCTCTGCTA
1 CATCTTCGTCGGCATCCCTCTGCTA
* *
3028761 CATTTTCGTCAGCATCCCTCTGCTA
1 CATCTTCGTCGGCATCCCTCTGCTA
* *
3028786 CATCTCCGTCGACATCCCTCTG
1 CATCTTCGTCGGCATCCCTCTG
3028808 TTGCTTCTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.14, C:0.40, G:0.17, T:0.29
Consensus pattern (25 bp):
CATCTTCGTCGGCATCCCTCTGCTA
Found at i:3029396 original size:2 final size:2
Alignment explanation
Indices: 3029391--3029415 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3029381 ATATATATAT
3029391 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
3029416 ACAAACATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3029527 original size:23 final size:23
Alignment explanation
Indices: 3029497--3029541 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3029487 AAGTATTTTC
* *
3029497 TTAAGAAATTTTATTTGATAATG
1 TTAAGAAAATTCATTTGATAATG
3029520 TTAAGAAAATTCATTTGATAAT
1 TTAAGAAAATTCATTTGATAAT
3029542 AATAATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (23 bp):
TTAAGAAAATTCATTTGATAATG
Found at i:3030258 original size:9 final size:9
Alignment explanation
Indices: 3030246--3030534 Score: 232
Period size: 9 Copynumber: 32.6 Consensus size: 9
3030236 CATATCATAT
3030246 CATAACTTA
1 CATAACTTA
*
3030255 CATAATTTA
1 CATAACTTA
3030264 CATAACTTA
1 CATAACTTA
*
3030273 TATAACTTA
1 CATAACTTA
* *
3030282 GATAA-ATA
1 CATAACTTA
*
3030290 TATAACTTA
1 CATAACTTA
3030299 CATAACTTA
1 CATAACTTA
*
3030308 CATAA-ATA
1 CATAACTTA
*
3030316 TATAACTTA
1 CATAACTTA
3030325 CATAACTTA
1 CATAACTTA
*
3030334 CATAA-ATA
1 CATAACTTA
* * *
3030342 TATATCATA
1 CATAACTTA
3030351 TCATAACTTA
1 -CATAACTTA
3030361 CATAACTTA
1 CATAACTTA
3030370 CATAACTTA
1 CATAACTTA
*
3030379 TATAACTTA
1 CATAACTTA
* *
3030388 GATAA-ATA
1 CATAACTTA
*
3030396 TATAACTTA
1 CATAACTTA
3030405 CATAAC-TA
1 CATAACTTA
* * *
3030413 TATATCATA
1 CATAACTTA
*
3030422 TCATAGCTTA
1 -CATAACTTA
3030432 CATAACTTA
1 CATAACTTA
*
3030441 TATAACTTA
1 CATAACTTA
* *
3030450 GATAA-ATA
1 CATAACTTA
*
3030458 TATAACTTA
1 CATAACTTA
3030467 CATAACTTA
1 CATAACTTA
*
3030476 CATAA-ATA
1 CATAACTTA
* * *
3030484 TATATCATA
1 CATAACTTA
*
3030493 TCATATCTTA
1 -CATAACTTA
3030503 CATAACTTA
1 CATAACTTA
*
3030512 CAAAACTTA
1 CATAACTTA
*
3030521 CTTAACTTA
1 CATAACTTA
3030530 CATAA
1 CATAA
3030535 TACATAAATA
Statistics
Matches: 224, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
8 40 0.18
9 165 0.74
10 19 0.08
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:3030377 original size:71 final size:71
Alignment explanation
Indices: 3030242--3030521 Score: 350
Period size: 71 Copynumber: 3.9 Consensus size: 71
3030232 ATATCATATC
* * * * * * *
3030242 ATATCATAACTTACATAATTTACATAACTTATATAACTTA-GATAA-ATATATAACTTACATAAC
1 ATAT-ATAACTTACATAACTTACATAA-ATATATATCATATCATAACTTACATAACTTACATAAC
3030305 TTACATAA
64 TTACATAA
3030313 ATATATAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTT
1 ATATATAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTT
*
3030378 ATATAA
66 ACATAA
* * * * * * *
3030384 CTTAGATAA-ATATATAACTTACATAACTATATATCATATCATAGCTTACATAACTTATATAACT
1 -ATATATAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACT
*
3030448 TAGATAA
65 TACATAA
* *
3030455 ATATATAACTTACATAACTTACATAAATATATATCATATCATATCTTACATAACTTACAAAACTT
1 ATATATAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTT
3030520 AC
66 AC
3030522 TTAACTTACA
Statistics
Matches: 180, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
69 9 0.05
70 31 0.17
71 134 0.74
72 6 0.03
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (71 bp):
ATATATAACTTACATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATAACTT
ACATAA
Found at i:3030463 original size:106 final size:106
Alignment explanation
Indices: 3030237--3030480 Score: 359
Period size: 106 Copynumber: 2.3 Consensus size: 106
3030227 AATATATATC
* *
3030237 ATATCATATCATAACTTACATAATTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
1 ATATAATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
*
3030302 AACTTACATAAATATATAACTTACATAACTTACATAAATAT
66 AACTTACATAAATATATAACTTACATAACTTACATAAATAG
*
3030343 ATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
1 ATATAATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
* * * * *
3030408 AAC-TATATATCATATCATAGCTTACATAACTTATATAACTTAG
66 AACTTACATA-AATAT-ATAACTTACATAACTTACATAA-ATAG
3030451 ATA-AATAT-ATAACTTACATAACTTACATAA
1 ATATAATATCATAACTTACATAACTTACATAA
3030481 ATATATATCA
Statistics
Matches: 127, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
105 5 0.04
106 93 0.73
107 24 0.19
108 5 0.04
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (106 bp):
ATATAATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAT
AACTTACATAAATATATAACTTACATAACTTACATAAATAG
Found at i:3030472 original size:26 final size:26
Alignment explanation
Indices: 3030242--3030534 Score: 128
Period size: 26 Copynumber: 11.0 Consensus size: 26
3030232 ATATCATATC
*
3030242 ATATCATAACTTACATAATTTACATAA
1 ATAT-ATAACTTACATAACTTACATAA
* * * *
3030269 CTTATATAACTTAGATAA-ATATATAA
1 -ATATATAACTTACATAACTTACATAA
* * * *
3030295 CTTACATAACTTACATAA-ATATATAA
1 -ATATATAACTTACATAACTTACATAA
* * * * *
3030321 CTTACATAACTTACATAA-ATATATATC
1 -ATATATAACTTACATAACTTACATA-A
3030348 ATATCATAACTTACATAACTTACATAA
1 ATAT-ATAACTTACATAACTTACATAA
* * * *
3030375 CTTATATAACTTAGATAA-ATATATAA
1 -ATATATAACTTACATAACTTACATAA
* * * * * *
3030401 CTTACATAAC-TATATATCATATCATAGC
1 -ATATATAACTTACATAACTTA-CATA-A
* * * *
3030429 TTACATAACTTATATAACTTAGATAA
1 ATATATAACTTACATAACTTACATAA
3030455 ATATATAACTTACATAACTTACATAA
1 ATATATAACTTACATAACTTACATAA
* * *
3030481 ATATATATCATATCATATCTTACATAA
1 ATATATAACTTA-CATAACTTACATAA
* * * *
3030508 CTTACAAAACTTACTTAACTTACATAA
1 -ATATATAACTTACATAACTTACATAA
3030535 TACATAAATA
Statistics
Matches: 216, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
25 5 0.02
26 107 0.50
27 77 0.36
28 27 0.12
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (26 bp):
ATATATAACTTACATAACTTACATAA
Found at i:3033593 original size:26 final size:26
Alignment explanation
Indices: 3033557--3033640 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
3033547 CATGAAATTC
3033557 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3033583 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
3033609 TTATCATGGAACATTTGCCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3033635 TTATCA
1 TTATCA
3033641 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3039672 original size:25 final size:24
Alignment explanation
Indices: 3039644--3039691 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
3039634 TCATTTAATA
*
3039644 TTTTTATCTATTTTATTAATTTTGC
1 TTTTTATCTATATTATT-ATTTTGC
* *
3039669 TTTTTTTTTATATTATTATTTTG
1 TTTTTATCTATATTATTATTTTG
3039692 AAGTTGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTTATCTATATTATTATTTTGC
Found at i:3040825 original size:131 final size:131
Alignment explanation
Indices: 3040639--3041101 Score: 648
Period size: 131 Copynumber: 3.6 Consensus size: 131
3040629 TAATTATTCA
* * * * * *
3040639 TTTAAAAATT-TTCAAAACGAAGGCAATATTCGAGGTTTGGGAATTTGGGGAATCGTGCCCAATC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
*
3040703 GTGCTGGGTTGCAATTTCCCGTTTCTTCAAAATAATTGAATATTCCTTTGGAATTTCAATCATGT
66 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTGGAATTTCAATCATGT
3040768 C
131 C
* *
3040769 TTTAAAAATTCTTTAAAACGAAGGCAATGTTTGATGTTTGGCAATTCAGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * * * * *
3040834 GTGCTGGGTTGCGATTTCTCGTTTGTTCAAATTAATCGAACATCCCTTTGGAATTTCATTCATGC
66 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTGGAATTTCAATCATGT
3040899 C
131 C
*
3040900 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* *
3040965 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCATGT
66 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTGGAATTTCAATCATGT
3041030 -
131 C
* * * * * * *
3041030 TTTCAAGATTC--TAAAGCG-AGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
3041092 GTGCTGGGTT
66 GTGCTGGGTT
3041102 TCGATTTTTT
Statistics
Matches: 295, Mismatches: 37, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
127 49 0.17
128 6 0.02
130 19 0.06
131 221 0.75
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTGGAATTTCAATCATGT
C
Found at i:3041957 original size:13 final size:14
Alignment explanation
Indices: 3041941--3041972 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
3041931 TTATTATAAA
3041941 TAATTATAAT-GTT
1 TAATTATAATGGTT
3041954 TAATTATAATGGTT
1 TAATTATAATGGTT
3041968 TAATT
1 TAATT
3041973 CGCCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:3042665 original size:33 final size:33
Alignment explanation
Indices: 3042617--3042695 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 33
3042607 TCATTTAATG
* *
3042617 TTTTTTGTTGCATTTTTTATGCTATATTTGCTA
1 TTTTTGGTTGGATTTTTTATGCTATATTTGCTA
* *
3042650 TTTTTGGTTGGA--TTTTATGTTATATTTGCTG
1 TTTTTGGTTGGATTTTTTATGCTATATTTGCTA
*
3042681 TTTTTGGTTCGATTT
1 TTTTTGGTTGGATTT
3042696 AATGCAGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 28 0.72
33 11 0.28
ACGTcount: A:0.13, C:0.06, G:0.18, T:0.63
Consensus pattern (33 bp):
TTTTTGGTTGGATTTTTTATGCTATATTTGCTA
Found at i:3042674 original size:31 final size:31
Alignment explanation
Indices: 3042631--3042700 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
3042621 TTGTTGCATT
*
3042631 TTTTATGCTATATTTGCTATTTTTGGTTGGA
1 TTTTATGCTATATTTGCTATTTTTGGTTCGA
* *
3042662 TTTTATGTTATATTTGCTGTTTTTGGTTCGA
1 TTTTATGCTATATTTGCTATTTTTGGTTCGA
*
3042693 TTTAATGC
1 TTTTATGC
3042701 AGGAAGGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.16, C:0.07, G:0.19, T:0.59
Consensus pattern (31 bp):
TTTTATGCTATATTTGCTATTTTTGGTTCGA
Found at i:3051595 original size:29 final size:29
Alignment explanation
Indices: 3051534--3051599 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
3051524 ATGTGGCCTC
* *
3051534 TGTTATATGTGAGCCCTAGTTGCAAAATC
1 TGTTATATGTGAGCCCTAGTGGCAAAATA
* * **
3051563 TGTTATATGTGAGCCTTTGTGGCTGAATA
1 TGTTATATGTGAGCCCTAGTGGCAAAATA
3051592 TGTTATAT
1 TGTTATAT
3051600 ACGGAAGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (29 bp):
TGTTATATGTGAGCCCTAGTGGCAAAATA
Found at i:3054116 original size:24 final size:24
Alignment explanation
Indices: 3054071--3054116 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
3054061 TAATATTTAG
** *
3054071 TATTTATTAGCATAGTATATTTGA
1 TATTTATTAGCATAAAACATTTGA
*
3054095 TATTTATTAGTATAAAACATTT
1 TATTTATTAGCATAAAACATTT
3054117 TTTATTTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
TATTTATTAGCATAAAACATTTGA
Found at i:3057509 original size:39 final size:39
Alignment explanation
Indices: 3057455--3057529 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
3057445 TGTATAAGTC
*
3057455 AATAGCGACACGACTTGATATTATGTACACAGTTGATTT
1 AATAGCAACACGACTTGATATTATGTACACAGTTGATTT
*
3057494 AATAGCAACACGACTTGATATTATGTACGCAGTTGA
1 AATAGCAACACGACTTGATATTATGTACACAGTTGA
3057530 CTTGTTAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (39 bp):
AATAGCAACACGACTTGATATTATGTACACAGTTGATTT
Found at i:3058182 original size:18 final size:18
Alignment explanation
Indices: 3058159--3058204 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
3058149 CAAACACACT
3058159 TGGCGAACTCTCCAAGAA
1 TGGCGAACTCTCCAAGAA
* * *
3058177 TGGCGAACTCTTCGAGAG
1 TGGCGAACTCTCCAAGAA
3058195 TGGCGAACTC
1 TGGCGAACTC
3058205 ACAGCACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (18 bp):
TGGCGAACTCTCCAAGAA
Found at i:3060015 original size:21 final size:20
Alignment explanation
Indices: 3059989--3060033 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
3059979 TTGCACATTT
3059989 TTTTTAATTCAATTCAATTCA
1 TTTTTAATTCAATTCAATT-A
* *
3060010 TTTTTAATTTAATTTAATTA
1 TTTTTAATTCAATTCAATTA
3060030 TTTT
1 TTTT
3060034 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATTCAATTCAATTA
Found at i:3060341 original size:3 final size:3
Alignment explanation
Indices: 3060335--3060392 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
3060325 GTTACCATCA
*
3060335 AAG AAG -AG AAG -AG CAG AACG ACAG A-G AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AA-G A-AG AAG AAG AAG AAG AAG AAG AAG
*
3060379 AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AA
3060393 ATGGATGCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 4 0.09
5 1 0.02
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3060880 original size:14 final size:15
Alignment explanation
Indices: 3060862--3060905 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
3060852 ATTAATTTAG
3060862 AAAATTCAATTAATT
1 AAAATTCAATTAATT
* *
3060877 -AAATTTATTTAATT
1 AAAATTCAATTAATT
*
3060891 AAAAATCAATTAATT
1 AAAATTCAATTAATT
3060906 TACTTGGTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTCAATTAATT
Found at i:3061496 original size:30 final size:29
Alignment explanation
Indices: 3061434--3061498 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
3061424 ATAGTAAAAT
* *
3061434 AGTCACTAAACTTTGAAAAGTTACAACTC
1 AGTCACTAAACTTTGAAAAATAACAACTC
3061463 AGTCACTAAACTTTAGAAAAATAACAAAC-C
1 AGTCACTAAACTTT-GAAAAATAAC-AACTC
3061493 AGTCAC
1 AGTCAC
3061499 CAATAACCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 14 0.44
30 15 0.47
31 3 0.09
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (29 bp):
AGTCACTAAACTTTGAAAAATAACAACTC
Found at i:3062337 original size:30 final size:31
Alignment explanation
Indices: 3062303--3062375 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
3062293 TTTGATAACA
* **
3062303 TTAGTGACTGTTTTGTTATTTTTGT-AAAGT
1 TTAGTGACTATTTTGTTATTTTAATCAAAGT
3062333 TTAGTGACTATTTTGTTATTTTAATCAAAGT
1 TTAGTGACTATTTTGTTATTTTAATCAAAGT
*
3062364 TGAGTGACTATT
1 TTAGTGACTATT
3062376 GGTGTACTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 22 0.58
31 16 0.42
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (31 bp):
TTAGTGACTATTTTGTTATTTTAATCAAAGT
Found at i:3065095 original size:27 final size:27
Alignment explanation
Indices: 3065057--3065111 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3065047 ATATATTTTT
*
3065057 TACCCCCATTTTCATCTAGTTTGACTA
1 TACCCCCATTTTCATCTAGTTTAACTA
3065084 TACCCCCATTTTCATCTAGTTTAACTA
1 TACCCCCATTTTCATCTAGTTTAACTA
3065111 T
1 T
3065112 CTTTAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (27 bp):
TACCCCCATTTTCATCTAGTTTAACTA
Found at i:3068379 original size:10 final size:10
Alignment explanation
Indices: 3068364--3068391 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3068354 ATATTACATG
3068364 TTTACTTTGT
1 TTTACTTTGT
3068374 TTTACTTTGT
1 TTTACTTTGT
3068384 TTTACTTT
1 TTTACTTT
3068392 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:3073381 original size:15 final size:15
Alignment explanation
Indices: 3073361--3073390 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3073351 TTCCTTATTA
*
3073361 TGTCTTTTATATTTT
1 TGTCTTTCATATTTT
3073376 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
3073391 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (15 bp):
TGTCTTTCATATTTT
Found at i:3075016 original size:29 final size:29
Alignment explanation
Indices: 3074981--3075040 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
3074971 TTTAATATAT
3074981 TTAATATTAAATTTAATTTAATACTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
* **
3075010 TTAATATTGAATTTAATTTAATGTTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
3075039 TT
1 TT
3075041 GTAGATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (29 bp):
TTAATATTAAATTTAATTTAATACTTATC
Found at i:3076659 original size:30 final size:30
Alignment explanation
Indices: 3076607--3076664 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3076597 CACGGCCAGG
* * *
3076607 ACACACGGGCGTGTGCTCTACCCGTGTGTC
1 ACACACAGGCGTGTGATCTACCCATGTGTC
3076637 ACACACAGGCGTGTGGAT-TACCCATGTG
1 ACACACAGGCGTGT-GATCTACCCATGTG
3076665 GAATTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.22
Consensus pattern (30 bp):
ACACACAGGCGTGTGATCTACCCATGTGTC
Found at i:3081765 original size:26 final size:26
Alignment explanation
Indices: 3081735--3081816 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
3081725 TGAAATTCCC
3081735 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
3081761 ATCATGAAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
3081787 ATCATGGAACGTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
3081813 ATCA
1 ATCA
3081817 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:3083508 original size:46 final size:46
Alignment explanation
Indices: 3083458--3083633 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
3083448 TGGTTGAGCA
3083458 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3083504 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
3083549 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3083597 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3083634 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:3083614 original size:93 final size:93
Alignment explanation
Indices: 3083455--3083626 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
3083445 GGATGGTTGA
* *
3083455 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3083520 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
3083548 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3083613 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
3083627 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:3089178 original size:29 final size:29
Alignment explanation
Indices: 3089145--3089208 Score: 121
Period size: 28 Copynumber: 2.2 Consensus size: 29
3089135 TAGGCCGAAA
3089145 TTTCAAGGGTTCTCCATATCTAGGGTTTG
1 TTTCAAGGGTTCTCCATATCTAGGGTTTG
3089174 TTTCAA-GGTTCTCCATATCTAGGGTTTG
1 TTTCAAGGGTTCTCCATATCTAGGGTTTG
3089202 TTTCAAG
1 TTTCAAG
3089209 CTTCCAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (29 bp):
TTTCAAGGGTTCTCCATATCTAGGGTTTG
Found at i:3090101 original size:46 final size:46
Alignment explanation
Indices: 3090051--3090226 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
3090041 TGGTTGAGCA
3090051 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3090097 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
3090142 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3090190 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3090227 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:3090207 original size:93 final size:93
Alignment explanation
Indices: 3090048--3090219 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
3090038 GGATGGTTGA
* *
3090048 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3090113 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
3090141 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3090206 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
3090220 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:3094800 original size:9 final size:10
Alignment explanation
Indices: 3094788--3094812 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3094778 AATAAAAGTT
3094788 AAAAAAATCA
1 AAAAAAATCA
3094798 AAAAAAATCA
1 AAAAAAATCA
3094808 AAAAA
1 AAAAA
3094813 GAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:3094825 original size:11 final size:11
Alignment explanation
Indices: 3094807--3094835 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3094797 AAAAAAAATC
3094807 AAAA-AAGAAA
1 AAAATAAGAAA
3094817 AAAATAAGAAA
1 AAAATAAGAAA
3094828 AAAATAAG
1 AAAATAAG
3094836 TACTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAATAAGAAA
Found at i:3100049 original size:6 final size:6
Alignment explanation
Indices: 3100038--3100075 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
3100028 TAAAAAATAA
3100038 TATATG TATATG TATATG TATATG TATATG TATATG TA
1 TATATG TATATG TATATG TATATG TATATG TATATG TA
3100076 AATAGAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:3107363 original size:21 final size:22
Alignment explanation
Indices: 3107339--3107392 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
3107329 ACATACACGT
3107339 TTTAAAAACTATCGATACTCA-
1 TTTAAAAACTATCGATACTCAG
* *
3107360 TTTAGGAAA-TATTGATACTCAG
1 TTTA-AAAACTATCGATACTCAG
3107382 TTTTAAAAACT
1 -TTTAAAAACT
3107393 CATGCAGCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 15 0.58
22 6 0.23
23 5 0.19
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (22 bp):
TTTAAAAACTATCGATACTCAG
Found at i:3108025 original size:37 final size:37
Alignment explanation
Indices: 3107984--3108059 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
3107974 ACTTGCACAC
3107984 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
1 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
3108021 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
1 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
3108058 TT
1 TT
3108060 CTTGAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (37 bp):
TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
Found at i:3110288 original size:22 final size:22
Alignment explanation
Indices: 3110260--3110326 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
3110250 TGCACAAACG
*
3110260 ACAGAGAGCACTAAAGTGCTAT
1 ACAGAGAGCACTAAAGTGCTAA
3110282 ACAGAGAGCA--AAGATGTGCTAA
1 ACAGAGAGCACTAA-A-GTGCTAA
*
3110304 ACAGAGAGCACTTAACGTGCTAA
1 ACAGAGAGCAC-TAAAGTGCTAA
3110327 TAATAGAACG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 2 0.05
21 1 0.03
22 26 0.68
23 7 0.18
25 2 0.05
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCACTAAAGTGCTAA
Found at i:3111496 original size:7 final size:7
Alignment explanation
Indices: 3111486--3111574 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
3111476 TACTTATGTT
3111486 TTATATA
1 TTATATA
3111493 -T-TATA
1 TTATATA
3111498 TTATATA
1 TTATATA
*
3111505 TAATATA
1 TTATATA
*
3111512 ATA-ATA
1 TTATATA
*
3111518 TGATATA
1 TTATATA
3111525 TTATATA
1 TTATATA
3111532 TTA-ATA
1 TTATATA
*
3111538 CTTAAATA
1 -TTATATA
3111546 TTA-A-A
1 TTATATA
3111551 TTAATATA
1 TT-ATATA
*
3111559 ATATATA
1 TTATATA
*
3111566 ATATATA
1 TTATATA
3111573 TT
1 TT
3111575 TTTATATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 7 0.11
6 11 0.17
7 43 0.65
8 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:3111523 original size:20 final size:20
Alignment explanation
Indices: 3111495--3111537 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3111485 TTTATATATT
*
3111495 ATATTATATATAATATAATA
1 ATATGATATATAATATAATA
* *
3111515 ATATGATATATTATATATTA
1 ATATGATATATAATATAATA
3111535 ATA
1 ATA
3111538 CTTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATATAATATAATA
Found at i:3113576 original size:21 final size:19
Alignment explanation
Indices: 3113550--3113594 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
3113540 AAAAAGTATT
3113550 GATACCCATATGATTTTTATC
1 GATACCCAT-T-ATTTTTATC
*
3113571 GATA-CCATTCTTTTTATC
1 GATACCCATTATTTTTATC
3113589 GATACC
1 GATACC
3113595 AAAGTTGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 4 0.18
21 4 0.18
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (19 bp):
GATACCCATTATTTTTATC
Found at i:3116432 original size:16 final size:16
Alignment explanation
Indices: 3116411--3116442 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3116401 AAATTCATTC
3116411 GATTACTTGATGGATG
1 GATTACTTGATGGATG
3116427 GATTACTTGATGGATG
1 GATTACTTGATGGATG
3116443 TACAGATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
GATTACTTGATGGATG
Found at i:3123483 original size:23 final size:25
Alignment explanation
Indices: 3123456--3123505 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
3123446 AAGCTAAGGA
*
3123456 TAATA-TTTATATTATTAAA-ATAT
1 TAATATTTTATACTATTAAATATAT
*
3123479 TAATATTTTGTACTATTAAATATAT
1 TAATATTTTATACTATTAAATATAT
3123504 TA
1 TA
3123506 TAATTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTTTATACTATTAAATATAT
Done.