Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 42 of 325
Found at i:15443417 original size:32 final size:30
Alignment explanation
Indices: 15443375--15443445 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
15443365 CTACTTTTAT
*
15443375 ATAAATTATTTTACTTCATA-AATCTTAAATTC
1 ATAATTTATTTTAC-TCATACAA-CTT-AATTC
*
15443407 ATAATTTATTTTTCTCATACTAACTTAATTC
1 ATAATTTATTTTACTCATAC-AACTTAATTC
15443438 ATAATTTA
1 ATAATTTA
15443446 GTTCATACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 18 0.51
32 15 0.43
33 2 0.06
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (30 bp):
ATAATTTATTTTACTCATACAACTTAATTC
Found at i:15445177 original size:16 final size:16
Alignment explanation
Indices: 15445156--15445186 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15445146 TTTATTATTT
15445156 TATTAACATAATATAA
1 TATTAACATAATATAA
*
15445172 TATTAATATAATATA
1 TATTAACATAATATA
15445187 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:15457804 original size:50 final size:50
Alignment explanation
Indices: 15457680--15457928 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
15457670 GATAATAACA
* * ** * *
15457680 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
15457731 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15457781 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
15457831 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
15457886 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15457929 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:15457858 original size:100 final size:104
Alignment explanation
Indices: 15457679--15457928 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
15457669 TGATAATAAC
**
15457679 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
15457744 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
15457781 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
15457844 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
15457886 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15457929 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:15458044 original size:13 final size:13
Alignment explanation
Indices: 15458023--15458054 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15458013 GCTTGGATCA
*
15458023 TCATCAAATAAAT
1 TCATAAAATAAAT
15458036 TCATAAAATAAAT
1 TCATAAAATAAAT
15458049 TCATAA
1 TCATAA
15458055 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15458301 original size:30 final size:30
Alignment explanation
Indices: 15458266--15458323 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15458256 CCTCGACTCT
*
15458266 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
15458296 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
15458324 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:15460828 original size:23 final size:23
Alignment explanation
Indices: 15460781--15460828 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
15460771 CCACCTGCGT
*
15460781 TGTCTCAAATTCAAATCTTTCTG
1 TGTCTCAAATTCAAAGCTTTCTG
15460804 TGTCATCAATATTC-AAGCTTT-TG
1 TGTC-TCAA-ATTCAAAGCTTTCTG
15460827 TG
1 TG
15460829 ATCAGTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 8 0.36
24 10 0.45
25 4 0.18
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (23 bp):
TGTCTCAAATTCAAAGCTTTCTG
Found at i:15465386 original size:50 final size:50
Alignment explanation
Indices: 15465262--15465510 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
15465252 GATAATAACA
* * ** * *
15465262 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
15465313 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15465363 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
15465413 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
15465468 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15465511 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:15465440 original size:100 final size:104
Alignment explanation
Indices: 15465261--15465510 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
15465251 TGATAATAAC
**
15465261 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
15465326 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
15465363 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
15465426 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
15465468 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15465511 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:15465625 original size:13 final size:13
Alignment explanation
Indices: 15465604--15465635 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15465594 GCTTGGATCA
*
15465604 TCATCAAATAAAT
1 TCATAAAATAAAT
15465617 TCATAAAATAAAT
1 TCATAAAATAAAT
15465630 TCATAA
1 TCATAA
15465636 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15465883 original size:29 final size:30
Alignment explanation
Indices: 15465845--15465904 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15465835 GCCCTCGACT
*
15465845 CTAAA-TTTTTCAAAATTACAATTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
* *
15465874 CTAAACTTTTACATAATTACATTTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
15465904 C
1 C
15465905 AAGGCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (30 bp):
CTAAACTTTTACAAAATTACAATTTTGCCC
Found at i:15470252 original size:29 final size:29
Alignment explanation
Indices: 15470209--15470266 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
15470199 ACTAAGCCAG
*
15470209 ACAAAACAG-CCCCCCTCATGATTAATACC
1 ACAAAACAGACCCCCC-AATGATTAATACC
*
15470238 ACAAAACAGATCCCCCAATGATTAATACC
1 ACAAAACAGACCCCCCAATGATTAATACC
15470267 TATGTGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.17
Consensus pattern (29 bp):
ACAAAACAGACCCCCCAATGATTAATACC
Found at i:15470434 original size:28 final size:28
Alignment explanation
Indices: 15470381--15470439 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
15470371 TTTTTATTTT
** *
15470381 TTAAATTTTAAAATTTGATTCTAG-TTA
1 TTAAATTTTAAAATTAAATTCAAGTTTA
*
15470408 TTAAATTTTAAAAATTAAATTGAAGTTTA
1 TTAAATTTT-AAAATTAAATTCAAGTTTA
15470437 TTA
1 TTA
15470440 TAACATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 9 0.35
28 11 0.42
29 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (28 bp):
TTAAATTTTAAAATTAAATTCAAGTTTA
Found at i:15470594 original size:29 final size:30
Alignment explanation
Indices: 15470544--15470611 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
15470534 ATTGGACCTG
* *
15470544 AAATTTA-AAATTTGAAAAATAAATGA-ATT
1 AAATTTATAAAATTGAAAAATAAA-GAGACT
*
15470573 AAATTTATAAAATT-AAATATAAAGAGACT
1 AAATTTATAAAATTGAAAAATAAAGAGACT
15470602 AAA-TTATAAA
1 AAATTTATAAA
15470612 TTTTCAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 9 0.26
29 20 0.59
30 5 0.15
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATTTATAAAATTGAAAAATAAAGAGACT
Found at i:15479967 original size:30 final size:28
Alignment explanation
Indices: 15479899--15479969 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
15479889 TTTTCACAAA
* *
15479899 TTTAAAATTTAATCATTGTATTTTTATT
1 TTTAAAATTTAGTCATTGTATTTTTAAT
* *
15479927 TTTAAGAATTTAGTCCTTTTACTTTTTAGAT
1 TTTAA-AATTTAGTCATTGTA-TTTTTA-AT
15479958 TTTAAAATTTAG
1 TTTAAAATTTAG
15479970 GTTCAGTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.14
29 12 0.33
30 13 0.36
31 6 0.17
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (28 bp):
TTTAAAATTTAGTCATTGTATTTTTAAT
Found at i:15481525 original size:23 final size:23
Alignment explanation
Indices: 15481495--15481538 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
15481485 TACCTTCTAA
*
15481495 TCTCACTTTATCTTGATATTCGG
1 TCTCACTTTATATTGATATTCGG
15481518 TCTCACTTTATATTGATATTC
1 TCTCACTTTATATTGATATTC
15481539 CCTTAAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.50
Consensus pattern (23 bp):
TCTCACTTTATATTGATATTCGG
Found at i:15483544 original size:5 final size:5
Alignment explanation
Indices: 15483534--15483612 Score: 115
Period size: 5 Copynumber: 15.6 Consensus size: 5
15483524 AATAATTAAG
15483534 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TA-TAT TATAT
* *
15483586 TATAT TATAT TATTT TATTT TA-AT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
15483613 GGAATAACAT
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
4 3 0.04
5 56 0.81
6 10 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:15483567 original size:21 final size:20
Alignment explanation
Indices: 15483534--15483612 Score: 115
Period size: 21 Copynumber: 3.9 Consensus size: 20
15483524 AATAATTAAG
15483534 TATATTATATTATATTATAT
1 TATATTATATTATATTATAT
15483554 TATATTATTATTATATTATAT
1 TATATTA-TATTATATTATAT
15483575 TATTATTATATTATATTATAT
1 TA-TATTATATTATATTATAT
* *
15483596 TATTTTATTTTA-ATTAT
1 TATATTATATTATATTAT
15483613 GGAATAACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
19 5 0.09
20 15 0.27
21 30 0.55
22 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATTATATTATATTATAT
Found at i:15484698 original size:5 final size:5
Alignment explanation
Indices: 15484688--15484712 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15484678 AATTAAGTAC
15484688 ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT
15484713 TATATATAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:15484787 original size:31 final size:30
Alignment explanation
Indices: 15484752--15484812 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
15484742 GAAACAGAAT
*
15484752 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
15484783 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
15484813 AATAACGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:15486142 original size:39 final size:40
Alignment explanation
Indices: 15486035--15486147 Score: 106
Period size: 38 Copynumber: 2.9 Consensus size: 40
15486025 GACCTCGAGT
* **
15486035 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGAATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGAATAGAGC
** ** **
15486076 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAATAGAGC
15486114 CGATGAGACACTGGGTGTCAACTATTACTTCGAA
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAA
15486148 CTATCTGATG
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
38 19 0.35
39 18 0.33
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAATAGAGC
Found at i:15493679 original size:32 final size:32
Alignment explanation
Indices: 15493638--15493703 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
15493628 TCCCGACCCA
15493638 ATTCTAACATTCATTTTGGGCCTCGAGGGTCT
1 ATTCTAACATTCATTTTGGGCCTCGAGGGTCT
15493670 ATTCTAACATTCATTTTGGGCCTCGAGGGTCT
1 ATTCTAACATTCATTTTGGGCCTCGAGGGTCT
15493702 AT
1 AT
15493704 CCTAGGGACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
ATTCTAACATTCATTTTGGGCCTCGAGGGTCT
Found at i:15493999 original size:22 final size:23
Alignment explanation
Indices: 15493973--15494018 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15493963 CAACCAATCC
15493973 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15493995 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15494018 A
1 A
15494019 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15494024 original size:23 final size:23
Alignment explanation
Indices: 15493980--15494024 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15493970 TCCAATTCAA
*
15493980 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15494003 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15494025 CACATACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:15497718 original size:38 final size:39
Alignment explanation
Indices: 15497634--15497768 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
15497624 ACCAATATGG
*
15497634 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
15497673 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
15497711 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
15497752 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15497769 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:15499347 original size:5 final size:5
Alignment explanation
Indices: 15499329--15499359 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
15499319 TTTCTTTTAT
15499329 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
15499360 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:15500023 original size:46 final size:46
Alignment explanation
Indices: 15499956--15500363 Score: 683
Period size: 46 Copynumber: 8.9 Consensus size: 46
15499946 GCTTTCTGAA
* * *
15499956 ATGAAATGTGTAAGCCCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
*
15500002 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
15500048 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
*
15500094 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
15500140 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
*
15500186 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
15500232 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
* * *
15500278 ATAAAATGTGTAAGACCAAGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
** * **
15500323 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
15500364 CTGACAGAAA
Statistics
Matches: 343, Mismatches: 19, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
45 34 0.10
46 309 0.90
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
Found at i:15500716 original size:16 final size:17
Alignment explanation
Indices: 15500695--15500727 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15500685 ACGATGGAGC
15500695 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
15500711 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
15500728 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:15507220 original size:5 final size:5
Alignment explanation
Indices: 15507210--15507237 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15507200 AACAATAAAA
15507210 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15507238 TATGTGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15508796 original size:29 final size:29
Alignment explanation
Indices: 15508755--15508810 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
15508745 AAGTACGTCA
* * * *
15508755 ATTTATTTTTATATTAAATTAATATAATT
1 ATTTATGTATATAATAAATAAATATAATT
*
15508784 ATTTATGTATATAATATATAAATATAA
1 ATTTATGTATATAATAAATAAATATAA
15508811 AATAATATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
ATTTATGTATATAATAAATAAATATAATT
Found at i:15508935 original size:29 final size:27
Alignment explanation
Indices: 15508872--15508935 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
15508862 TTAAAATACA
*
15508872 TATATAAAATTACATGGAATCAAAATT
1 TATATAAAATTACATGAAATCAAAATT
* *
15508899 TATTTATAAAATTACATATAACATCGAAATT
1 TA--TATAAAATTACAT-GAA-ATCAAAATT
15508930 TATATA
1 TATATA
15508936 TTCCCTTGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.07
29 17 0.57
30 1 0.03
31 10 0.33
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (27 bp):
TATATAAAATTACATGAAATCAAAATT
Found at i:15513795 original size:41 final size:41
Alignment explanation
Indices: 15513738--15513819 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
15513728 ATGGGCCGGA
15513738 CTGGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTTGG
1 CTGGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTTGG
15513779 CTGGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTTGG
1 CTGGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTTGG
15513820 ACAAATTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (41 bp):
CTGGGCTCGAGCTTAATAATTTTATTTTGAGTCGAGCTTGG
Found at i:15520306 original size:49 final size:49
Alignment explanation
Indices: 15520233--15520558 Score: 456
Period size: 49 Copynumber: 6.8 Consensus size: 49
15520223 TATGGTCTTA
* * * *
15520233 CACATATTCATATATCGATGCCATAGCCCAGCTATAGTATTACATGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
15520283 CACATATCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
15520332 CACATATCACATATCAATGCCATAGCCCAGCTATGGTCTTACAC---AT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
15520378 ---AT-TCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
15520423 CACATATCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
15520472 CACATATCACATATCGATGCCATAGGCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * *
15520520 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
15520559 TATAGTAGCA
Statistics
Matches: 251, Mismatches: 18, Indels: 18
0.87 0.06 0.06
Matches are distributed among these distances:
42 36 0.14
43 2 0.01
45 2 0.01
46 25 0.10
47 1 0.00
48 15 0.06
49 164 0.65
50 6 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:15520319 original size:91 final size:92
Alignment explanation
Indices: 15520198--15520521 Score: 371
Period size: 91 Copynumber: 3.5 Consensus size: 92
15520188 TTACACATCT
*
15520198 TCACATAAT-GATGCCATAGCCCAGCTATGGTCTTACAC-AT-AT-TCATATATCGATGCCATAG
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAG
15520259 CCCAGCTATAGTATTACATGTAATCACATA
65 CCCAGCTAT-GT-TTACATGTAATCACATA
* *
15520289 TCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCAATGCCA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT--CATATCACATATCGATGCCA
*
15520354 TAGCCCAGCTATG-GT-C-T-T-A-CACATA
62 TAGCCCAGCTATGTTTACATGTAATCACATA
* *
15520379 TTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACGTATCGATGCC
1 -TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT--CATATCACATATCGATGCC
*
15520444 ATAGCCCAGCTATGGTCTTACACGTAATCACATA
61 ATAGCCCAGCTAT-GT-TTACATGTAATCACATA
*
15520478 TCACATATCGATGCCATAGGCCAGCTATGGTCTTACACGAATCA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-AATCA
15520522 CATATCTCAC
Statistics
Matches: 203, Mismatches: 13, Indels: 30
0.83 0.05 0.12
Matches are distributed among these distances:
90 8 0.04
91 108 0.53
92 2 0.01
93 1 0.00
94 4 0.02
95 4 0.02
97 7 0.03
98 63 0.31
99 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (92 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAGC
CCAGCTATGTTTACATGTAATCACATA
Found at i:15520416 original size:140 final size:140
Alignment explanation
Indices: 15520208--15520601 Score: 571
Period size: 140 Copynumber: 2.8 Consensus size: 140
15520198 TCACATAATG
* *
15520208 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAGCTATAGTAT
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAGCTATGGTCT
15520273 TACATGTAATCACATATCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
66 TACATGTAATCACATATCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
15520338 TCACATATCA
131 TCACATATCA
15520348 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAGCTATGGTCT
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAGCTATGGTCT
*
15520413 TACACGTAATCACATATCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
66 TACATGTAATCACATATCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
*
15520478 TCACATATCG
131 TCACATATCA
* * * * *
15520488 ATGCCATAGGCCAGCTATGGTCTTACACGA-ATCACATATCTCACTGATGCCATATCCCAGATAT
1 ATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTAT
* * * * * *
15520552 GGTCTTATATAGT-AGCATATATCAC--ACCGATGCCATATCCCAGATATGGT
61 GGTCTTACAT-GTAATCACATATCACGTATCGATGCCATAGCCCAGCTATGGT
15520602 TTTATACGGA
Statistics
Matches: 232, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
140 165 0.71
141 7 0.03
142 22 0.09
143 1 0.00
144 35 0.15
145 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (140 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAGCTATGGTCT
TACATGTAATCACATATCACGTATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
TCACATATCA
Found at i:15520554 original size:46 final size:47
Alignment explanation
Indices: 15520388--15520601 Score: 173
Period size: 49 Copynumber: 4.5 Consensus size: 47
15520378 ATTCATATAT
* * * * *
15520388 CGATGCCATAGCCCAGCTATGGTCTTACA-CGTAATCACATATCACGTAT
1 CGATGCCATATCCCAGATATGGTCTTACATAG-AAGCACATATCAC--AC
* * * * *
15520437 CGATGCCATAGCCCAGCTATGGTCTTACA-CGTAATCACATATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTACATAG-AAGCACATATCAC--AC
** * * * *
15520486 CGATGCCATAGGCCAGCTATGGTCTTACA-CGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
* * * *
15520532 TGATGCCATATCCCAGATATGGTCTTATATAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
15520579 CGATGCCATATCCCAGATATGGT
1 CGATGCCATATCCCAGATATGGT
15520602 TTTATACGGA
Statistics
Matches: 149, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 25 0.17
47 34 0.23
48 12 0.08
49 78 0.52
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
Found at i:15520617 original size:95 final size:95
Alignment explanation
Indices: 15520207--15520601 Score: 356
Period size: 91 Copynumber: 4.2 Consensus size: 95
15520197 TTCACATAAT
* *
15520207 GATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATAT----ATCGATGCCATAGCCCAGCT
1 GATGCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATCACGATCGATGCCATAGCCCAGAT
* * * * * *
15520266 ATAGTATTACATGTAATCACATATCACGTATC
65 ATGGTCTTACAAGTAAGCACATATCAC-AACC
* * *
15520298 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCAATGCCATAGCCCAGC
1 GATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC-GATCGATGCCATAGCCCAGA
* * *
15520363 TATGGTCTTAC-----A-CATAT-TCATATATC
64 TATGGTCTTACAAGTAAGCACATATCACA-ACC
*
15520389 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACGTATCGATGCCATAGCCCAGC
1 GATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCACG-ATCGATGCCATAGCCCAGA
* * *
15520454 TATGGTCTTACACGTAATCACATATCACATATC
64 TATGGTCTTACAAGTAAGCACATATCACA-ACC
* * *
15520487 GATGCCATAGGCCAGCTATGGTCTTACACGAATCACATATCTC-A-CTGATGCCATATCCCAGAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACGATC-GATGCCATAGCCCAGAT
* *
15520550 ATGGTCTTATATAGT-AGCATATATCAC-ACC
65 ATGGTCTTACA-AGTAAGCACATATCACAACC
* *
15520580 GATGCCATATCCCAGATATGGT
1 GATGCCATAGCCCAGCTATGGT
15520602 TTTATACGGA
Statistics
Matches: 262, Mismatches: 23, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
91 108 0.41
92 6 0.02
93 28 0.11
94 1 0.00
95 36 0.14
96 3 0.01
97 16 0.06
98 64 0.24
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (95 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACGATCGATGCCATAGCCCAGATA
TGGTCTTACAAGTAAGCACATATCACAACC
Found at i:15520701 original size:31 final size:31
Alignment explanation
Indices: 15520634--15520713 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
15520624 CTTGTAGCCG
* *
15520634 AAGCTACCACTATTCACTGATCAGGTAGTCG
1 AAGCTACCACTTTTCACTGATCAGGTAGTCA
*
15520665 GAGCTACCACTTTTCACTGATCAGGTAG-CAA
1 AAGCTACCACTTTTCACTGATCAGGTAGTC-A
15520696 AAGCTACCACTTTTCACT
1 AAGCTACCACTTTTCACT
15520714 TGTCATTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGTCA
Found at i:15520787 original size:50 final size:51
Alignment explanation
Indices: 15520696--15520817 Score: 210
Period size: 50 Copynumber: 2.4 Consensus size: 51
15520686 CAGGTAGCAA
* *
15520696 AAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCG
15520747 AAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCG
*
15520797 AAGCTATCATTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
15520818 TGCCATGGTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 49 0.73
51 18 0.27
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCG
Found at i:15521906 original size:16 final size:18
Alignment explanation
Indices: 15521875--15521909 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
15521865 TAATTAACCC
15521875 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
15521893 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
15521909 C
1 C
15521910 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:15531169 original size:15 final size:15
Alignment explanation
Indices: 15531134--15531174 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
15531124 TATCTCTACT
*
15531134 ATATTAATAT-TAAA
1 ATATTAATATAAAAA
15531148 ATATTAATCATAAAAA
1 ATATTAAT-ATAAAAA
15531164 AT-TTAATATAA
1 ATATTAATATAA
15531175 TAAGATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTAATATAAAAA
Found at i:15549525 original size:12 final size:12
Alignment explanation
Indices: 15549508--15549532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15549498 CCAGGTAATG
15549508 AACGTTGGAGAA
1 AACGTTGGAGAA
15549520 AACGTTGGAGAA
1 AACGTTGGAGAA
15549532 A
1 A
15549533 GTAACTGAAA
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:0.44, C:0.08, G:0.32, T:0.16
Consensus pattern (12 bp):
AACGTTGGAGAA
Found at i:15557672 original size:47 final size:47
Alignment explanation
Indices: 15557605--15557709 Score: 165
Period size: 47 Copynumber: 2.2 Consensus size: 47
15557595 TTACACGGAT
* *
15557605 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
15557652 CACATACCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
15557699 CACATATCACA
1 CACATATCACA
15557710 TTTCTCTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:15561992 original size:20 final size:20
Alignment explanation
Indices: 15561955--15561992 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15561945 TAATGGGGAG
*
15561955 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
15561975 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
15561993 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:15567556 original size:46 final size:46
Alignment explanation
Indices: 15567504--15567731 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
15567494 AGTGTGCTCT
*
15567504 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
15567550 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
15567596 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
15567642 ATGATATGAAATGAACAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
15567688 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
15567732 TCATGTCAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:15569061 original size:23 final size:23
Alignment explanation
Indices: 15569021--15569087 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
15569011 ATTTAAGCAA
* *
15569021 ATAATAATTATTACTAAAATATAAT
1 ATAATAA-TA-TAATAAAATATAAC
*
15569046 ATAATAATATAATAAAACATAAC
1 ATAATAATATAATAAAATATAAC
* *
15569069 ATAAAAATAAAATAAAATA
1 ATAATAATATAATAAAATA
15569088 AAGAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 27 0.75
24 2 0.06
25 7 0.19
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAATAATATAATAAAATATAAC
Found at i:15569907 original size:18 final size:17
Alignment explanation
Indices: 15569866--15569908 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
15569856 TTGAAATGGT
*
15569866 TTGAAATTGTATATTGA
1 TTGAAATTGAATATTGA
*
15569883 TTGGAAATTGAATTATTTA
1 TT-GAAATTGAA-TATTGA
15569902 TTGAAAT
1 TTGAAAT
15569909 ACCCTGTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
TTGAAATTGAATATTGA
Found at i:15570902 original size:31 final size:32
Alignment explanation
Indices: 15570853--15570916 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
15570843 ATATTAAATA
*
15570853 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
15570884 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
15570916 A
1 A
15570917 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:15573543 original size:15 final size:15
Alignment explanation
Indices: 15573520--15573563 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
15573510 TATCAAATTT
15573520 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
15573535 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
15573550 ATATTGATTGAAAT
1 ATATTGATTGAAAT
15573564 ATAATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:15574106 original size:19 final size:18
Alignment explanation
Indices: 15574068--15574107 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
15574058 ATGAAATGAT
15574068 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
15574086 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
15574105 AAA
1 AAA
15574108 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:15576963 original size:20 final size:18
Alignment explanation
Indices: 15576938--15576974 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
15576928 ATTGCTAAGT
15576938 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
15576958 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
15576975 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:15577587 original size:46 final size:46
Alignment explanation
Indices: 15577535--15577710 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
15577525 TGGTTGAGCA
15577535 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
15577581 TTCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
15577626 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15577674 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15577711 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 59 0.55
47 23 0.21
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15577691 original size:93 final size:93
Alignment explanation
Indices: 15577532--15577701 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
15577522 GGATGGTTGA
* **
15577532 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15577597 TGAGTCTGAGTTTGTGAGATGTAACTAG
66 TGAGTCTGAGTTTGTGAGATGTAACTAG
* *
15577625 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15577690 TGAGTCTGAGTT
66 TGAGTCTGAGTT
15577702 CACTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTTGTGAGATGTAACTAG
Found at i:15585298 original size:46 final size:46
Alignment explanation
Indices: 15585238--15585465 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
15585228 TTTGACATGA
* * * * * * *
15585238 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TACCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
15585284 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
15585330 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
15585376 TGTCATGGTATCCTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
15585422 TGCCATGGTATCCTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
15585466 AGAGCACACT
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 160 0.98
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:15587968 original size:21 final size:21
Alignment explanation
Indices: 15587927--15587968 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15587917 AGAAAATGAC
*
15587927 TAAATTGGAAATTAAATTAAT
1 TAAATTGGAAATTAAACTAAT
*
15587948 TAAATATGGAAA-TAAGCTAAT
1 TAAAT-TGGAAATTAAACTAAT
15587969 ATCATCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (21 bp):
TAAATTGGAAATTAAACTAAT
Found at i:15596320 original size:50 final size:50
Alignment explanation
Indices: 15596262--15596366 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
15596252 TTTTAATGTG
15596262 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
15596311 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
15596361 AGTATT
1 AGTATT
15596367 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:15597314 original size:131 final size:130
Alignment explanation
Indices: 15597080--15597471 Score: 529
Period size: 131 Copynumber: 3.0 Consensus size: 130
15597070 TACATATTCA
* * ** *
15597080 TTTAAAAATTCTTTAAAATGAAGGCAATACTCGGTGTTTGGCAATTC-GGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTT-GCAATTCGGGGAATCGTGCCCTATC
* * * * *
15597144 GTGCTGGATTGCGATTT-CTCGTTTATTAAAAAAAAATCGAATATTCCTTTGGGATTTCACTCAT
65 GTGCTGGGTTGCGATTTCCT-GTTTGTT-CAAAATAATCGAATATTCCTTTGGAATTTCACTCAT
15597208 G-C
128 GTC
**
15597210 TTTTAAAAATTCTTCAAAATGAAGGTAATGTTTAATGTTTAGCAATTCGGGGAATCGTGCCCTAT
1 -TTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTT-GCAATTCGGGGAATCGTGCCCTAT
* * *
15597275 CGTACTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCATTCATG
64 CGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATG
15597340 TC
129 TC
**
15597342 TTTAAAAATTCTTCAAAACCAAGGTAATGTTCGATGTTTGACAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTG-CAATTCGGGGAATCGTGCCCTATC
* * *
15597407 GTGCTGGGTTGCGATCTCCTGTTTGTTCCAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
65 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
15597472 TCTCCAAATT
Statistics
Matches: 231, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
130 1 0.00
131 189 0.82
132 39 0.17
133 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (130 bp):
TTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTGCAATTCGGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTC
Found at i:15618667 original size:33 final size:33
Alignment explanation
Indices: 15618630--15618696 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 33
15618620 AACATGGTTG
15618630 AAGTTTAAAAATCATTATA-AAAATTATA-AAATA
1 AAGTTT-AAAA-CATTATATAAAATTATATAAATA
*
15618663 AAGTTTAAAACATTATATAAAATTTTATAAATA
1 AAGTTTAAAACATTATATAAAATTATATAAATA
15618696 A
1 A
15618697 CTTTTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 7 0.23
32 12 0.39
33 12 0.39
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (33 bp):
AAGTTTAAAACATTATATAAAATTATATAAATA
Found at i:15624964 original size:53 final size:53
Alignment explanation
Indices: 15624843--15624988 Score: 188
Period size: 53 Copynumber: 2.7 Consensus size: 53
15624833 TGCGCCTGTT
* **
15624843 TAAGACCATAG-CTGGGCTATGACATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCAT-GTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
15624896 TAAGACCAT-TGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATGT-CTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
15624949 TAAGACCATGTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATGTCTGGGCTATGGCATCGGTAT-A-ATGTGA
15624989 ACCGTGTAAG
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
53 74 0.90
54 2 0.02
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (53 bp):
TAAGACCATGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:15628381 original size:52 final size:51
Alignment explanation
Indices: 15628310--15628518 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
15628300 ATCAAGTGAT
* *
15628310 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* *
15628362 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
15628413 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
15628460 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
15628512 ATAAGTG
1 A-AAGTG
15628519 GCTACACTTA
Statistics
Matches: 138, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 90 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:15628413 original size:7 final size:7
Alignment explanation
Indices: 15628396--15628429 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
15628386 TACACTTATC
15628396 TGATCAAG
1 TGAT-AAG
15628404 TGATAAG
1 TGATAAG
*
15628411 TGAAAAG
1 TGATAAG
15628418 TGATAAG
1 TGATAAG
15628425 TGATA
1 TGATA
15628430 GCTTCGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (7 bp):
TGATAAG
Found at i:15628491 original size:46 final size:44
Alignment explanation
Indices: 15628414--15628629 Score: 181
Period size: 37 Copynumber: 5.3 Consensus size: 44
15628404 TGATAAGTGA
*
15628414 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
*
15628460 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
15628506 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
15628543 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
* *
15628580 AAAGTGAT-AG-G-T-G---GCTACAGTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
15628616 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
15628630 CATACGTAAG
Statistics
Matches: 157, Mismatches: 8, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 87 0.55
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 50 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:15628526 original size:37 final size:37
Alignment explanation
Indices: 15628482--15628627 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
15628472 GATAGCTTTA
**
15628482 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15628519 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
15628556 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* **
15628593 GCTACAGTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15628628 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:15630478 original size:19 final size:19
Alignment explanation
Indices: 15630454--15630491 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15630444 GCATGGTTAT
15630454 ATGATTGAGCAGTCAAGTC
1 ATGATTGAGCAGTCAAGTC
15630473 ATGATTGAGCAGTCAAGTC
1 ATGATTGAGCAGTCAAGTC
15630492 TATGTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGATTGAGCAGTCAAGTC
Found at i:15649471 original size:12 final size:13
Alignment explanation
Indices: 15649456--15649484 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15649446 TAAAATATAG
15649456 TTATAAATTT-TA
1 TTATAAATTTCTA
15649468 TTATAAATTTCTA
1 TTATAAATTTCTA
15649481 TTAT
1 TTAT
15649485 TTTATCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATAAATTTCTA
Found at i:15653819 original size:24 final size:24
Alignment explanation
Indices: 15653792--15653837 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
15653782 TTATATACTT
15653792 TTATAATTA-AATTTAAATTTAAAA
1 TTAT-ATTATAATTTAAATTTAAAA
* *
15653816 TTATTTTATTATTTAAATTTAA
1 TTATATTATAATTTAAATTTAA
15653838 TTTGGGCCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATATTATAATTTAAATTTAAAA
Found at i:15661373 original size:35 final size:35
Alignment explanation
Indices: 15661334--15661403 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
15661324 AAAATACAGA
15661334 ATAATCCTCATCAATAGATAGCTACAAAATGAAGG
1 ATAATCCTCATCAATAGATAGCTACAAAATGAAGG
15661369 ATAATCCTCATCAATAGATAGCTACAAAATGAAGG
1 ATAATCCTCATCAATAGATAGCTACAAAATGAAGG
15661404 GAAAATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (35 bp):
ATAATCCTCATCAATAGATAGCTACAAAATGAAGG
Found at i:15664324 original size:19 final size:19
Alignment explanation
Indices: 15664300--15664339 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15664290 TTATTTTTTT
* *
15664300 ATTAGAATCGAAAAGTTTA
1 ATTAGAATAGAAAAGTATA
15664319 ATTAGAATAGAAAAGTATA
1 ATTAGAATAGAAAAGTATA
15664338 AT
1 AT
15664340 AAAAGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (19 bp):
ATTAGAATAGAAAAGTATA
Found at i:15665272 original size:20 final size:20
Alignment explanation
Indices: 15665212--15665272 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
15665202 TTAATCCAAA
*
15665212 TATATGTAATATTTTAATTTGT
1 TATAT-TAATA-TTTAATATGT
* **
15665234 TA-AGTTTATATTTTTTATGT
1 TATA-TTAATATTTAATATGT
15665254 TATATTAATATTTAATATG
1 TATATTAATATTTAATATG
15665273 AGTTATATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 21 0.70
21 6 0.20
22 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATATTAATATTTAATATGT
Found at i:15673587 original size:20 final size:19
Alignment explanation
Indices: 15673541--15673599 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
15673531 AAAAGAAGAG
* **
15673541 AAAATTAAAATTAATTCTA
1 AAAAATAAAATTAATTAAA
15673560 AAAAATAAAATTAATTAAA
1 AAAAATAAAATTAATTAAA
15673579 AATAAATAAAAATT-ATTAAA
1 AA-AAAT-AAAATTAATTAAA
15673599 A
1 A
15673600 TTTGGTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.51
20 11 0.31
21 6 0.17
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATAAAATTAATTAAA
Found at i:15675207 original size:25 final size:25
Alignment explanation
Indices: 15675177--15675228 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
15675167 TTTGGCTTGA
*
15675177 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
15675202 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
15675227 CA
1 CA
15675229 AATTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:15675375 original size:34 final size:34
Alignment explanation
Indices: 15675332--15675400 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
15675322 AGCATGTGAT
*
15675332 CAATTTATGCATAAGTCACTCACATATTTTCCTC
1 CAATTTATGCATAAATCACTCACATATTTTCCTC
15675366 CAATTTATGCATAAATCACTCACATATTTTCCTC
1 CAATTTATGCATAAATCACTCACATATTTTCCTC
15675400 C
1 C
15675401 TCCTCCTCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.38
Consensus pattern (34 bp):
CAATTTATGCATAAATCACTCACATATTTTCCTC
Found at i:15676394 original size:25 final size:23
Alignment explanation
Indices: 15676342--15676396 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
15676332 TATAAATAGT
15676342 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
15676365 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
15676390 AATAGTG
1 AATAGTG
15676397 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:15676516 original size:22 final size:24
Alignment explanation
Indices: 15676458--15676525 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
15676448 ATAGATATAA
* *
15676458 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
15676482 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
15676506 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
15676526 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:15676577 original size:25 final size:25
Alignment explanation
Indices: 15676541--15676672 Score: 100
Period size: 25 Copynumber: 5.6 Consensus size: 25
15676531 AGAAAAAAAT
*
15676541 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
15676566 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
15676591 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
15676615 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
15676637 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAGTATTAAAG
*
15676660 AAATATA-ATAATA
1 ATATATACATAATA
15676673 ACAAAAAAAG
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 24 0.28
24 11 0.13
25 34 0.40
26 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:15676654 original size:50 final size:50
Alignment explanation
Indices: 15676534--15676655 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
15676524 AACATGTAGA
*
15676534 AAAAAATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGT
1 AAAAAATATATATAAATAATATAGAATTAAAGATATATACATAAAATAGT
* * ** * * * *
15676584 ATAATATATATATACGTAATATAGAATT-TAGA-ATATACCTAATATATT
1 AAAAAATATATATAAATAATATAGAATTAAAGATATATACATAAAATAGT
15676632 AAAAGAATATATATAATATAATAT
1 AAAA-AATATATATAA-ATAATAT
15676656 TAAGAAATAT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
48 16 0.28
49 12 0.21
50 29 0.51
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (50 bp):
AAAAAATATATATAAATAATATAGAATTAAAGATATATACATAAAATAGT
Found at i:15677181 original size:18 final size:18
Alignment explanation
Indices: 15677158--15677216 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
15677148 ACAAGTGGTG
15677158 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
* *
15677176 GTGGAGCGGAGT-TGG-TG
1 GTGGAGC-AAGTGTGGCTA
15677193 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
15677211 GTGGAG
1 GTGGAG
15677217 TTGGTGGTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.09
17 11 0.32
18 17 0.50
19 3 0.09
ACGTcount: A:0.19, C:0.08, G:0.51, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:15677198 original size:17 final size:17
Alignment explanation
Indices: 15677152--15677207 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
15677142 GTAGGTACAA
15677152 GTGGTGGTGGAGCAAGT
1 GTGGTGGTGGAGCAAGT
* *
15677169 GTGGCTAGTGGAGCGGAGT
1 GTGG-TGGTGGAGC-AAGT
15677188 -TGGTGGTGGAGCAAGT
1 GTGGTGGTGGAGCAAGT
15677204 GTGG
1 GTGG
15677208 CTAGTGGAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 3 0.09
17 15 0.47
18 11 0.34
19 3 0.09
ACGTcount: A:0.16, C:0.07, G:0.54, T:0.23
Consensus pattern (17 bp):
GTGGTGGTGGAGCAAGT
Found at i:15680109 original size:51 final size:51
Alignment explanation
Indices: 15680031--15680194 Score: 274
Period size: 51 Copynumber: 3.2 Consensus size: 51
15680021 ACTTCTGATC
* *
15680031 AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
* * *
15680082 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATTACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
*
15680133 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
15680184 AGTGATAAATG
1 AGTGATAAATG
15680195 TGATCAGTGT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:15681947 original size:47 final size:47
Alignment explanation
Indices: 15681882--15682004 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 47
15681872 TACATAATGG
* * * * *
15681882 TGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCACTGA
1 TGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACACCGA
* * *
15681929 TGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACCGA
1 TGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACACCGA
*
15681976 TGCCATATCCCAGATATGGTCTTATACAG
1 TGCCATATCCCAGATATGGTCTTACACAG
15682005 AAATCACTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
47 64 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (47 bp):
TGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACACCGA
Found at i:15682020 original size:7 final size:7
Alignment explanation
Indices: 15682008--15682036 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
15681998 TATACAGAAA
15682008 TCACTTG
1 TCACTTG
15682015 TCACTTG
1 TCACTTG
15682022 TCACTTG
1 TCACTTG
15682029 TCACTTG
1 TCACTTG
15682036 T
1 T
15682037 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:15682070 original size:31 final size:31
Alignment explanation
Indices: 15682035--15682212 Score: 223
Period size: 31 Copynumber: 5.7 Consensus size: 31
15682025 CTTGTCACTT
*
15682035 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* ** *
15682066 GTAGCTAGTGCTACCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**
15682097 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
*
15682128 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* *
15682159 GTAGCTGAAA-CTACCACTTTTCACTGATTAG
1 GTAGC-CAAAGCTACCACTTTTCACTGATCAG
** *
15682190 GTAGCTGAAGTTACCACTTTTCA
1 GTAGCCAAAGCTACCACTTTTCA
15682213 GTTGTCATTT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
30 2 0.02
31 125 0.97
32 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:15682194 original size:93 final size:93
Alignment explanation
Indices: 15682035--15682212 Score: 259
Period size: 93 Copynumber: 1.9 Consensus size: 93
15682025 CTTGTCACTT
** *
15682035 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTAGTGCTACCATTTTTCACTGATCAGGTA
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTAGAACTACCACTTTTCACTGATCAGGTA
*
15682100 GCCGGAGCTACCACTTTTCACTGATCAG
66 GCCGAAGCTACCACTTTTCACTGATCAG
* * *
15682128 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCT-GAAACTACCACTTTTCACTGATTAGGT
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTAG-AACTACCACTTTTCACTGATCAGGT
* *
15682192 AGCTGAAGTTACCACTTTTCA
65 AGCCGAAGCTACCACTTTTCA
15682213 GTTGTCATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (93 bp):
GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTAGAACTACCACTTTTCACTGATCAGGTA
GCCGAAGCTACCACTTTTCACTGATCAG
Found at i:15682289 original size:50 final size:50
Alignment explanation
Indices: 15682230--15682366 Score: 247
Period size: 50 Copynumber: 2.7 Consensus size: 50
15682220 TTTGCCATTG
15682230 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
* * *
15682280 ATCAGATAAGTGTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
15682330 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
15682367 GTTTCCATGG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (50 bp):
ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
Found at i:15686336 original size:20 final size:20
Alignment explanation
Indices: 15686311--15686350 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15686301 AATATTTTTC
*
15686311 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
15686331 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
15686351 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:15686352 original size:34 final size:35
Alignment explanation
Indices: 15686299--15686365 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15686289 CAAACACCAG
* *
15686299 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
15686334 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
15686366 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:15689128 original size:27 final size:27
Alignment explanation
Indices: 15689075--15689128 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
15689065 GGTAAGTGGC
** * *
15689075 GCCTATCTGGTAGGCGCGACTGGTTAA
1 GCCTATCTGACAGGCGCAACTGCTTAA
*
15689102 GCCTATCTGACAGGCGCAATTGCTTAA
1 GCCTATCTGACAGGCGCAACTGCTTAA
15689129 AATATCTCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (27 bp):
GCCTATCTGACAGGCGCAACTGCTTAA
Found at i:15689513 original size:65 final size:67
Alignment explanation
Indices: 15689432--15689566 Score: 163
Period size: 65 Copynumber: 2.0 Consensus size: 67
15689422 AAAAATTACA
*
15689432 TTAAAAAAATCACAAAACACTAAACTAA-ACACTAA-C-AATCATAAATTACTAACAAAATAA-A
1 TTAAAAAAATCACAAAACACT-AA-TAATACA-TAACCTAATCATAAACTACTAACAAAATAACA
15689493 TAATT
63 TAATT
* **
15689498 TTAAGAAAA-CACAAAACACTAATAATTTATAACCTAATCATAAACTACTAACAAAATAACTATA
1 TTAAAAAAATCACAAAACACTAATAATACATAACCTAATCATAAACTACTAACAAAATAAC-ATA
15689562 ATT
65 ATT
15689565 TT
1 TT
15689567 TTTTTTAGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
63 6 0.10
64 4 0.07
65 34 0.57
66 8 0.13
67 8 0.13
ACGTcount: A:0.57, C:0.16, G:0.01, T:0.26
Consensus pattern (67 bp):
TTAAAAAAATCACAAAACACTAATAATACATAACCTAATCATAAACTACTAACAAAATAACATAA
TT
Found at i:15691370 original size:33 final size:36
Alignment explanation
Indices: 15691301--15691384 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 36
15691291 CTATACCCAT
* * *
15691301 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCATA-ACACATACACATATGTTCAC
15691338 CTATGCCGAATGCAT-ACACATA-A-ATATGTTCAC
1 CTATGCCGAATGCATAACACATACACATATGTTCAC
15691371 CTATGCCGAATGCA
1 CTATGCCGAATGCA
15691385 ACATATATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 22 0.50
34 1 0.02
35 6 0.14
37 15 0.34
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (36 bp):
CTATGCCGAATGCATAACACATACACATATGTTCAC
Found at i:15691658 original size:41 final size:41
Alignment explanation
Indices: 15691613--15691839 Score: 291
Period size: 41 Copynumber: 5.8 Consensus size: 41
15691603 ACCGGCTCTT
*
15691613 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
15691654 AGCCTGCTAGACTTATAGTCTGAAATGTGT------C----
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
15691685 A-CCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
15691725 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
15691766 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
15691807 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
15691840 TAACGATAAA
Statistics
Matches: 166, Mismatches: 5, Indels: 30
0.83 0.02 0.15
Matches are distributed among these distances:
30 28 0.17
31 1 0.01
35 1 0.01
36 1 0.01
39 2 0.01
40 3 0.02
41 125 0.75
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:15691692 original size:30 final size:30
Alignment explanation
Indices: 15691656--15691717 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
15691646 CGGCATTAAG
15691656 CCTGCTAGACTTATAGTCTGAAATGTGTCA
1 CCTGCTAGACTTATAGTCTGAAATGTGTCA
15691686 CCTGCTAGACTTATAGTCTGAAATGTGTCA
1 CCTGCTAGACTTATAGTCTGAAATGTGTCA
15691716 CC
1 CC
15691718 GGCATTAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (30 bp):
CCTGCTAGACTTATAGTCTGAAATGTGTCA
Found at i:15691731 original size:71 final size:71
Alignment explanation
Indices: 15691615--15691758 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
15691605 CGGCTCTTAG
15691615 CCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTAAGCCTGCTAGACTTATAGTCTGAAAT
1 CCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTAAGCCTGCTAGACTTATAGTCTGAAAT
15691680 GTGTCA
66 GTGTCA
*
15691686 CCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCCTGCTAGACTTATAGTCTGAAAT
1 CCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTAAGCCTGCTAGACTTATAGTCTGAAAT
15691751 GTGTCA
66 GTGTCA
15691757 CC
1 CC
15691759 GGCATTAAGC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (71 bp):
CCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTAAGCCTGCTAGACTTATAGTCTGAAAT
GTGTCA
Found at i:15693988 original size:53 final size:53
Alignment explanation
Indices: 15693832--15693997 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
15693822 GACGAAAAAT
* **
15693832 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
15693884 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
15693937 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
15693991 TATGTGA
1 -ATGTGA
15693998 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:15695279 original size:60 final size:60
Alignment explanation
Indices: 15695195--15695313 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
15695185 AAAACTCACT
* *
15695195 AAACACAACAATTTATAACATAATCCTAAATTATTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
15695255 AAACACAATAATTTATAACGTAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
15695314 TAAAAAAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:15695541 original size:13 final size:13
Alignment explanation
Indices: 15695523--15695552 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
15695513 CTGACAACCT
15695523 ATTTCAGTATTTA
1 ATTTCAGTATTTA
15695536 ATTTCAGTATTTA
1 ATTTCAGTATTTA
15695549 ATTT
1 ATTT
15695553 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
ATTTCAGTATTTA
Found at i:15697491 original size:19 final size:18
Alignment explanation
Indices: 15697462--15697498 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
15697452 TTCATAATAA
15697462 TTATATATTATTATAGAT
1 TTATATATTATTATAGAT
15697480 TTATAGTATTATTATAGAT
1 TTATA-TATTATTATAGAT
15697499 AATTGAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
TTATATATTATTATAGAT
Found at i:15697898 original size:28 final size:29
Alignment explanation
Indices: 15697844--15697923 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
15697834 AAAAATAGTT
* *
15697844 ATTTAATTATTAACATATTTTTATTTTCATC
1 ATTTAA-TATTAAAAT-TTTTTATTTTAATC
*
15697875 A-TTCATATTAAAATTTTTTATTTTAATC
1 ATTTAATATTAAAATTTTTTATTTTAATC
*
15697903 ATTTAATATTATTAATTTTTT
1 ATTTAATATTA-AAATTTTTT
15697924 GGTTTTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 14 0.33
29 16 0.38
30 11 0.26
31 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTTAATATTAAAATTTTTTATTTTAATC
Found at i:15698217 original size:20 final size:20
Alignment explanation
Indices: 15698194--15698239 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15698184 ATTCATTTAT
**
15698194 TAAAATAAAAATTTTATAAA
1 TAAAATAAAAATACTATAAA
*
15698214 TAAAATAATAATACTATAAA
1 TAAAATAAAAATACTATAAA
15698234 TAAAAT
1 TAAAAT
15698240 TGTTTAAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATAAAAATACTATAAA
Found at i:15698778 original size:18 final size:18
Alignment explanation
Indices: 15698755--15698792 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
15698745 TAAAAATGAA
*
15698755 TTTTAAATATTTTTTATT
1 TTTTAAATATTTTTAATT
15698773 TTTTAAATATTTTTAATT
1 TTTTAAATATTTTTAATT
15698791 TT
1 TT
15698793 GAATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTAAATATTTTTAATT
Found at i:15701039 original size:29 final size:29
Alignment explanation
Indices: 15700997--15701054 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
15700987 TGCCCTTGGC
15700997 CCAGCACTCCAGCACACCCTTCGTCTCTG
1 CCAGCACTCCAGCACACCCTTCGTCTCTG
15701026 CCAGCACTCCAGCACACCCTTCGTCTCTG
1 CCAGCACTCCAGCACACCCTTCGTCTCTG
15701055 TACTTTCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.48, G:0.14, T:0.21
Consensus pattern (29 bp):
CCAGCACTCCAGCACACCCTTCGTCTCTG
Found at i:15701110 original size:17 final size:18
Alignment explanation
Indices: 15701088--15701121 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15701078 CTTCCTTTTT
*
15701088 CTTTT-CTTTTTTTTCTC
1 CTTTTCCTTTGTTTTCTC
15701105 CTTTTCCTTTGTTTTCT
1 CTTTTCCTTTGTTTTCT
15701122 TTAGCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (18 bp):
CTTTTCCTTTGTTTTCTC
Found at i:15709835 original size:38 final size:39
Alignment explanation
Indices: 15709751--15709885 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
15709741 ACCAATATGG
*
15709751 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
15709790 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
15709828 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
15709869 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15709886 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:15730488 original size:25 final size:25
Alignment explanation
Indices: 15730434--15730488 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
15730424 ATGAGGTATG
* * * *
15730434 ATTTCAAATGGAATTGTGGTATGTG
1 ATTTCAAATGAAATTATGGTATATC
*
15730459 TTTTCAAATGAAATTATGGTATATC
1 ATTTCAAATGAAATTATGGTATATC
15730484 ATTTC
1 ATTTC
15730489 TTATCTATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (25 bp):
ATTTCAAATGAAATTATGGTATATC
Found at i:15743837 original size:21 final size:22
Alignment explanation
Indices: 15743793--15743842 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
15743783 AATAACTTCA
* *
15743793 TAAAATATAATTTAGATAATTT
1 TAAAATATAATTAAAATAATTT
*
15743815 TAAAATGTAATTAAAAT-ATTT
1 TAAAATATAATTAAAATAATTT
15743836 TAAAATA
1 TAAAATA
15743843 GTTAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TAAAATATAATTAAAATAATTT
Found at i:15743849 original size:19 final size:20
Alignment explanation
Indices: 15743811--15743849 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15743801 AATTTAGATA
15743811 ATTTTAAAATGTAATTAAAAT
1 ATTTTAAAA-GTAATTAAAAT
*
15743832 ATTTTAAAA-TAGTTAAAA
1 ATTTTAAAAGTAATTAAAA
15743850 AAAAGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTTTAAAAGTAATTAAAAT
Found at i:15749612 original size:16 final size:16
Alignment explanation
Indices: 15749544--15749613 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
15749534 AATCAAATAA
15749544 AATTTT-AATTTTTAAT
1 AATTTTAAATTTTT-AT
*
15749560 AA-TTTATATTTTTAT
1 AATTTTAAATTTTTAT
**
15749575 AATTTTTAAATAATTA-
1 AA-TTTTAAATTTTTAT
15749591 AA--TTAAATTTTTAT
1 AATTTTAAATTTTTAT
15749605 AATTTTAAA
1 AATTTTAAA
15749614 ATAGTGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
13 9 0.21
14 2 0.05
15 7 0.17
16 15 0.36
17 9 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTAAATTTTTAT
Found at i:15749633 original size:30 final size:30
Alignment explanation
Indices: 15749564--15749633 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
15749554 TTTAATAATT
* * * *
15749564 TATATTTTTATAATTTTTAAATAATTAAAT
1 TATAATTTTATAATTTTAAAATAATGAAAA
*
15749594 TA-AATTTTTATAATTTTAAAATAGTGAAAA
1 TATAA-TTTTATAATTTTAAAATAATGAAAA
15749624 TATAATTTTA
1 TATAATTTTA
15749634 ATTTTACCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 30 0.91
31 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
TATAATTTTATAATTTTAAAATAATGAAAA
Found at i:15754317 original size:3 final size:3
Alignment explanation
Indices: 15754309--15754356 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
15754299 ATTCCCACTC
* * * *
15754309 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15754357 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:15754357 original size:18 final size:18
Alignment explanation
Indices: 15754310--15754358 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
15754300 TTCCCACTCA
*
15754310 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
15754328 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
15754346 TAATATTAATACT
1 TAATAATAATACT
15754359 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:15754358 original size:12 final size:12
Alignment explanation
Indices: 15754309--15754356 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
15754299 ATTCCCACTC
*
15754309 ATAATAATAATA
1 ATAATACTAATA
15754321 ATAATACTAATA
1 ATAATACTAATA
15754333 ATAATACTAATA
1 ATAATACTAATA
* *
15754345 CTAATATTAATA
1 ATAATACTAATA
15754357 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:15755268 original size:31 final size:28
Alignment explanation
Indices: 15755232--15755299 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
15755222 TTGTCTTTAT
**
15755232 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
15755262 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
15755291 TTAATTTAT
1 TTAATTTAT
15755300 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:15755316 original size:21 final size:20
Alignment explanation
Indices: 15755278--15755316 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15755268 TAATTTAATA
*
15755278 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
15755298 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
15755317 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:15760247 original size:21 final size:21
Alignment explanation
Indices: 15760205--15760247 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15760195 TTCACTATAC
*
15760205 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
15760226 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
15760247 A
1 A
15760248 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:15761739 original size:3 final size:3
Alignment explanation
Indices: 15761731--15761778 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
15761721 ATTCCCACTC
* * * *
15761731 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15761779 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:15761779 original size:18 final size:18
Alignment explanation
Indices: 15761732--15761780 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
15761722 TTCCCACTCA
*
15761732 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
15761750 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
15761768 TAATATTAATACT
1 TAATAATAATACT
15761781 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:15761780 original size:12 final size:12
Alignment explanation
Indices: 15761731--15761778 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
15761721 ATTCCCACTC
*
15761731 ATAATAATAATA
1 ATAATACTAATA
15761743 ATAATACTAATA
1 ATAATACTAATA
15761755 ATAATACTAATA
1 ATAATACTAATA
* *
15761767 CTAATATTAATA
1 ATAATACTAATA
15761779 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:15762514 original size:20 final size:20
Alignment explanation
Indices: 15762480--15762519 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15762470 TTCTATTCTG
*
15762480 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
15762500 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
15762520 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:15762686 original size:31 final size:28
Alignment explanation
Indices: 15762650--15762717 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
15762640 TTGTCTTTAT
**
15762650 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
15762680 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
15762709 TTAATTTAT
1 TTAATTTAT
15762718 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:15762734 original size:21 final size:20
Alignment explanation
Indices: 15762696--15762734 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15762686 TAATTTAATA
*
15762696 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
15762716 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
15762735 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:15764125 original size:23 final size:22
Alignment explanation
Indices: 15764073--15764125 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15764063 TCCACGTCTT
*
15764073 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15764095 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15764118 TTTCTTTT
1 TTTCTTTT
15764126 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Done.