Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 8 of 216
Found at i:2689923 original size:5 final size:5
Alignment explanation
Indices: 2689908--2689948 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
2689898 CTTTCCCCTA
2689908 ATTTCT ATTTT ATTTT A-TTT ATTTT ATTTT ATTTT CATTTT
1 ATTT-T ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT
2689949 CCCCTTCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 20 0.61
6 9 0.27
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:2689932 original size:14 final size:14
Alignment explanation
Indices: 2689913--2689941 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2689903 CCCTAATTTC
2689913 TATTTTATTTTATT
1 TATTTTATTTTATT
2689927 TATTTTATTTTATT
1 TATTTTATTTTATT
2689941 T
1 T
2689942 TCATTTTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:2695419 original size:12 final size:12
Alignment explanation
Indices: 2695402--2695426 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2695392 AGTAATTTCG
2695402 GGTCGGTTAACC
1 GGTCGGTTAACC
2695414 GGTCGGTTAACC
1 GGTCGGTTAACC
2695426 G
1 G
2695427 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:2700685 original size:5 final size:6
Alignment explanation
Indices: 2700667--2700702 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
2700657 ACAGATAATA
2700667 TTATTT TTATTT TTATTT TTATGTT TTATGTT TTAT
1 TTATTT TTATTT TTATTT TTAT-TT TTAT-TT TTAT
2700703 CCTAACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:2701553 original size:17 final size:17
Alignment explanation
Indices: 2701521--2701569 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
2701511 CTTAATACAT
2701521 ATTTTATATTT-A-TTAA
1 ATTTTA-ATTTAATTTAA
*
2701537 TATTTT-ATTTAGTTTAA
1 -ATTTTAATTTAATTTAA
2701554 ATTTTAATTTAATTTA
1 ATTTTAATTTAATTTA
2701570 GTTGATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 4 0.15
16 5 0.19
17 18 0.67
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTTAATTTAATTTAA
Found at i:2701579 original size:22 final size:22
Alignment explanation
Indices: 2701538--2701579 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2701528 ATTTATTAAT
* *
2701538 ATTTTATTTAGTTTAAATTTTA
1 ATTTAATTTAGTTGAAATTTTA
*
2701560 ATTTAATTTAGTTGATATTT
1 ATTTAATTTAGTTGAAATTT
2701580 ATAAATAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (22 bp):
ATTTAATTTAGTTGAAATTTTA
Found at i:2716224 original size:11 final size:11
Alignment explanation
Indices: 2716208--2716258 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
2716198 GGAAATGACG
*
2716208 AAAAAAGGGAA
1 AAAAAAGAGAA
*
2716219 AAAAAAGGGGAA
1 AAAAAA-GAGAA
2716231 AAAAAAGAGAA
1 AAAAAAGAGAA
2716242 AAAAGAA-AGAA
1 AAAA-AAGAGAA
2716253 AAAAAA
1 AAAAAA
2716259 TACAAGCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 2 0.05
11 22 0.59
12 13 0.35
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:2716229 original size:12 final size:12
Alignment explanation
Indices: 2716208--2716237 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2716198 GGAAATGACG
2716208 AAAAAA-GGGAA
1 AAAAAAGGGGAA
2716219 AAAAAAGGGGAA
1 AAAAAAGGGGAA
2716231 AAAAAAG
1 AAAAAAG
2716238 AGAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AAAAAAGGGGAA
Found at i:2716244 original size:12 final size:12
Alignment explanation
Indices: 2716208--2716258 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
2716198 GGAAATGACG
*
2716208 AAAAAAG-GGAA
1 AAAAAAGAGAAA
* *
2716219 AAAAAAGGGGAA
1 AAAAAAGAGAAA
2716231 AAAAAAGAGAAA
1 AAAAAAGAGAAA
2716243 AAAGAAAGA-AAA
1 AAA-AAAGAGAAA
2716255 AAAA
1 AAAA
2716259 TACAAGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 8 0.22
12 23 0.64
13 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:2717895 original size:45 final size:45
Alignment explanation
Indices: 2717845--2717942 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
2717835 GCTTCCTCTG
* * *
2717845 TGATGCTTGCCATCAAAAGATCTTGACCTTGACCTCTTTCTATCC
1 TGATGCTTGCCATCAAAAGATCTTGACCTCGACCGCCTTCTATCC
**
2717890 TGATGCTTGCCATCAGCAGATCTTGACCTCGACCGCCTTCTATCC
1 TGATGCTTGCCATCAAAAGATCTTGACCTCGACCGCCTTCTATCC
*
2717935 CGATGCTT
1 TGATGCTT
2717943 AGATTTCTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (45 bp):
TGATGCTTGCCATCAAAAGATCTTGACCTCGACCGCCTTCTATCC
Found at i:2718698 original size:42 final size:42
Alignment explanation
Indices: 2718652--2718740 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
2718642 ATAAGAGCGA
* * * *
2718652 GACCTCCTCCTTCGCCTATAACTGATTGGTGATCTTGACTTT
1 GACCTCCACCTTCGCCTATAAATGATCGGTGATCTTGACTTG
** *
2718694 GACCTTGACTTTCGCCTATAAATGATCGGTGATCTTGACTTG
1 GACCTCCACCTTCGCCTATAAATGATCGGTGATCTTGACTTG
2718736 GACCT
1 GACCT
2718741 TGATCTTTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (42 bp):
GACCTCCACCTTCGCCTATAAATGATCGGTGATCTTGACTTG
Found at i:2718741 original size:42 final size:43
Alignment explanation
Indices: 2718662--2718789 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 43
2718652 GACCTCCTCC
*
2718662 TTCGCCTATAACTGATTGGTGATCTTGACTTTGACCTTGA-CT
1 TTCGCCTATAACTGATTGGTGATCTTGACTTGGACCTTGATCT
* *
2718704 TTCGCCTATAAATGATCGGTGATCTTGACTTGGACCTTGATCT
1 TTCGCCTATAACTGATTGGTGATCTTGACTTGGACCTTGATCT
* * * * * *
2718747 TT-GCCGATAACTAATTGGTGATCTAGTCTTTGATCTTGATCT
1 TTCGCCTATAACTGATTGGTGATCTTGACTTGGACCTTGATCT
2718789 T
1 T
2718790 CTCCGATAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 70 0.95
43 4 0.05
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (43 bp):
TTCGCCTATAACTGATTGGTGATCTTGACTTGGACCTTGATCT
Found at i:2718796 original size:42 final size:42
Alignment explanation
Indices: 2718669--2718819 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
2718659 TCCTTCGCCT
* * *
2718669 ATAACTGATTGGTGATCTTGACTTTGACCTTGA-CTTTCGCCT
1 ATAACTAATTGGTGATCTTGACTTTGACCTTGATC-TTCTCCG
* * * *
2718711 ATAAATGATCGGTGATCTTGACTTGGACCTTGATCTT-TGCCG
1 ATAACTAATTGGTGATCTTGACTTTGACCTTGATCTTCT-CCG
* * *
2718753 ATAACTAATTGGTGATCTAGTCTTTGATCTTGATCTTCTCCG
1 ATAACTAATTGGTGATCTTGACTTTGACCTTGATCTTCTCCG
** *
2718795 ATAACTAAGGGGTGATTTTGA-TTTG
1 ATAACTAATTGGTGATCTTGACTTTG
2718820 GATCTTGACC
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 4 0.04
42 83 0.93
43 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (42 bp):
ATAACTAATTGGTGATCTTGACTTTGACCTTGATCTTCTCCG
Found at i:2728703 original size:5 final size:5
Alignment explanation
Indices: 2728695--2728730 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
2728685 CTTTCTCTTC
*
2728695 TTATT TTATT TTATT TTATT TTATA TTATAT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT
2728731 CTTCAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:2730815 original size:14 final size:11
Alignment explanation
Indices: 2730783--2730807 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2730773 AAAATATTAA
2730783 AATTAAATAAT
1 AATTAAATAAT
2730794 AATTAAATAAT
1 AATTAAATAAT
2730805 AAT
1 AAT
2730808 ATAGAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAAATAAT
Found at i:2735541 original size:19 final size:19
Alignment explanation
Indices: 2735511--2735547 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2735501 AAAAATATAA
2735511 ATTTTGGAATTTTTATGAAT
1 ATTTTGGAATTTTT-TGAAT
2735531 ATTTT-GAATTTTTTGAA
1 ATTTTGGAATTTTTTGAA
2735548 AATTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTTGGAATTTTTTGAAT
Found at i:2743691 original size:21 final size:21
Alignment explanation
Indices: 2743665--2743705 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2743655 AGACGAGCAA
* *
2743665 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2743686 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2743706 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2750247 original size:16 final size:16
Alignment explanation
Indices: 2750196--2750245 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 16
2750186 GGATGAGAAG
2750196 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTAGGGG---AA
2750215 TAAAAAGTTTAGGGGAA
1 T-AAAAGTTTAGGGGAA
2750232 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
2750246 AAAATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
19 1 0.03
20 13 0.45
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGGAA
Found at i:2752587 original size:19 final size:21
Alignment explanation
Indices: 2752560--2752610 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
2752550 AAATTTGAAA
*
2752560 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTAAAAATTAT
2752580 TTTG-AA-TTTTAAAAATTAT
1 TTTGAAATTTTTAAAAATTAT
*
2752599 TTTGTAATTTTT
1 TTTGAAATTTTT
2752611 GTTGAGAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 6 0.22
21 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
TTTGAAATTTTTAAAAATTAT
Found at i:2752595 original size:18 final size:20
Alignment explanation
Indices: 2752568--2752609 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
2752558 AATTTGAAAT
*
2752568 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGTAA
2752586 TTTTAAAAATTATTTTGTAA
1 TTTTAAAAATTATTTTGTAA
2752606 TTTT
1 TTTT
2752610 TGTTGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGTAA
Found at i:2754555 original size:17 final size:18
Alignment explanation
Indices: 2754533--2754571 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2754523 ATTTTAGAAT
* *
2754533 TTTTAAGAA-TATTTTGA
1 TTTTAAAAATTATTTTAA
2754550 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
2754568 TTTT
1 TTTT
2754572 TTTGTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:2755540 original size:26 final size:25
Alignment explanation
Indices: 2755511--2755561 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2755501 AAGTGAAATA
* *
2755511 ATAATAAAAATTATTATAGTTTTTAT
1 ATAATAAAAATT-TTAGAATTTTTAT
*
2755537 ATAATATAAATTTTAGAATTTTTAT
1 ATAATAAAAATTTTAGAATTTTTAT
2755562 GAATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
ATAATAAAAATTTTAGAATTTTTAT
Found at i:2756340 original size:16 final size:17
Alignment explanation
Indices: 2756302--2756340 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2756292 AAAAATATTT
2756302 AATAATATAAAACATAA
1 AATAATATAAAACATAA
*
2756319 AA-AATATTAAA-ATAA
1 AATAATATAAAACATAA
2756334 AATAATA
1 AATAATA
2756341 ATGTAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 12 0.60
17 2 0.10
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAATATAAAACATAA
Found at i:2758776 original size:222 final size:222
Alignment explanation
Indices: 2758389--2758845 Score: 659
Period size: 222 Copynumber: 2.1 Consensus size: 222
2758379 ACCTTACTGA
* * ** *
2758389 ATTTCCAGAATTCATTAAAAGGCAAGACAAGTTGGTTGGCTTAGATCTTTCTAACAACCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCC
* **
2758454 ATGGTTTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATGGGTAGACCTTTCTTTCAATATG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
* *
2758519 ATTGATTTTCCAAAACAGCTTCCCTTAAATGATGCAAACTTTTCATTT-CCAATGTTGA-AAGAC
131 ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTC-TTTCCCAATGTTGAGAAGA-
*
2758582 TTGCGT-TTGACATCCTGTAACATAAGTGC
194 TTGCGTCTGGA-ATCCTGTAACATAAGTGC
* *
2758611 GTTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAGCAACCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCC
* * * *
2758676 ATGGTGTTGTGCCTAATTGGTTGTGGAAGAGCAGTCTTTTATCCTTAGACCTTTCTTTCAATGTG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
* * **
2758741 ATTGATTTTCCAAAACAACTTCCTTTAAGTGATGCAAACTTCTCTTTCCCAATGTTGAGGCGATT
131 ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGAGAAGATT
*
2758806 GCGTCTGGAATCTTGTAACATAAGTGC
196 GCGTCTGGAATCCTGTAACATAAGTGC
*
2758833 ATTTCCGGAGTTC
1 ATTTCCAGAGTTC
2758846 TTAAAGAGTC
Statistics
Matches: 208, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
221 3 0.01
222 200 0.96
223 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (222 bp):
ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCC
ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGAGAAGATT
GCGTCTGGAATCCTGTAACATAAGTGC
Found at i:2758996 original size:72 final size:72
Alignment explanation
Indices: 2758879--2759148 Score: 443
Period size: 72 Copynumber: 3.8 Consensus size: 72
2758869 AGAATTCGAC
*
2758879 GCATCTTCTAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGCTTAGCGG
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGCTTAGCGG
2758944 TTTAGAT
66 TTTAGAT
2758951 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGCTTAGCGG
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGCTTAGCGG
2759016 TTTAGAT
66 TTTAGAT
* * *
2759023 GCATCTTATAACAATTCGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTA-CA
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGC-TTAGCG
*
2759087 GTTTCGAT
65 GTTTAGAT
* * **
2759095 GTATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGGCAATATGAGT
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGT
2759149 GCTCTGAGTT
Statistics
Matches: 187, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
72 184 0.98
73 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (72 bp):
GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGCTTAGCGG
TTTAGAT
Found at i:2762527 original size:15 final size:15
Alignment explanation
Indices: 2762484--2762533 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2762474 CATTTTTTCG
*
2762484 AATTGAGTCGAGTGA
1 AATTGAATCGAGTGA
** *
2762499 AATAAAATTCGAGTCA
1 AATTGAA-TCGAGTGA
2762515 AATTGAATCGAGTGA
1 AATTGAATCGAGTGA
2762530 AATT
1 AATT
2762534 ATTCAAGTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (15 bp):
AATTGAATCGAGTGA
Found at i:2762721 original size:19 final size:19
Alignment explanation
Indices: 2762700--2762736 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2762690 AATTTAATTT
*
2762700 TTTTATAAA-TATTTTGAA
1 TTTTAAAAACTATTTTGAA
2762718 TTTTAAAAACTATTTTGAA
1 TTTTAAAAACTATTTTGAA
2762737 ATATTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAAAAACTATTTTGAA
Found at i:2763086 original size:16 final size:16
Alignment explanation
Indices: 2763065--2763097 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2763055 AATTAGCTGG
2763065 TAATTAAGCATTAGTC
1 TAATTAAGCATTAGTC
2763081 TAATTAAGCATTAGTC
1 TAATTAAGCATTAGTC
2763097 T
1 T
2763098 TTCTAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (16 bp):
TAATTAAGCATTAGTC
Found at i:2765508 original size:19 final size:18
Alignment explanation
Indices: 2765453--2765521 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
2765443 TTGAATCAAG
2765453 TTTAATAAT-AA--TTAT
1 TTTAATAATAAATTTTAT
* *
2765468 ATTAATAAT-ATTTTTAAT
1 TTTAATAATAAATTTT-AT
*
2765486 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAT
*
2765505 TTTATTAATAAATTTTA
1 TTTAATAATAAATTTTA
2765522 ATAATTTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 9 0.21
17 2 0.05
18 16 0.38
19 10 0.24
20 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:2765513 original size:14 final size:15
Alignment explanation
Indices: 2765473--2765513 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
2765463 ATTATATTAA
*
2765473 TAATATTTTTAATTT
1 TAATATTATTAATTT
2765488 TAATATTA-TAATTT
1 TAATATTATTAATTT
*
2765502 T-ATTTTATTAAT
1 TAATATTATTAAT
2765514 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAATATTATTAATTT
Found at i:2765521 original size:32 final size:30
Alignment explanation
Indices: 2765483--2765563 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
2765473 TAATATTTTT
*
2765483 AATTTTAATATTATAATTTTATTTTATTAATA
1 AATTTTAATATTATAATTTAATTTTA--AATA
2765515 AATTTTAATAATT-TAATTTAATTTTAAATA
1 AATTTTAAT-ATTATAATTTAATTTTAAATA
2765545 ATATTCTTAATA-TATAATT
1 A-ATT-TTAATATTATAATT
2765564 AAAAAATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 6 0.14
31 9 0.20
32 26 0.59
33 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (30 bp):
AATTTTAATATTATAATTTAATTTTAAATA
Found at i:2767075 original size:15 final size:15
Alignment explanation
Indices: 2767027--2767075 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
2767017 CATTTTTTCG
*
2767027 AATTGAGTCGAGTGA
1 AATTGAATCGAGTGA
** *
2767042 AATAAAATCGAGTCA
1 AATTGAATCGAGTGA
2767057 AATTGAATCGAGTGA
1 AATTGAATCGAGTGA
2767072 AATT
1 AATT
2767076 ATTCAAGTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (15 bp):
AATTGAATCGAGTGA
Found at i:2767622 original size:16 final size:17
Alignment explanation
Indices: 2767601--2767634 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2767591 AATTAGCTGG
2767601 TAATTAAGCAT-TAGTC
1 TAATTAAGCATCTAGTC
2767617 TAATTAAGCATCTAGTC
1 TAATTAAGCATCTAGTC
2767634 T
1 T
2767635 TTCTAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (17 bp):
TAATTAAGCATCTAGTC
Found at i:2768453 original size:28 final size:28
Alignment explanation
Indices: 2768402--2768458 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
2768392 TGGAATGAGC
*
2768402 CACTTAAAAAATTATTTATAGAAATAGGT
1 CACTTAAAAAATTATTTACAGAAAT-GGT
*
2768431 CACTTAAAAAA-TATTTACCGAAATGGT
1 CACTTAAAAAATTATTTACAGAAATGGT
2768458 C
1 C
2768459 CAAAAAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.15
28 11 0.42
29 11 0.42
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (28 bp):
CACTTAAAAAATTATTTACAGAAATGGT
Found at i:2770190 original size:47 final size:47
Alignment explanation
Indices: 2770121--2770218 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
2770111 ATTATTCGAG
2770121 TTATTCAAATTTTAAAATTTAACTCGAAGCTTGACTTATAAATATTT
1 TTATTCAAATTTTAAAATTTAACTCGAAGCTTGACTTATAAATATTT
2770168 TTATTCAAATTTTAAAATTTAACTCGAAGCTTGACTTATAAATATTT
1 TTATTCAAATTTTAAAATTTAACTCGAAGCTTGACTTATAAATATTT
2770215 TTAT
1 TTAT
2770219 GTTTTATATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (47 bp):
TTATTCAAATTTTAAAATTTAACTCGAAGCTTGACTTATAAATATTT
Found at i:2770646 original size:20 final size:21
Alignment explanation
Indices: 2770608--2770650 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
2770598 TTAAAAAAAA
*
2770608 TTTATACTATTTTTTATAATT
1 TTTATACTATTTTTAATAATT
2770629 TTTATACT-TTTTTAATAATT
1 TTTATACTATTTTTAATAATT
2770649 TT
1 TT
2770651 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATACTATTTTTAATAATT
Found at i:2773973 original size:44 final size:44
Alignment explanation
Indices: 2773907--2773994 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
2773897 TAAAAAAAAT
* * *
2773907 CAATTCTCTTATTGTAAAACATTTATAAGAATTTATTCAAGGGA
1 CAATTCTATCATTGTAAAACATTTAAAAGAATTTATTCAAGGGA
* *
2773951 CAATTCTATCATTGTAAGACATTTAAAAGAATTTATTTAAGGGA
1 CAATTCTATCATTGTAAAACATTTAAAAGAATTTATTCAAGGGA
2773995 AAGGATGGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (44 bp):
CAATTCTATCATTGTAAAACATTTAAAAGAATTTATTCAAGGGA
Found at i:2775392 original size:64 final size:64
Alignment explanation
Indices: 2775302--2775430 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
2775292 AACAAAATGG
2775302 TAGCTTCTTTAGGAACAGAAAGGAACAAGATTTTGATACCCAATGAAGAGAAACAAAGATGAAA
1 TAGCTTCTTTAGGAACAGAAAGGAACAAGATTTTGATACCCAATGAAGAGAAACAAAGATGAAA
*
2775366 TAGCTTCTTTAGGAACAGAAATGAACAAGATTTTGATACCCAATGAAGAGAAACAAAGATGAAA
1 TAGCTTCTTTAGGAACAGAAAGGAACAAGATTTTGATACCCAATGAAGAGAAACAAAGATGAAA
2775430 T
1 T
2775431 CTTTCTAAGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (64 bp):
TAGCTTCTTTAGGAACAGAAAGGAACAAGATTTTGATACCCAATGAAGAGAAACAAAGATGAAA
Found at i:2776708 original size:20 final size:20
Alignment explanation
Indices: 2776683--2776720 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2776673 TATATTTAAT
2776683 AATATAAAACATAAAAATTA
1 AATATAAAACATAAAAATTA
2776703 AATATAAAACATAAAAAT
1 AATATAAAACATAAAAAT
2776721 ATTTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AATATAAAACATAAAAATTA
Found at i:2776755 original size:28 final size:28
Alignment explanation
Indices: 2776688--2776755 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
2776678 TTAATAATAT
* *
2776688 AAAACATAAAAATTAAATATAAAACATA
1 AAAATATATAAATTAAATATAAAACATA
* *
2776716 AAAATATTTAAATTAAATA-AAAA-TTAA
1 AAAATATATAAATTAAATATAAAACAT-A
2776743 AAAATAATATAAA
1 AAAAT-ATATAAA
2776756 AATGAAAGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 10 0.30
28 22 0.67
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAATATATAAATTAAATATAAAACATA
Found at i:2797433 original size:93 final size:93
Alignment explanation
Indices: 2797325--2797496 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
2797315 GCTCATAAGT
* * *
2797325 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
2797389 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
2797418 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
2797483 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
2797497 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:2797487 original size:46 final size:46
Alignment explanation
Indices: 2797318--2797492 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
2797308 GTAACCCGCT
* *
2797318 CATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACGCTCGCATC
* * * * *
2797364 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCATC
*** *
2797410 CATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATC
1 CATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATC
2797457 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
2797493 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 35 0.33
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATC
Found at i:2797511 original size:46 final size:45
Alignment explanation
Indices: 2797368--2797511 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
2797358 CGCATCCATA
* * *
2797368 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
2797416 --TCGAACTCAGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
2797461 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
2797507 AGTGA
1 AGTGA
2797512 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
43 4 0.05
46 37 0.49
47 30 0.40
48 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:2800467 original size:29 final size:30
Alignment explanation
Indices: 2800410--2800467 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
2800400 ATATTTCAGG
* *
2800410 AGCCACATAGGCTAGACACACGATCATGTA
1 AGCCACACAGGCTAGACACACGACCATGTA
*
2800440 AGCCACACAGGCT-GGCACACGACCATGT
1 AGCCACACAGGCTAGACACACGACCATGT
2800468 GCCAGACTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (30 bp):
AGCCACACAGGCTAGACACACGACCATGTA
Found at i:2801267 original size:44 final size:44
Alignment explanation
Indices: 2801204--2801290 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
2801194 AAAAAAAAAT
* * *
2801204 CAATTCTCTTATTGTAAAACATTTATAAGAATTTATTCAAGGGG
1 CAATTCTATCATTGTAAAACATTTAAAAGAATTTATTCAAGGGG
*
2801248 CAATTCTATCATTGTAAAACATTTAAAAGAATTTATTTAAGGG
1 CAATTCTATCATTGTAAAACATTTAAAAGAATTTATTCAAGGG
2801291 AAAGGATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (44 bp):
CAATTCTATCATTGTAAAACATTTAAAAGAATTTATTCAAGGGG
Found at i:2803136 original size:14 final size:15
Alignment explanation
Indices: 2803099--2803139 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
2803089 ATTATATAAT
2803099 AATATATAATAAGACA
1 AATATA-AATAAGACA
*
2803115 AATATAAATAAG-TA
1 AATATAAATAAGACA
2803129 AATATAAATAA
1 AATATAAATAA
2803140 AATATAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (15 bp):
AATATAAATAAGACA
Found at i:2811868 original size:27 final size:26
Alignment explanation
Indices: 2811818--2811872 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
2811808 TTTATGTTTT
2811818 ATATTTAATAATATAAAACATAAAAA
1 ATATTTAATAATATAAAACATAAAAA
*
2811844 ATATTTAAATTAA-ATAAAA-ATTAAAA
1 ATATTT-AA-TAATATAAAACATAAAAA
2811870 ATA
1 ATA
2811873 ATGTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 15 0.58
27 8 0.31
28 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
ATATTTAATAATATAAAACATAAAAA
Found at i:2822882 original size:27 final size:27
Alignment explanation
Indices: 2822848--2822902 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2822838 CACCGATAAA
2822848 AAGAATTAATTTTGGACTTAAAAAACT
1 AAGAATTAATTTTGGACTTAAAAAACT
2822875 AAGAATTAATTTTGGACTTAAAAAACT
1 AAGAATTAATTTTGGACTTAAAAAACT
2822902 A
1 A
2822903 TATGCTCGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (27 bp):
AAGAATTAATTTTGGACTTAAAAAACT
Found at i:2823047 original size:18 final size:19
Alignment explanation
Indices: 2823024--2823061 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2823014 CGTCCCAAAA
2823024 TATAAAT-TTTGT-AATTTT
1 TATAAATATTT-TAAATTTT
2823042 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
2823061 T
1 T
2823062 GTTGAGAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:2823731 original size:33 final size:33
Alignment explanation
Indices: 2823685--2823751 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
2823675 ATGTGTATGC
*
2823685 CACATTAGTAAAGTTAAAAAATCGTTAACATTT
1 CACATTAGCAAAGTTAAAAAATCGTTAACATTT
2823718 CACATTAGCAAAGTTAAAAAATCGTTAACATTT
1 CACATTAGCAAAGTTAAAAAATCGTTAACATTT
2823751 C
1 C
2823752 TATCCATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (33 bp):
CACATTAGCAAAGTTAAAAAATCGTTAACATTT
Found at i:2826462 original size:19 final size:19
Alignment explanation
Indices: 2826425--2826462 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2826415 CTACCTTTCT
*
2826425 TCTTTCTCTTCTCATCCTC
1 TCTTTCTCATCTCATCCTC
2826444 TCTTTCTCAATCTCA-CCTC
1 TCTTTCTC-ATCTCATCCTC
2826463 CCCAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.11, C:0.42, G:0.00, T:0.47
Consensus pattern (19 bp):
TCTTTCTCATCTCATCCTC
Found at i:2826882 original size:154 final size:154
Alignment explanation
Indices: 2826715--2826998 Score: 532
Period size: 154 Copynumber: 1.8 Consensus size: 154
2826705 AATATTATAA
2826715 AACATAAAAATATTAAAATTAAATAATAATATAGAAATGAAATTTTTTTCTCCAAATTTCTCATC
1 AACATAAAAATATTAAAATTAAATAATAATATAGAAATGAAATTTTTTTCTCCAAATTTCTCATC
*
2826780 CAAATATAGTCTAAAAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAATT
66 CAAATACAGTCTAAAAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAATT
2826845 ATATATTGTATCATCAAAATTTTC
131 ATATATTGTATCATCAAAATTTTC
* *
2826869 AACATGAAAATATTAAAATTAAATAATAATATAGAAATGGAATTTTTTTCTCCAAATTTCTCATC
1 AACATAAAAATATTAAAATTAAATAATAATATAGAAATGAAATTTTTTTCTCCAAATTTCTCATC
*
2826934 CAAATACAGTCTAAGAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAATT
66 CAAATACAGTCTAAAAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAATT
2826999 TCTCATCAAA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 126 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (154 bp):
AACATAAAAATATTAAAATTAAATAATAATATAGAAATGAAATTTTTTTCTCCAAATTTCTCATC
CAAATACAGTCTAAAAAAGCTTGAAAGCTGAAATTTAAAAATATTTCTATCAAAAGTGAACAATT
ATATATTGTATCATCAAAATTTTC
Found at i:2830948 original size:41 final size:41
Alignment explanation
Indices: 2830891--2831235 Score: 555
Period size: 41 Copynumber: 8.4 Consensus size: 41
2830881 GGTTTTAAAA
*
2830891 CCTAGCAGGCTAAGTGCCGGTGAACTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
*
2830932 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
*
2830973 CCTAGCAGGCTAAGTGCCGGTGAACTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* *
2831014 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
*
2831055 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCGGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* * * *
2831096 CCTAGCAGGTTAAGTGCCGGTGATCTGAATTAAGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
2831137 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* * * *
2831178 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
*
2831219 CCTAACAGGCTAAGTGC
1 CCTAGCAGGCTAAGTGC
2831236 TAGTGAATCT
Statistics
Matches: 280, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 280 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
Found at i:2845038 original size:16 final size:16
Alignment explanation
Indices: 2844987--2845036 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 16
2844977 GGATGAGAAG
2844987 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTAGGGG---AA
2845006 TAAAAAGTTTAGGGGAA
1 T-AAAAGTTTAGGGGAA
2845023 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
2845037 AAAATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
19 1 0.03
20 13 0.45
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGGAA
Found at i:2847374 original size:19 final size:21
Alignment explanation
Indices: 2847347--2847397 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
2847337 AAATTTGAAA
*
2847347 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTAAAAATTAT
2847367 TTTG-AA-TTTTAAAAATTAT
1 TTTGAAATTTTTAAAAATTAT
*
2847386 TTTGTAATTTTT
1 TTTGAAATTTTT
2847398 GTTGAGAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 6 0.22
21 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
TTTGAAATTTTTAAAAATTAT
Found at i:2847382 original size:18 final size:20
Alignment explanation
Indices: 2847355--2847396 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
2847345 AATTTGAAAT
*
2847355 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGTAA
2847373 TTTTAAAAATTATTTTGTAA
1 TTTTAAAAATTATTTTGTAA
2847393 TTTT
1 TTTT
2847397 TGTTGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGTAA
Found at i:2849336 original size:97 final size:98
Alignment explanation
Indices: 2849218--2849409 Score: 323
Period size: 98 Copynumber: 2.0 Consensus size: 98
2849208 TAGGTCAGAA
*
2849218 TAAAAGAACATCCACTCATCCAAGATTTAA-AAATCACACCCAATACGTTAGGGCACGATCCCTT
1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
* *
2849282 TAGAATCCCAAACTCGGAATATTTCCTTTACTT
66 TAAAATCCCAAACTCGGAATATTCCCTTTACTT
* *
2849315 TAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTT
1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
*
2849380 TAAAATCCCAAATTCGGAATATTCCCTTTA
66 TAAAATCCCAAACTCGGAATATTCCCTTTA
2849410 TTATTTTTAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 29 0.33
98 59 0.67
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.27
Consensus pattern (98 bp):
TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
TAAAATCCCAAACTCGGAATATTCCCTTTACTT
Found at i:2849740 original size:13 final size:13
Alignment explanation
Indices: 2849722--2849754 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2849712 AATGGCATAA
2849722 AAATAATATAAAC-
1 AAATAA-ATAAACG
2849735 AAATAAATAAACG
1 AAATAAATAAACG
2849748 AAATAAA
1 AAATAAA
2849755 AAAATAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:2852780 original size:14 final size:11
Alignment explanation
Indices: 2852748--2852772 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2852738 AAAATATTAA
2852748 AATTAAATAAT
1 AATTAAATAAT
2852759 AATTAAATAAT
1 AATTAAATAAT
2852770 AAT
1 AAT
2852773 ATAGAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAAATAAT
Found at i:2855555 original size:222 final size:222
Alignment explanation
Indices: 2855168--2855624 Score: 659
Period size: 222 Copynumber: 2.1 Consensus size: 222
2855158 ACCTTACTGA
* * ** *
2855168 ATTTCCAGAATTCATTAAAAGGCAAGACAAGTTGGTTGGCTTAGATCTTTCTAACAACCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCC
* **
2855233 ATGGTTTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATGGGTAGACCTTTCTTTCAATATG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
* *
2855298 ATTGATTTTCCAAAACAGCTTCCCTTAAATGATGCAAACTTTTCATTT-CCAATGTTGA-AAGAC
131 ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTC-TTTCCCAATGTTGAGAAGA-
*
2855361 TTGCGT-TTGACATCCTGTAACATAAGTGC
194 TTGCGTCTGGA-ATCCTGTAACATAAGTGC
* *
2855390 GTTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAGCAACCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCC
* * * *
2855455 ATGGTGTTGTGCCTAATTGGTTGTGGAAGAGCAGTCTTTTATCCTTAGACCTTTCTTTCAATGTG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
* * **
2855520 ATTGATTTTCCAAAACAACTTCCTTTAAGTGATGCAAACTTCTCTTTCCCAATGTTGAGGCGATT
131 ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGAGAAGATT
*
2855585 GCGTCTGGAATCTTGTAACATAAGTGC
196 GCGTCTGGAATCCTGTAACATAAGTGC
*
2855612 ATTTCCGGAGTTC
1 ATTTCCAGAGTTC
2855625 TTAAAGAGTC
Statistics
Matches: 208, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
221 3 0.01
222 200 0.96
223 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (222 bp):
ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCC
ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGAGAAGATT
GCGTCTGGAATCCTGTAACATAAGTGC
Found at i:2855775 original size:72 final size:72
Alignment explanation
Indices: 2855658--2855855 Score: 299
Period size: 72 Copynumber: 2.8 Consensus size: 72
2855648 AGAATTCGAC
* * *
2855658 GCATCTTCTAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGC-TTAGCG
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTA-CA
2855722 GTTTAGAT
65 GTTTAGAT
*
2855730 GCATCTTATAACAATTCGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTACAG
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTACAG
*
2855795 TTTCGAT
66 TTTAGAT
* * **
2855802 GTATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGGCAATATGAGT
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGT
2855856 GCTCTGAGTT
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
72 112 0.97
73 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (72 bp):
GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTACAG
TTTAGAT
Found at i:2859237 original size:15 final size:15
Alignment explanation
Indices: 2859194--2859243 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2859184 CATTTTTTCG
*
2859194 AATTGAGTCGAGTGA
1 AATTGAATCGAGTGA
** *
2859209 AATAAAATTCGAGTCA
1 AATTGAA-TCGAGTGA
2859225 AATTGAATCGAGTGA
1 AATTGAATCGAGTGA
2859240 AATT
1 AATT
2859244 ATTCAAGTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (15 bp):
AATTGAATCGAGTGA
Found at i:2859432 original size:19 final size:19
Alignment explanation
Indices: 2859411--2859447 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2859401 AATTTAATTT
*
2859411 TTTTATAAA-TATTTTGAA
1 TTTTAAAAACTATTTTGAA
2859429 TTTTAAAAACTATTTTGAA
1 TTTTAAAAACTATTTTGAA
2859448 ATATTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAAAAACTATTTTGAA
Found at i:2859797 original size:16 final size:16
Alignment explanation
Indices: 2859776--2859808 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2859766 AATTAGCTGG
2859776 TAATTAAGCATTAGTC
1 TAATTAAGCATTAGTC
2859792 TAATTAAGCATTAGTC
1 TAATTAAGCATTAGTC
2859808 T
1 T
2859809 TTCTAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (16 bp):
TAATTAAGCATTAGTC
Found at i:2862211 original size:20 final size:19
Alignment explanation
Indices: 2862181--2862239 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
2862171 TTTAATATAA
*
2862181 TTATATTAATAATATATTT
1 TTATTTTAATAATATATTT
* *
2862200 TTAATTTTAATATTATAATT
1 TT-ATTTTAATAATATATTT
* *
2862220 TTATTTTATTAATAAATTT
1 TTATTTTAATAATATATTT
2862239 T
1 T
2862240 AATAATTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTTAATAATATATTT
Found at i:2862242 original size:32 final size:30
Alignment explanation
Indices: 2862202--2862282 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
2862192 ATATATTTTT
*
2862202 AATTTTAATATTATAATTTTATTTTATTAATA
1 AATTTTAATATTATAATTTAATTTTA--AATA
2862234 AATTTTAATAATT-TAATTTAATTTTAAATA
1 AATTTTAAT-ATTATAATTTAATTTTAAATA
2862264 ATATTCTTAATA-TATAATT
1 A-ATT-TTAATATTATAATT
2862283 AAAAAATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 6 0.14
31 9 0.20
32 26 0.59
33 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (30 bp):
AATTTTAATATTATAATTTAATTTTAAATA
Found at i:2862251 original size:14 final size:14
Alignment explanation
Indices: 2862186--2862252 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 14
2862176 TATAATTATA
* *
2862186 TTAATAATATATTT
1 TTAATAATTTAATT
*
2862200 TTAAT--TTTAATA
1 TTAATAATTTAATT
*
2862212 TT-ATAATTTTATT
1 TTAATAATTTAATT
* *
2862225 TTATTAA-TAAATT
1 TTAATAATTTAATT
2862238 TTAATAATTTAATT
1 TTAATAATTTAATT
2862252 T
1 T
2862253 AATTTTAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
11 2 0.05
12 6 0.15
13 17 0.44
14 14 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATAATTTAATT
Found at i:2866243 original size:72 final size:72
Alignment explanation
Indices: 2866117--2866319 Score: 273
Period size: 72 Copynumber: 2.8 Consensus size: 72
2866107 GCTTTTTCTA
* * *
2866117 TTTCGACGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAAC
1 TTTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTAGGCAATATGAGTCAAC
2866182 TTGGCAG
66 TTGGCAG
** * ** * *
2866189 TTTTTATGCATCTTCTAACAATTTGAGTGGGTCAATTCCAAATTGCTTGGGCAATATGAGTCAAT
1 TTTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTAGGCAATATGAGTCAAC
2866254 TTGGCAG
66 TTGGCAG
* * *
2866261 TTTCGGT-CTATCTTGTAACAATTTGAGTGGCCCAATTCCAAATTGCTTAGGCAAAATGA
1 TTTCGATGC-ATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTAGGCAATATGA
2866320 ATGCTATTTC
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
71 1 0.01
72 111 0.99
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (72 bp):
TTTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTAGGCAATATGAGTCAAC
TTGGCAG
Found at i:2875078 original size:16 final size:16
Alignment explanation
Indices: 2875027--2875076 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 16
2875017 GGATGAGAAG
2875027 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTAGGGG---AA
2875046 TAAAAAGTTTAGGGGAA
1 T-AAAAGTTTAGGGGAA
2875063 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
2875077 AAAATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
19 1 0.03
20 13 0.45
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGGAA
Found at i:2877417 original size:19 final size:21
Alignment explanation
Indices: 2877390--2877440 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
2877380 AAATTTGAAA
*
2877390 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTAAAAATTAT
2877410 TTTG-AA-TTTTAAAAATTAT
1 TTTGAAATTTTTAAAAATTAT
*
2877429 TTTGTAATTTTT
1 TTTGAAATTTTT
2877441 GTTGAGAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 6 0.22
21 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
TTTGAAATTTTTAAAAATTAT
Found at i:2877425 original size:18 final size:20
Alignment explanation
Indices: 2877398--2877439 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
2877388 AATTTGAAAT
*
2877398 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGTAA
2877416 TTTTAAAAATTATTTTGTAA
1 TTTTAAAAATTATTTTGTAA
2877436 TTTT
1 TTTT
2877440 TGTTGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGTAA
Found at i:2878883 original size:26 final size:26
Alignment explanation
Indices: 2878834--2878888 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 26
2878824 TTTATGTTTT
2878834 ATATTTAATAATATAAAACATAAA-A
1 ATATTTAATAATATAAAACATAAATA
2878859 ATATTTAAATTAA-ATAAAA-ATTAAATA
1 ATATTT-AA-TAATATAAAACA-TAAATA
2878886 ATA
1 ATA
2878889 ATGTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
25 7 0.27
26 12 0.46
27 7 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
ATATTTAATAATATAAAACATAAATA
Found at i:2879384 original size:17 final size:18
Alignment explanation
Indices: 2879362--2879400 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2879352 ATTTTAGAAT
* *
2879362 TTTTAAGAA-TATTTTGA
1 TTTTAAAAATTATTTTAA
2879379 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
2879397 TTTT
1 TTTT
2879401 TTTGTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:2880369 original size:26 final size:25
Alignment explanation
Indices: 2880340--2880390 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2880330 AAGTGAAATA
* *
2880340 ATAATAAAAATTATTATAGTTTTTAT
1 ATAATAAAAATT-TTAGAATTTTTAT
*
2880366 ATAATATAAATTTTAGAATTTTTAT
1 ATAATAAAAATTTTAGAATTTTTAT
2880391 GAATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
ATAATAAAAATTTTAGAATTTTTAT
Found at i:2883603 original size:222 final size:222
Alignment explanation
Indices: 2883216--2883672 Score: 659
Period size: 222 Copynumber: 2.1 Consensus size: 222
2883206 ACCTTACTGA
* * **
2883216 ATTTCCAGAATTCATTAAAAGGCAAGACAAGTTGGTTGACTTAGATCTTTCGAACAACCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCGAACAACCATATCC
* **
2883281 ATGGTTTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATGGGTAGACCTTTCTTTCAATATG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
* *
2883346 ATTGATTTTCCAAAACAGCTTCCCTTAAATGATGCAAACTTTTCATTT-CCAATGTTGA-AAGAC
131 ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTC-TTTCCCAATGTTGAGAAGA-
*
2883409 TTGCGT-TTGACATCCTGTAACATAAGTGC
194 TTGCGTCTGGA-ATCCTGTAACATAAGTGC
* * *
2883438 GTTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCTAGCAACCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCGAACAACCATATCC
* * * *
2883503 ATGGTGTTGTGCCTAATTGGTTGTGGAAGAGCAGTCTTTTATCCTTAGACCTTTCTTTCAATGTG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
* * **
2883568 ATTGATTTTCCAAAACAACTTCCTTTAAGTGATGCAAACTTCTCTTTCCCAATGTTGAGGCGATT
131 ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGAGAAGATT
*
2883633 GCGTCTGGAATCTTGTAACATAAGTGC
196 GCGTCTGGAATCCTGTAACATAAGTGC
*
2883660 ATTTCCGGAGTTC
1 ATTTCCAGAGTTC
2883673 TTAAAGAGTC
Statistics
Matches: 208, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
221 3 0.01
222 200 0.96
223 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (222 bp):
ATTTCCAGAGTTCATCAAAACACAAGACAAGTTGGTTGACTTAGATCTTTCGAACAACCATATCC
ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATCCGTAGACCTTTCTTTCAATATG
ATTGATTTTCCAAAACAACTTCCCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGAGAAGATT
GCGTCTGGAATCCTGTAACATAAGTGC
Found at i:2883823 original size:72 final size:72
Alignment explanation
Indices: 2883706--2883903 Score: 308
Period size: 72 Copynumber: 2.8 Consensus size: 72
2883696 AGAATTCGAC
* * *
2883706 GCATCTTCTAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAGC-TTAGCG
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTA-CA
2883770 GTTTAGAT
65 GTTTAGAT
2883778 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTACAG
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTACAG
*
2883843 TTTCGAT
66 TTTAGAT
* * **
2883850 GTATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGGCAATATGAGT
1 GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGT
2883904 GCTCTGAGTT
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 114 0.97
73 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (72 bp):
GCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTACAG
TTTAGAT
Found at i:2886883 original size:20 final size:21
Alignment explanation
Indices: 2886860--2886906 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
2886850 ATATATATAA
*
2886860 TTTGAAATTTTAATAAA-TAT
1 TTTGAAATTTTAAAAAATTAT
2886880 TTTG-AA-TTTAAAAAATTAT
1 TTTGAAATTTTAAAAAATTAT
2886899 TTTGAAAT
1 TTTGAAAT
2886907 ATTTTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
TTTGAAATTTTAAAAAATTAT
Found at i:2887235 original size:12 final size:12
Alignment explanation
Indices: 2887218--2887242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2887208 AATTAGCTGG
2887218 TAAGCATTAGTC
1 TAAGCATTAGTC
2887230 TAAGCATTAGTC
1 TAAGCATTAGTC
2887242 T
1 T
2887243 TTCTAATTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TAAGCATTAGTC
Found at i:2887524 original size:27 final size:27
Alignment explanation
Indices: 2887469--2887531 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
2887459 TTATGTTTTA
**
2887469 GGTCCGGGTGTAAAGGGTGGACTTATT
1 GGTCCGGGTGTAAAGGGTGGACCCATT
* *
2887496 GGTCTGGGTGTAAAGGGTGGACCCCTT
1 GGTCCGGGTGTAAAGGGTGGACCCATT
2887523 GGTCCGGGT
1 GGTCCGGGT
2887532 TTTAGTGCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.14, C:0.16, G:0.43, T:0.27
Consensus pattern (27 bp):
GGTCCGGGTGTAAAGGGTGGACCCATT
Found at i:2888224 original size:18 final size:18
Alignment explanation
Indices: 2888180--2888225 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
2888170 AGGTGACTGA
* *
2888180 GATGAAGATGCTGATGTT
1 GATGATGATGCTGATGTG
*
2888198 GATGCTGATGCTGATGTG
1 GATGATGATGCTGATGTG
*
2888216 GTTGATGATG
1 GATGATGATG
2888226 GCAATGATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.37, T:0.35
Consensus pattern (18 bp):
GATGATGATGCTGATGTG
Found at i:2888793 original size:29 final size:31
Alignment explanation
Indices: 2888739--2888797 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2888729 ATATCAAAAT
2888739 TATATATAAACTTTAATTTAGTGTGTAATTG
1 TATATATAAACTTTAATTTAGTGTGTAATTG
* *
2888770 TATATATGAACTTTAGTTT-G-GTGTAATT
1 TATATATAAACTTTAATTTAGTGTGTAATT
2888798 ATACACGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 1 0.04
31 17 0.65
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.49
Consensus pattern (31 bp):
TATATATAAACTTTAATTTAGTGTGTAATTG
Found at i:2889038 original size:29 final size:30
Alignment explanation
Indices: 2888992--2889050 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
2888982 GAATTGGATC
*
2888992 AAATCAAAATTTCATGTATA-ACATTGCACA
1 AAATCAAAATTTAATGTATACA-ATTGCACA
2889022 AAATCAAAA-TTAATGTATACAATTGCACA
1 AAATCAAAATTTAATGTATACAATTGCACA
2889051 TTAATCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTAATGTATACAATTGCACA
Found at i:2889696 original size:19 final size:18
Alignment explanation
Indices: 2889667--2889709 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
2889657 AATAATGTAT
*
2889667 TTTTAATTTTAATATTATAA
1 TTTT-ATTTTAATAATA-AA
*
2889687 TTTTATTTTATTAATAAA
1 TTTTATTTTAATAATAAA
2889705 TTTTA
1 TTTTA
2889710 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATTTTAATAATAAA
Found at i:2889720 original size:14 final size:14
Alignment explanation
Indices: 2889655--2889721 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 14
2889645 TATAATTATA
* *
2889655 TTAATAATGTATTT
1 TTAATAATTTAATT
*
2889669 TTAAT--TTTAATA
1 TTAATAATTTAATT
*
2889681 TT-ATAATTTTATT
1 TTAATAATTTAATT
* *
2889694 TTATTAA-TAAATT
1 TTAATAATTTAATT
2889707 TTAATAATTTAATT
1 TTAATAATTTAATT
2889721 T
1 T
2889722 AATTTTAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
11 2 0.05
12 6 0.15
13 17 0.44
14 14 0.36
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (14 bp):
TTAATAATTTAATT
Found at i:2891606 original size:15 final size:14
Alignment explanation
Indices: 2891586--2891616 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
2891576 TTTTAAAATT
2891586 TACTTATATATATCA
1 TACTTATATATA-CA
2891601 TACTTATATATACA
1 TACTTATATATACA
2891615 TA
1 TA
2891617 TTTTGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (14 bp):
TACTTATATATACA
Found at i:2898830 original size:72 final size:71
Alignment explanation
Indices: 2898711--2898907 Score: 261
Period size: 72 Copynumber: 2.7 Consensus size: 71
2898701 ATTTTCGACA
* * * *
2898711 CATCTTCTAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAACTTTACAGA
1 CATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT-GGCAATATGAGTCAACTTGACA-A
2898776 T-TCAATG
64 TGTCAATG
* * * *
2898783 CATCTTATAACAATTTTAGTGGCTCAATTCCAAATTGCTTGGACAATATGAGCCAACTTGACACT
1 CATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGG-CAATATGAGTCAACTTGACAAT
*
2898848 GTCGATG
65 GTCAATG
*
2898855 TATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGGCAATATGAGT
1 CATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT-GGCAATATGAGT
2898908 GCTCTGATGT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 2 0.02
72 105 0.96
73 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (71 bp):
CATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGCAATATGAGTCAACTTGACAATG
TCAATG
Found at i:2905341 original size:19 final size:19
Alignment explanation
Indices: 2905304--2905341 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2905294 CTACCTTTCT
*
2905304 TCTTTCTCTTCTCATCCTC
1 TCTTTCTCATCTCATCCTC
2905323 TCTTTCTCAATCTCA-CCTC
1 TCTTTCTC-ATCTCATCCTC
2905342 CCCAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.11, C:0.42, G:0.00, T:0.47
Consensus pattern (19 bp):
TCTTTCTCATCTCATCCTC
Found at i:2905413 original size:10 final size:9
Alignment explanation
Indices: 2905393--2905428 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
2905383 AAAATATAAA
*
2905393 TTTTGGAAT
1 TTTTTGAAT
2905402 TTTTATGAAT
1 TTTT-TGAAT
2905412 TTTTTGAAT
1 TTTTTGAAT
2905421 TTTTTGAA
1 TTTTTGAA
2905429 AAGTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (9 bp):
TTTTTGAAT
Found at i:2905420 original size:19 final size:18
Alignment explanation
Indices: 2905393--2905428 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2905383 AAAATATAAA
2905393 TTTTGGAATTTTTATGAAT
1 TTTTGGAATTTTT-TGAAT
*
2905412 TTTTTGAATTTTTTGAA
1 TTTTGGAATTTTTTGAA
2905429 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (18 bp):
TTTTGGAATTTTTTGAAT
Found at i:2906819 original size:222 final size:222
Alignment explanation
Indices: 2906459--2906888 Score: 736
Period size: 222 Copynumber: 1.9 Consensus size: 222
2906449 AAAGGCAACC
* * *
2906459 CAAGTTGGTTGACTTAGATCTTTCTAATAACCATATCCATGGTTTTGTGCCCAATTGGTTGTGGA
1 CAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCCATGGTGTTGTGCCCAATTGGTTCTGGA
* * * *
2906524 AGAGCAGTCTTTCATGGGTAGACCTTTCTTTCAATGTGATTGATTTTCCAAAACAGCTTCCCTTA
66 AGAGCAGCCTTTCAAGGGTAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAACTTCCCTTA
*
2906589 AATGATGCAAACTTCTCATTTCCAATGTTGGCA-GACTTGGATTTGAGATCCTGCAACATAAGTG
131 AATGATGCAAACTTCTCATTTCCAATGTTGACAGGA-TTGGATTTGAGATCCTGCAACATAAGTG
2906653 CGTTTCCAGAGTTCATCAAAACACAAGA
195 CGTTTCCAGAGTTCATCAAAACACAAGA
* *
2906681 CAAGTTGGTTGACTTAGATCTTTCTAACAATCATATCCATGGTGTTGTGCCTAATTGGTTCTGGA
1 CAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCCATGGTGTTGTGCCCAATTGGTTCTGGA
2906746 AGAGCAGCCTTTCAAGGGTAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAACTTCCCTTA
66 AGAGCAGCCTTTCAAGGGTAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAACTTCCCTTA
* *
2906811 AATGATGCAAACTTCTTATTTCCAATGTTGACAGGATTGGATTTGAGATCCTGTAACATAAGTGC
131 AATGATGCAAACTTCTCATTTCCAATGTTGACAGGATTGGATTTGAGATCCTGCAACATAAGTGC
2906876 GTTTCCAGAGTTC
196 GTTTCCAGAGTTC
2906889 TTAAAGAGTC
Statistics
Matches: 195, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
222 193 0.99
223 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (222 bp):
CAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCCATGGTGTTGTGCCCAATTGGTTCTGGA
AGAGCAGCCTTTCAAGGGTAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAACTTCCCTTA
AATGATGCAAACTTCTCATTTCCAATGTTGACAGGATTGGATTTGAGATCCTGCAACATAAGTGC
GTTTCCAGAGTTCATCAAAACACAAGA
Found at i:2907003 original size:72 final size:71
Alignment explanation
Indices: 2906916--2907119 Score: 309
Period size: 72 Copynumber: 2.8 Consensus size: 71
2906906 TTTAGAAGAA
* * * *
2906916 TTCGACGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCTACT
1 TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT-GGCAATATGAGTCAACT
* *
2906981 TTACACT
65 TGAAACT
*
2906988 TTCGATGCATCTTATAACAATTTGAGTGGCTCAATTCCAAATTGCTTGGTCAATATGAGTCAACT
1 TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGG-CAATATGAGTCAACT
2907053 TGAAACT
65 TGAAACT
*
2907060 TTCGATGTATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGGCAATATGAGT
1 TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT-GGCAATATGAGT
2907120 GCTCTGATTT
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.01
72 118 0.98
73 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (71 bp):
TTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGCAATATGAGTCAACTT
GAAACT
Found at i:2910777 original size:222 final size:222
Alignment explanation
Indices: 2910341--2910797 Score: 605
Period size: 222 Copynumber: 2.1 Consensus size: 222
2910331 ACCTTACTGA
* * ** * * *
2910341 ATTTCCAGAATTCATTAAAAGGCAAGACAAGTTGGTTGACCTCGATCTTTCTAACAGCCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTAGTTGACCTAGATCTTTCTAACAACCATATCC
* * * * *
2910406 ATGGTTTTGTGCCCAATTGGTTGTGGAAGAGCAGTCTTTCATGGGTAGACCTTTCTTTCAATGTG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCACTCTTTCAGGGGCAAACCTTTCTTTCAATGTG
2910471 ATTGATTTTCCAAAACAGCTTCCCTTGAATGATGCAAACTTCTCATTTCCAATGTTGAAAGAATT
131 ATTGATTTTCCAAAACAGCTTCCCTTGAATGATGCAAACTTCTCATTTCCAATGTTGAAAGAATT
* *
2910536 GCGTTTGAGATCCTGTAACATAAG-TGC
196 GCATTGGAGATCCTGTAACATAAGAT-C
* ***
2910563 GTTTCCAGAGTTCATCAAAACACAAGACAAGTTAGTTGTGTTAGATCTTTCTAACAACCATATCC
1 ATTTCCAGAGTTCATCAAAACACAAGACAAGTTAGTTGACCTAGATCTTTCTAACAACCATATCC
* * *
2910628 ATGGTGTTGTGCCTAATTGGTTGTGGAATAGCTCTCTTTCAGGGGCAAACCTTTCTTTCAATGTG
66 ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCACTCTTTCAGGGGCAAACCTTTCTTTCAATGTG
** * * **
2910693 ATTGATTTTCCAAAACAGCTTCCCTT-AAGTGATTTAAACTTCTCTTTTTCAATGTTGAGGGAAT
131 ATTGATTTTCCAAAACAGCTTCCCTTGAA-TGATGCAAACTTCTCATTTCCAATGTTGAAAGAAT
* *
2910757 TGTATCTGGA-ATCTTGTAACATAAGATC
195 TGCAT-TGGAGATCCTGTAACATAAGATC
2910785 ATTTCCAGAGTTC
1 ATTTCCAGAGTTC
2910798 TTAAAGAGTC
Statistics
Matches: 202, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
221 2 0.01
222 196 0.97
223 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (222 bp):
ATTTCCAGAGTTCATCAAAACACAAGACAAGTTAGTTGACCTAGATCTTTCTAACAACCATATCC
ATGGTGTTGTGCCCAATTGGTTGTGGAAGAGCACTCTTTCAGGGGCAAACCTTTCTTTCAATGTG
ATTGATTTTCCAAAACAGCTTCCCTTGAATGATGCAAACTTCTCATTTCCAATGTTGAAAGAATT
GCATTGGAGATCCTGTAACATAAGATC
Found at i:2910877 original size:222 final size:222
Alignment explanation
Indices: 2910440--2910877 Score: 458
Period size: 222 Copynumber: 2.0 Consensus size: 222
2910430 GGAAGAGCAG
* * *
2910440 TCTTTCATGGGTAGACCTTTCTTTCAATGTGATTGATTTTCCAAAACAGCTTCCCTTGAATGATG
1 TCTTTCAGGGGCAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAGCTTCCCTTGAATGATG
* * *
2910505 CAAACTTCTCATTTCCAATGTTGAAAGAATTGCGTTTGAGATCCTGTAACATAAGTGCGTTTCCA
66 CAAACTTCTCATTTCCAATGTTGAAAGAATTGCATTGGAGATCCTGTAACATAAGTGCATTTCCA
* * * * * * * * *
2910570 GAGTTCATCAAAACACAAGACAAGTTAGTTGTGTTAGATCTTTCTAACAACCATATCCATGGTGT
131 GAGTTCATCAAAACACAAGAAAAGTTAGATATGCTAGATCTTTCAAACAACAAAATCAATGGTGA
* * * *
2910635 TGTGCCTAATTGGTTGTGGAATAGCTC
196 AGTGCCAAACTGGGTGTGGAATAGCTC
2910662 TCTTTCAGGGGCAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAGCTTCCCTT-AAGTGAT
1 TCTTTCAGGGGCAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAGCTTCCCTTGAA-TGAT
** * * ** * *
2910726 TTAAACTTCTCTTTTTCAATGTTGAGGGAATTGTATCTGGA-ATCTTGTAACATAAGAT-CATTT
65 GCAAACTTCTCATTTCCAATGTTGAAAGAATTGCAT-TGGAGATCCTGTAACATAAG-TGCATTT
* ** * * * *
2910789 CCAGAGTTC-TTAAAGAGTCAAGAAAATTTAGAATAT-CTCGATCTTTCAAATAATAAAAT-AAG
128 CCAGAGTTCATCAAA-ACACAAGAAAAGTTAG-ATATGCTAGATCTTTCAAACAACAAAATCAA-
2910851 TGGTGCAAGT-CCAAACTGGGTGTGGAA
190 TGGTG-AAGTGCCAAACTGGGTGTGGAA
2910878 GAAAAGTTTG
Statistics
Matches: 175, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
221 7 0.04
222 160 0.91
223 8 0.05
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (222 bp):
TCTTTCAGGGGCAAACCTTTCTTTCAATGTGATTGATTTTCCAAAACAGCTTCCCTTGAATGATG
CAAACTTCTCATTTCCAATGTTGAAAGAATTGCATTGGAGATCCTGTAACATAAGTGCATTTCCA
GAGTTCATCAAAACACAAGAAAAGTTAGATATGCTAGATCTTTCAAACAACAAAATCAATGGTGA
AGTGCCAAACTGGGTGTGGAATAGCTC
Found at i:2911074 original size:72 final size:72
Alignment explanation
Indices: 2910977--2911181 Score: 272
Period size: 72 Copynumber: 2.8 Consensus size: 72
2910967 ACTCTTTCTA
* *
2910977 TTTCGACGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGGTTATGCAATATGAGTCAAC
1 TTTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTATGCAATATGAGTCAAC
***
2911042 TTCG-CGG
66 TT-GAAAC
* * *
2911049 TTTTGATGCATCTTATAACAATTTGAGTGGCTCAATTCCAAATTGCTTGA-ACAATATGAGTCAA
1 TTTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT-ATGCAATATGAGTCAA
2911113 CTTGAAAC
65 CTTGAAAC
* *
2911121 TTTCGATGTATCCTATAACAATTTGAGTGGCCCAATTCCAAATTGCTT-TGGCAATATGAGT
1 TTTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTAT-GCAATATGAGT
2911182 GCTCTGATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
71 1 0.01
72 114 0.98
73 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (72 bp):
TTTCGATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTATGCAATATGAGTCAAC
TTGAAAC
Found at i:2913030 original size:5 final size:6
Alignment explanation
Indices: 2913013--2913038 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2913003 TAATAATATG
2913013 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
2913039 TGTCACAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:2915332 original size:9 final size:9
Alignment explanation
Indices: 2915318--2915343 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2915308 TAATAATATG
2915318 ATAAAAATA
1 ATAAAAATA
2915327 ATAAAAATA
1 ATAAAAATA
2915336 ATAAAAAT
1 ATAAAAAT
2915344 TTTATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAAAAATA
Found at i:2916211 original size:113 final size:112
Alignment explanation
Indices: 2915998--2916556 Score: 534
Period size: 113 Copynumber: 4.9 Consensus size: 112
2915988 GCATTTTTTG
* * * * * ** *
2915998 GCGGCACTTACCACAAAGCGCCGCAAATAGTAAGCATTAGCGGCGTTTTGAAATAAGTGCCACTA
1 GCGGCGCTTTCCAC-AAGCGCCGCTAATACTATGCATTAGCGGCGTTTT-CCATAAGCGCCACTA
* * * *
2916063 ACTCTAATATACGTCAAGGCCAAACTCTGCGTTTTGGTTAGGATACTTT
64 ATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATACTTT
* *
2916112 GCGGCGCTTTCCACAAGCGCCGCTACTACTATAG-TTTAGCGGCGTTTTCCAATAAGCGCCACTA
1 GCGGCGCTTTCCACAAGCGCCGCTAATACTAT-GCATTAGCGGCGTTTTCC-ATAAGCGCCACTA
* * *
2916176 ATTCTAATATACCTCAAGACCAAACTCCGCGTTTTGGTTAAGATATTTT
64 ATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATACTTT
* * * * * * * * * *
2916225 GAGGCGCTTACAACCAAACGCTGCTATTACTATGCTTTAGTGGCGTTTTCCTTAAACGCCACTAA
1 GCGGCGCTTTCCA-CAAGCGCCGCTAATACTATGCATTAGCGGCGTTTTCCATAAGCGCCACTAA
* * **
2916290 TTATAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATGTTTT
65 TTCTAATATACATCAAGACC-AAACTCTGCGTTTTGGTTAAGATACTTT
* * * * *
2916339 GCGGC-ATTTAACGCTC-AGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCACCA
1 GCGGCGCTTT--C-CACAAGCGCCGCTAATACTATGCATTAGCGGCGTTTTC--CATAAGCGCCA
* * *
2916402 CTAATTGTAATATACATCAACACCAAACTCTGCGTTTTGGTTAACAT-CTTTT
61 CTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATAC-TTT
* * * * *
2916454 GCGGCGC-TTCCGCTAAGCGTCGCTAATACTATGCATTACCGGCGTTTGTTCGTAAGCGCCACTA
1 GCGGCGCTTTCCAC-AAGCGCCGCTAATACTATGCATTAGCGGCGTTT-TCCATAAGCGCCACTA
* *
2916518 ATTCTAATATACATCAAGACCAGAACACTGCGTGTTGGT
64 ATTCTAATATACATCAAGACCA-AACTCTGCGTTTTGGT
2916557 CTTGAGATTC
Statistics
Matches: 366, Mismatches: 63, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
112 2 0.01
113 157 0.43
114 144 0.39
115 34 0.09
116 29 0.08
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (112 bp):
GCGGCGCTTTCCACAAGCGCCGCTAATACTATGCATTAGCGGCGTTTTCCATAAGCGCCACTAAT
TCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATACTTT
Found at i:2916752 original size:41 final size:40
Alignment explanation
Indices: 2916667--2916753 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
2916657 TTAAAAGAAG
* * ****
2916667 CGCCGCTAATGCTAGATCTTTAGCGGCGTTGTATTCTTTG
1 CGCCACTAATGCTAGATCTTTAGCGGCGTTGTAATCCAAA
* *
2916707 CGCCACTAATGCTCGATTTTTAGCGGCGTTTGTAATCCAAA
1 CGCCACTAATGCTAGATCTTTAGCGGCG-TTGTAATCCAAA
2916748 CGCCAC
1 CGCCAC
2916754 AAAATATGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 25 0.66
41 13 0.34
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (40 bp):
CGCCACTAATGCTAGATCTTTAGCGGCGTTGTAATCCAAA
Found at i:2917511 original size:14 final size:11
Alignment explanation
Indices: 2917479--2917503 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2917469 AAAATATTAA
2917479 AATTAAATAAT
1 AATTAAATAAT
2917490 AATTAAATAAT
1 AATTAAATAAT
2917501 AAT
1 AAT
2917504 ATAGAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAAATAAT
Found at i:2927766 original size:21 final size:21
Alignment explanation
Indices: 2927731--2927787 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2927721 ACCAAAATTA
*
2927731 CAAAATAATTTAAAATAATTTT
1 CAAAAT-ATTCAAAATAATTTT
2927753 CAAAATATTCAAAATAATTTT
1 CAAAATATTCAAAATAATTTT
*
2927774 -TAAA-ATTCAAAATA
1 CAAAATATTCAAAATA
2927788 TTCATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 10 0.30
20 3 0.09
21 14 0.42
22 6 0.18
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
CAAAATATTCAAAATAATTTT
Found at i:2935120 original size:24 final size:24
Alignment explanation
Indices: 2935075--2935121 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2935065 TATCAATATA
* *
2935075 AATATTTTTTAATAATATATTAAG
1 AATATTATTTAATAATAAATTAAG
2935099 AATATTATTTAA-AATTAAATTAA
1 AATATTATTTAATAA-TAAATTAA
2935122 ACTATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AATATTATTTAATAATAAATTAAG
Found at i:2935128 original size:32 final size:31
Alignment explanation
Indices: 2935091--2935165 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
2935081 TTTTAATAAT
*
2935091 ATATTAAGAATATTATT-TAAAATTAAATTA-A
1 ATATTAA-AAT-TTATTATAAAATAAAATTATA
2935122 ACTATTAAAATTTATTAATAAAATAAAATTATA
1 A-TATTAAAATTTATT-ATAAAATAAAATTATA
2935155 ATATTAAAATT
1 ATATTAAAATT
2935166 AAAAATACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 5 0.13
31 4 0.10
32 28 0.72
33 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (31 bp):
ATATTAAAATTTATTATAAAATAAAATTATA
Found at i:2935164 original size:19 final size:19
Alignment explanation
Indices: 2935125--2935169 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2935115 AAATTAAACT
*
2935125 ATTAAAATTTATTAATAAA
1 ATTAAAATTTAATAATAAA
*
2935144 A-TAAAATTATAATATTAAA
1 ATTAAAATT-TAATAATAAA
2935163 ATTAAAA
1 ATTAAAA
2935170 ATACATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 10 0.45
20 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAATTTAATAATAAA
Found at i:2937327 original size:18 final size:19
Alignment explanation
Indices: 2937292--2937328 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2937282 TACAAAATAT
*
2937292 TTCAAAATAATTTTTAAAA
1 TTCAAAATAATTTATAAAA
2937311 TTCAAAAT-ATTTATAAAA
1 TTCAAAATAATTTATAAAA
2937329 ATTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCAAAATAATTTATAAAA
Found at i:2937329 original size:19 final size:19
Alignment explanation
Indices: 2937292--2937331 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2937282 TACAAAATAT
*
2937292 TTCAAAATAATTTTTAAAA
1 TTCAAAATAATTTTAAAAA
2937311 TTCAAAAT-ATTTATAAAAA
1 TTCAAAATAATTT-TAAAAA
2937330 TT
1 TT
2937332 TTAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TTCAAAATAATTTTAAAAA
Found at i:2941544 original size:222 final size:222
Alignment explanation
Indices: 2941216--2941685 Score: 615
Period size: 222 Copynumber: 2.1 Consensus size: 222
2941206 TTCCAAATTT
* * * * * * **
2941216 TCTTGACTCTTTAA-GAACTCTGGAAATG-AGCTTATGTTACAAGA-TTCCAGATACAATTCCCT
1 TCTTGCCT-TTTAATGAACTCTGGAAACGCA-CTTATGTTACAAGACCT-CAAATGCAATACTTT
2941278 CAACATTGAAAAAGAGAAGTTTAAATCACTTAAGGGAAGCTGTTTTGGAAAATCAATCACATTGA
63 CAACATTGAAAAAGAGAAGTTTAAATCACTTAAGGGAAGCTGTTTTGGAAAATCAATCACATTGA
* * * * *
2941343 AAGAAAGGTTTACCCTTAAAAGAGTGCTATTCCACAACCAATTAGGCACAACACCATGGATATGG
128 AAGAAAGGTCTACCCATAAAAGACTGCTATTCCACAACAAATTAGGCACAACACCATGGATATGA
* *
2941408 TTGTTAGAAAGATCTAACACAACCAACTTG
193 TTGCTAGAAAGATATAACACAACCAACTTG
** *
2941438 TCTTGTGTTTTGATGAACTCTGGAAACGCACTTATGTTACAAGACCTCAAATGCAATACTTTCAA
1 TCTTGCCTTTTAATGAACTCTGGAAACGCACTTATGTTACAAGACCTCAAATGCAATACTTTCAA
* * * * *
2941503 CATTGGAAATGAGAAG-TTAGCATCATTTAAGGGAAGCTGTTTTGGAAAATCAATCATATTGAAA
66 CATTGAAAAAGAGAAGTTTA-AATCACTTAAGGGAAGCTGTTTTGGAAAATCAATCACATTGAAA
* * *
2941567 GAAAGGTCTACCCATGAAAGACTGCTCTTCCACAACAAATTGGGCACAACACCATGGATATGATT
130 GAAAGGTCTACCCATAAAAGACTGCTATTCCACAACAAATTAGGCACAACACCATGGATATGATT
**
2941632 GCTAGAAAGATATAAGTCAACCAACTTG
195 GCTAGAAAGATATAACACAACCAACTTG
*
2941660 TCTTGCCTTTTAATGAATTCTGGAAA
1 TCTTGCCTTTTAATGAACTCTGGAAA
2941686 TTCAGTAAGG
Statistics
Matches: 213, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
221 7 0.03
222 204 0.96
223 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (222 bp):
TCTTGCCTTTTAATGAACTCTGGAAACGCACTTATGTTACAAGACCTCAAATGCAATACTTTCAA
CATTGAAAAAGAGAAGTTTAAATCACTTAAGGGAAGCTGTTTTGGAAAATCAATCACATTGAAAG
AAAGGTCTACCCATAAAAGACTGCTATTCCACAACAAATTAGGCACAACACCATGGATATGATTG
CTAGAAAGATATAACACAACCAACTTG
Found at i:2943969 original size:21 final size:21
Alignment explanation
Indices: 2943937--2943977 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2943927 AGGCTCGAGG
2943937 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
2943958 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
2943978 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:2949106 original size:11 final size:11
Alignment explanation
Indices: 2949090--2949114 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2949080 TCATTTCTAT
2949090 ATTATTATTTA
1 ATTATTATTTA
2949101 ATTATTATTTA
1 ATTATTATTTA
2949112 ATT
1 ATT
2949115 TTAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTATTTA
Found at i:2950190 original size:113 final size:112
Alignment explanation
Indices: 2950037--2950580 Score: 511
Period size: 113 Copynumber: 4.8 Consensus size: 112
2950027 GAATCTCAAG
* * * *
2950037 ACCAACACGCAGTGTTCTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGAACAAACGCCGG
1 ACCAAAACGCAGAGTT-TGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAA-AAACGCCGC
*
2950102 TAATGCATAGTATTAGCGACGCTTAGCGGAAGCGCCGCAAAAGATGTTA
64 TAATGCATAGTATTAGCGACGCTTAGCGGAAGCGCCGCAAAAGATCTTA
* * * *
2950151 ACCAAAACGCAGAGTTTGGTGTTGATGTATATTACAATTAGTGGTGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAT-GA-AAAACGCCGC
* * * * ** *
2950216 TAATGTATAGTATTAGCGGCGCTGAGCGTTAAATGCCGCAAAACATCTTA
64 TAATGCATAGTATTAGCGACGCTTAGCG-GAAGCGCCGCAAAAGATCTTA
* * * * * *
2950266 ACCAAAACGCAGCGTTTTGGTCTTGATGTATATTATAATTAGTGGCGTTTAAGGAAAACGCCACT
1 ACCAAAACGCAGAG-TTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAACGCCGCT
* * * * * * * *
2950331 AAAGCATAGTAATAGC-AGCGTTTGGTTGTAAGCGCCTCAAAATATCTTA
65 AATGCATAGTATTAGCGA-CGCTTAG-CGGAAGCGCCGCAAAAGATCTTA
* * *
2950380 ACCAAAACGCGGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-TGAAAAACGCCGCT
* * * * *
2950445 AA-ACTATAGTAGTAGCGGCGCTT-GTGGAAAGCGCCGC-AAAGTATCCTA
65 AATGC-ATAGTATTAGCGACGCTTAGCGG-AAGCGCCGCAAAAG-ATCTTA
* * * * **
2950493 ACCAAAACGCAGAGTTTGGCCTTGACGTATATTAGAGTTAGTGGCACTTATTTCAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-TGAAAAACGCCGCT
* * * *
2950558 AATGCTTACTATTTGCGGCGCTT
65 AATGCATAGTATTAGCGACGCTT
2950581 TGTGGTAAGT
Statistics
Matches: 354, Mismatches: 64, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
112 5 0.01
113 153 0.43
114 133 0.38
115 31 0.09
116 32 0.09
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (112 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAACGCCGCTA
ATGCATAGTATTAGCGACGCTTAGCGGAAGCGCCGCAAAAGATCTTA
Found at i:2951271 original size:8 final size:9
Alignment explanation
Indices: 2951249--2951274 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2951239 ATTTGATAAA
2951249 ATTTTTATT
1 ATTTTTATT
2951258 ATTTTTATT
1 ATTTTTATT
2951267 ATTTTTAT
1 ATTTTTAT
2951275 CATATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTTTTATT
Found at i:2967781 original size:50 final size:50
Alignment explanation
Indices: 2967727--2967987 Score: 207
Period size: 50 Copynumber: 5.5 Consensus size: 50
2967717 TGAAACCACA
* * *
2967727 AATCTTATAC-CCCTAAAGTTGTAGTGGGTCAGATTGAATCTACCATAGCG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGGTCAGATTAAATCTACCATAGCG
* * *
2967777 AATCTTATCTCCCTAAAGTTACAGTGGAG-CAGATTAAAGCTA-C--A---
1 AATCTTATCTCCCTGAAGTTGCAGTGG-GTCAGATTAAATCTACCATAGCG
* *
2967821 AATCCTAT-TCCCCTGAAGTTGCAGTGGGTCA-AGTTGAATCTACCATAGCG
1 AATCTTATCT-CCCTGAAGTTGCAGTGGGTCAGA-TTAAATCTACCATAGCG
* * *
2967871 AGTCTTATCTCCCTGAAGTTGCAATGGAG-CAGATTAAAGCTA--A-A---
1 AATCTTATCTCCCTGAAGTTGCAGTGG-GTCAGATTAAATCTACCATAGCG
* * * *
2967915 AATCCTATAC-CCCTGAAGTTGCAGTGGGTCAAATTAAATCTACAATAGTG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGGTCAGATTAAATCTACCATAGCG
2967965 AATCTTATCTCCCTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
2967988 ATGGAGCAAG
Statistics
Matches: 168, Mismatches: 20, Indels: 46
0.72 0.09 0.20
Matches are distributed among these distances:
43 4 0.02
44 64 0.38
45 2 0.01
46 1 0.01
47 4 0.02
48 1 0.01
49 3 0.02
50 85 0.51
51 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (50 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGGTCAGATTAAATCTACCATAGCG
Found at i:2967951 original size:44 final size:43
Alignment explanation
Indices: 2967777--2968035 Score: 146
Period size: 44 Copynumber: 5.6 Consensus size: 43
2967767 TACCATAGCG
* * * * *
2967777 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTACA
1 AATCCTATC-CCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAAA
* * *
2967821 AATCCTATTCCCCTGAAGTTGCAGTGG-GTCAAGTTGAATCTACCATA
1 AATCCTA-TCCCCTGAAGTTGCAGTGGAG-CAAATTAAAGCTA--A-A
* * * *
2967868 GCGAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCTAAA
1 ---AATCCTATC-CCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAAA
*
2967915 AATCCTATACCCCTGAAGTTGCAGTGG-GTCAAATTAAATCTACAATA
1 AATCCTAT-CCCCTGAAGTTGCAGTGGAG-CAAATTAAAGCT--AA-A
* * * *
2967962 GTGAATCTTATCTCCCTGAAGTTGCAATGGAGCAAGA-TGAAGCTACA
1 ---AATCCTATC-CCCTGAAGTTGCAGTGGAGCAA-ATTAAAGCTAAA
*
2968009 AATTCTATACCCCTGAAGTTGCAGTGG
1 AATCCTAT-CCCCTGAAGTTGCAGTGG
2968036 GTCAGATTGA
Statistics
Matches: 165, Mismatches: 28, Indels: 44
0.70 0.12 0.19
Matches are distributed among these distances:
43 2 0.01
44 84 0.51
45 4 0.02
46 2 0.01
47 4 0.02
48 2 0.01
49 3 0.02
50 61 0.37
51 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
AATCCTATCCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAAA
Found at i:2968096 original size:94 final size:94
Alignment explanation
Indices: 2967724--2968089 Score: 502
Period size: 94 Copynumber: 3.9 Consensus size: 94
2967714 CAGTGAAACC
* * *
2967724 ACAAATCTTATACCCCTAAAGTTGTAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* * *
2967789 CTAAAGTTACAGTGGAGCAGATTAAAGCT
66 CTGAAGTTGCAATGGAGCAGATTAAAGCT
* *
2967818 ACAAATCCTATTCCCCTGAAGTTGCAGTGGGTCA-AGTTGAATCTACCATAGCGAGTCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGA-TTGAATCTACCATAGCGAATCTTATCTC
2967882 CCTGAAGTTGCAATGGAGCAGATTAAAGCT
65 CCTGAAGTTGCAATGGAGCAGATTAAAGCT
* * * * *
2967912 AAAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTAAATCTACAATAGTGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
*
2967977 CTGAAGTTGCAATGGAGCAAGA-TGAAGCT
66 CTGAAGTTGCAATGGAGC-AGATTAAAGCT
* * * * * *
2968006 ACAAATTCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAATTTACCACAACAAATCTTAACTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* *
2968071 TTGAGGTTGCAATGGAGCA
66 CTGAAGTTGCAATGGAGCA
2968090 AGATGAAATC
Statistics
Matches: 241, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
93 2 0.01
94 235 0.98
95 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
CTGAAGTTGCAATGGAGCAGATTAAAGCT
Found at i:2970418 original size:106 final size:106
Alignment explanation
Indices: 2970222--2970434 Score: 302
Period size: 106 Copynumber: 2.0 Consensus size: 106
2970212 GAAATGAGCA
* * * * *
2970222 TTCTTATTTTCGAGAATTCGAGACATCGTGTCCTAACTTATGAGGCATGATTTTCTTCTCGATTA
1 TTCTTATTTTCGAGAATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTA
* *
2970287 ACTTGAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
66 ACTCGAAATACAAAGACATTCTTCATAAAATTTGATTTAAT
* * *
2970328 TTCTTATTTTTG-GAGATTTGAGACATTATGCCCTAACTTACGAGACATGATTTTCTTCCCGATT
1 TTCTTATTTTCGAGA-ATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATT
* *
2970392 AACTCGAAATACAAAGGCATTTTTCATAAAATTTGATTTAAT
65 AACTCGAAATACAAAGACATTCTTCATAAAATTTGATTTAAT
2970434 T
1 T
2970435 AGCTGTATTT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 2 0.02
106 92 0.98
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (106 bp):
TTCTTATTTTCGAGAATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTA
ACTCGAAATACAAAGACATTCTTCATAAAATTTGATTTAAT
Found at i:2977410 original size:72 final size:72
Alignment explanation
Indices: 2977307--2977510 Score: 248
Period size: 72 Copynumber: 2.8 Consensus size: 72
2977297 ACTTTCGCAT
* *
2977307 TTCACTGCATCTCATAACAATTTGAGTGGCCCAATTCCAAATTGCTTATGCAATATGAGTCAACT
1 TTCAATGCATCTAATAACAATTTGAGTGGCCCAATTCCAAATTGCTTATGCAATATGAGTCAACT
*
2977372 CATTGAC
66 CAGTGAC
* * * * * * *
2977379 TTCGATGTC-TCTAATAATAATTTGAGCGGCCCAATTCCAGATTGCTTATACAAAATGAGTCGAC
1 TTCAATG-CATCTAATAACAATTTGAGTGGCCCAATTCCAAATTGCTTATGCAATATGAGTCAAC
* **
2977443 TTAGTGGT
65 TCAGTGAC
* **
2977451 TTCAATGCATCTTATAACAATTTGAGTGGCCCAATTCCAAATTGCTTGGGCAATATGAGT
1 TTCAATGCATCTAATAACAATTTGAGTGGCCCAATTCCAAATTGCTTATGCAATATGAGT
2977511 GCTCTGAGTC
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
71 1 0.01
72 106 0.98
73 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (72 bp):
TTCAATGCATCTAATAACAATTTGAGTGGCCCAATTCCAAATTGCTTATGCAATATGAGTCAACT
CAGTGAC
Found at i:2991902 original size:31 final size:31
Alignment explanation
Indices: 2991845--2991907 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
2991835 TCTTTATAAC
* * *
2991845 TTTTAAAAGGTTAAATTAAAATTTTTATCAT
1 TTTTAAAAGATTAAAGTAAAATTTTTACCAT
*
2991876 TTTTGAAAAGATTAAAGTATAA-TTTTACCAT
1 TTTT-AAAAGATTAAAGTAAAATTTTTACCAT
2991907 T
1 T
2991908 ACTAATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (31 bp):
TTTTAAAAGATTAAAGTAAAATTTTTACCAT
Found at i:2996059 original size:27 final size:27
Alignment explanation
Indices: 2996027--2996080 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2996017 ACCCAACCTT
2996027 CAGGGATAGGACCAGGTGAGTCCTTGA
1 CAGGGATAGGACCAGGTGAGTCCTTGA
2996054 CAGGGATAGGACCAGGTGAGTCCTTGA
1 CAGGGATAGGACCAGGTGAGTCCTTGA
2996081 TGTCCTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.37, T:0.19
Consensus pattern (27 bp):
CAGGGATAGGACCAGGTGAGTCCTTGA
Found at i:2997210 original size:193 final size:193
Alignment explanation
Indices: 2996873--2997813 Score: 1488
Period size: 193 Copynumber: 4.9 Consensus size: 193
2996863 ATGTACACGG
* * * * *
2996873 GATAGAAAAATTATGCCAATTTATTAAGATATAGTTTGTGACAAGAAATGAATCCTAATTTTAGG
1 GATAGAAAAATTACGCCAATCTATTGAGATATGGTTTGCGACAAGAAATGAATCCTAATTTTAGG
* * * *
2996938 ATGATTGACCTATTTAACCTAGTCCATATAATGTCTTTTTCAGGAGCTAAAGGGAATGCATCTCA
66 ATGATTGACCTGTTTAACCCAGTCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
* * *
2997003 CGTGCACTAATTAGTGGGAATGAGAGGATTAATGTCGGATCCCCAAGGACAAATGATTGATGC
131 CGTGCACCAATTAGTGGGAATGAGAGGATTAATGTCAGATCCCCAAGGACAAATGATCGATGC
*
2997066 GATAGAAAAATTACGCCAATCTATTGAGATATGGTTTGTGACAAGAAATGAATCCTAATTTTAGG
1 GATAGAAAAATTACGCCAATCTATTGAGATATGGTTTGCGACAAGAAATGAATCCTAATTTTAGG
* *
2997131 ATGATTGACCTATTTAACCCAATCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
66 ATGATTGACCTGTTTAACCCAGTCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
* * *
2997196 CGTGTACCAATTAGTGGGAATGAGAGGATTAATGTCGGATCCCCAAGGACAAATGATTGATGC
131 CGTGCACCAATTAGTGGGAATGAGAGGATTAATGTCAGATCCCCAAGGACAAATGATCGATGC
*
2997259 GATAGAAAAATTACGCCAATCTATTGAGATATGATTTGCGACAAGAAATGAATCCTAATTTTAGG
1 GATAGAAAAATTACGCCAATCTATTGAGATATGGTTTGCGACAAGAAATGAATCCTAATTTTAGG
* * *
2997324 ATGACTGACATGTTTAACCCAGTCCAAATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
66 ATGATTGACCTGTTTAACCCAGTCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
* *
2997389 CGTGCACCAATTAGTGGGAATGACAGGATTATTGTCAGATCCCCAAGGACAAATGATCGATGC
131 CGTGCACCAATTAGTGGGAATGAGAGGATTAATGTCAGATCCCCAAGGACAAATGATCGATGC
* * * *
2997452 GGTAGAAAAATTACACCAATCTATTGAGGTATGGTTTACGACAAGAAATGAATCCTAATTTTAGG
1 GATAGAAAAATTACGCCAATCTATTGAGATATGGTTTGCGACAAGAAATGAATCCTAATTTTAGG
* * *
2997517 ATGACTGACATGTTTAACCCAGTCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATACATCTCA
66 ATGATTGACCTGTTTAACCCAGTCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
* * *
2997582 CGTGCACCAATTAGTGGGAATGACAGGATTATTGTCAGATCCCCAAGGACAAATGATCAATGC
131 CGTGCACCAATTAGTGGGAATGAGAGGATTAATGTCAGATCCCCAAGGACAAATGATCGATGC
* * * * *
2997645 GATAGAAAAATTATGTCAATCTATTGAGATATGGTTTGCAAAAATAAATGAATCCTAATTTTAGG
1 GATAGAAAAATTACGCCAATCTATTGAGATATGGTTTGCGACAAGAAATGAATCCTAATTTTAGG
* * *
2997710 ATGATTGACCTGTTTAACCC-TTCCATATAATATCTTTTTCAAGAGCTAAAAGAAATGCATCTCA
66 ATGATTGACCTGTTTAACCCAGTCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
*
2997774 CGTGCACCAATTAGTGGGAATGCGAGGATTAATGTCAGAT
131 CGTGCACCAATTAGTGGGAATGAGAGGATTAATGTCAGAT
2997814 TCCATATAAT
Statistics
Matches: 700, Mismatches: 48, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
192 77 0.11
193 623 0.89
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (193 bp):
GATAGAAAAATTACGCCAATCTATTGAGATATGGTTTGCGACAAGAAATGAATCCTAATTTTAGG
ATGATTGACCTGTTTAACCCAGTCCATATAATGTCTTTTTCAAGAGCTAAAGGAAATGCATCTCA
CGTGCACCAATTAGTGGGAATGAGAGGATTAATGTCAGATCCCCAAGGACAAATGATCGATGC
Found at i:2999095 original size:2 final size:2
Alignment explanation
Indices: 2999088--2999119 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2999078 CCCTAGTAGA
2999088 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2999120 GAAGTGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3010073 original size:6 final size:6
Alignment explanation
Indices: 3010015--3010059 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
3010005 CCCTAACATT
* *
3010015 CTCTTT CTCCTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTC
1 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTC
3010060 ATTCTCCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
CTCTTC
Done.