Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold236
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: 248862
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:6605 original size:25 final size:24
Alignment explanation
Indices: 6577--6689 Score: 104
Period size: 25 Copynumber: 4.5 Consensus size: 24
6567 GCGTCCTCCG
6577 CAAAAAAAAAACAAACAAAACAAAA
1 CAAAAAAAAAACAAACAAAAC-AAA
** *
6602 CAAAAAAAGAGGCAAAAAAAACAAA
1 CAAAAAAA-AAACAAACAAAACAAA
6627 CAAAAAAACAAA-AAACAAAAACAAAA
1 CAAAAAAA-AAACAAAC-AAAAC-AAA
*
6653 AAAAAACAAAAACAAAC-AAACAAA
1 CAAAAA-AAAAACAAACAAAACAAA
6677 CAAACAACAAAAA
1 CAAA-AA-AAAAA
6690 GGGTCCGGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
24 9 0.12
25 37 0.51
26 21 0.29
27 6 0.08
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAACAAACAAAACAAA
Found at i:6650 original size:46 final size:46
Alignment explanation
Indices: 6577--6689 Score: 126
Period size: 46 Copynumber: 2.4 Consensus size: 46
6567 GCGTCCTCCG
**
6577 CAAA-AAAAAAACAAACAAAACAAAACAAAAAAAGAGGCAAAAA-AAA
1 CAAACAAAAAAACAAA-AAAACAAAACAAAAAAAGA-AAAAAAACAAA
6623 CAAACAAAAAAAC-AAAAAACAAAAACAAAAAAA-AAACAAAAACAAA
1 CAAACAAAAAAACAAAAAAAC-AAAACAAAAAAAGAAA-AAAAACAAA
*
6669 CAAACAAACAAACAACAAAAA
1 CAAACAAAAAAACAA-AAAAA
6690 GGGTCCGGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
45 11 0.19
46 33 0.57
47 9 0.16
48 5 0.09
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (46 bp):
CAAACAAAAAAACAAAAAAACAAAACAAAAAAAGAAAAAAAACAAA
Found at i:6669 original size:4 final size:4
Alignment explanation
Indices: 6620--6687 Score: 69
Period size: 4 Copynumber: 18.8 Consensus size: 4
6610 GAGGCAAAAA
* *
6620 AAAC AAAC AAAA AAAC AAA- AAAC -AA- AAAC AAA- AAAA AAAC -AA-
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC
6662 AAAC AAAC AAAC AAAC AAAC -AAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAA
6688 AAGGGTCCGG
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
3 17 0.31
4 37 0.69
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:8381 original size:49 final size:49
Alignment explanation
Indices: 8195--8381 Score: 196
Period size: 49 Copynumber: 3.8 Consensus size: 49
8185 CTTCTAAGTT
* * * *
8195 CAATATCACTGGCCTTGAATCAGCATGTTGGCGCCTTCTTCATCTTTAAGAC
1 CAATATCACTAGCCCTGAATCAGCATATTGGC-AC--CTTCATCTTTAAGAC
* * * *
8247 CAATGTCGCTAG-CCTAGAATCAGCATATTGGCATCTTCATCTTTAAGTC
1 CAATATCACTAGCCCT-GAATCAGCATATTGGCACCTTCATCTTTAAGAC
* * * * * * *
8296 CAATGTCATTGGCCTTGAATCAGCACATTGGAACCTTCATCTTTAAGCC
1 CAATATCACTAGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGAC
8345 CAATATCACTAGCCCTGAATCAGCATATTGGCACCTT
1 CAATATCACTAGCCCTGAATCAGCATATTGGCACCTT
8382 TATCACTTTT
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 83 0.75
50 2 0.02
51 2 0.02
52 24 0.22
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (49 bp):
CAATATCACTAGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGAC
Found at i:8484 original size:113 final size:113
Alignment explanation
Indices: 8286--8494 Score: 348
Period size: 113 Copynumber: 1.8 Consensus size: 113
8276 GGCATCTTCA
*
8286 TCTTTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGAACCTTCATCTTTAAGCCCAATAT
1 TCTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGAACCTTCATCTTTAAGCCCAATAT
*
8351 CACTAGCCCTGAATCAGCATATTGGCACCTTTATCACTTTTCTCATCC
66 CACTAGCCCTAAATCAGCATATTGGCACCTTTATCACTTTTCTCATCC
* *
8399 TCTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGAACCTTCATCTTTAAGCCCAATAT
* *
8464 CGCTA-CCATTAAATCAGCATATTGGCACCTT
66 CACTAGCC-CTAAATCAGCATATTGGCACCTT
8495 CGTCATCTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
112 2 0.02
113 87 0.98
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (113 bp):
TCTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGAACCTTCATCTTTAAGCCCAATAT
CACTAGCCCTAAATCAGCATATTGGCACCTTTATCACTTTTCTCATCC
Found at i:8516 original size:52 final size:51
Alignment explanation
Indices: 8399--8684 Score: 305
Period size: 52 Copynumber: 5.6 Consensus size: 51
8389 TTTCTCATCC
* * ** *
8399 TCTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCACC-T-TCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCA
* *
8448 TCTTTAAGTCCAATATCGCT-ACCATTAAATCAGCATATTGGCACCTTCGTCA
1 TCTTTAAGTCCAATATCGCTGGCC-TTGAATCAGCATATTGGCACCTT-GTCA
* *
8500 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCA
* **
8552 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCGCATTGGCA-CTT-TCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCA
* *
8601 TCTTTAAAGAT-CAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
1 TCTTT-AAG-TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCA
** * *
8654 TCTTTAAAACCCAATGTCGTTGGCCTTGAAT
1 TCTTT-AAGTCCAATATCGCTGGCCTTGAAT
8685 TAGCGCATTG
Statistics
Matches: 199, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.01
49 43 0.22
50 34 0.17
51 5 0.03
52 83 0.42
53 32 0.16
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (51 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCA
Found at i:8602 original size:101 final size:103
Alignment explanation
Indices: 8399--8722 Score: 356
Period size: 101 Copynumber: 3.2 Consensus size: 103
8389 TTTCTCATCC
* * * * *
8399 TCTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
* * * ** *
8461 TATCGCT-ACCATTAAATCAGCATATTGGCACCTTCGTCA
66 TGTCGCTGGCC-TTGAATCAGCGCATTGGCATCTTC-TCA
8500 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
8565 TGTCGCTGGCCTTGAATCAGCGCATTGGCA-CTT-TCA
66 TGTCGCTGGCCTTGAATCAGCGCATTGGCATCTTCTCA
* * * **
8601 TCTTTAAAGAT-CAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACC
1 TCTTT-AAG-TCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGTC
* * *
8665 CAATGTCGTTGGCCTTGAATTAGCGCATTGGAATTCTTCTCA
63 CAATGTCGCTGGCCTTGAATCAGCGCATTGGCA-TCTTCTCA
* *
8707 TCTTTGAGCCCAATAT
1 TCTTTAAGTCCAATAT
8723 TGCTAGCCGC
Statistics
Matches: 191, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
101 48 0.25
102 47 0.25
103 38 0.20
104 38 0.20
105 12 0.06
106 8 0.04
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (103 bp):
TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
TGTCGCTGGCCTTGAATCAGCGCATTGGCATCTTCTCA
Found at i:9506 original size:20 final size:19
Alignment explanation
Indices: 9459--9513 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 19
9449 TGCCAAGAAA
9459 ATGTATCGATACATTACTT
1 ATGTATCGATACATTACTT
9478 AAATGTATCGATACATTGACCTT
1 --ATGTATCGATACATT-A-CTT
9501 -TGTATCGATACAT
1 ATGTATCGATACAT
9514 GCAGGCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.41
21 15 0.47
22 1 0.03
23 3 0.09
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTACTT
Found at i:17592 original size:79 final size:79
Alignment explanation
Indices: 17494--17685 Score: 217
Period size: 79 Copynumber: 2.4 Consensus size: 79
17484 TTAGAGTGTT
* * * * *
17494 CCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAA-A
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAAGC
17557 TCGGGATTGGAGTATC
65 T-GGGATTGGAGTATC
* * * ** *
17573 CCCTCGAAAATAACGGGGTTGGAGTATCCTCAATTATGAGAAATCAATATTTTGGGAATAAAGCT
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAGCT
*
17638 GGGGTTGGAGTATC
66 GGGATTGGAGTATC
* * *
17652 CCCTCGGAAGTAATGGGGTTGGAGTATCCCCGAT
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
17686 GAAATAACGA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 1 0.01
79 92 0.98
80 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAGCT
GGGATTGGAGTATC
Found at i:17699 original size:28 final size:28
Alignment explanation
Indices: 17640--17708 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
17630 ATAAAGCTGG
** * * *
17640 GGTTGGAGTATCCCCTCGGAAGTAATGG
1 GGTTGGAGTATCCCCGAGGAAATAACGA
*
17668 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
17696 GGTTGGAGTATCC
1 GGTTGGAGTATCC
17709 TCAATTGTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGAGGAAATAACGA
Found at i:17804 original size:51 final size:53
Alignment explanation
Indices: 17719--17817 Score: 157
Period size: 51 Copynumber: 1.9 Consensus size: 53
17709 TCAATTGTGA
* *
17719 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTAT-CCCGATTAAAGG
1 AAAATTGGTAGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
*
17771 AAAATTGGT-GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
1 AAAATTGGTAGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATT
17818 GTGGAGAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 27 0.63
52 16 0.37
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (53 bp):
AAAATTGGTAGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
Found at i:19640 original size:10 final size:10
Alignment explanation
Indices: 19627--19656 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19617 CAATGGAATA
19627 GTGTTTTTTT
1 GTGTTTTTTT
19637 GTGTTTTTTT
1 GTGTTTTTTT
19647 G-GTTTTTTT
1 GTGTTTTTTT
19656 G
1 G
19657 CTAAAGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:20208 original size:13 final size:13
Alignment explanation
Indices: 20190--20215 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20180 ACAAAGATCC
20190 ATGTATCGATACA
1 ATGTATCGATACA
20203 ATGTATCGATACA
1 ATGTATCGATACA
20216 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:20227 original size:33 final size:33
Alignment explanation
Indices: 20170--20235 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
20160 AACTTCCTAG
*** *
20170 ATGTATCGATACAAAGATCCATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCAATACA
*
20203 ATGTATCGATACACAGAAAAATGTATCAATACA
1 ATGTATCGATACAAAGAAAAATGTATCAATACA
20236 TTCCCTTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCAATACA
Found at i:20631 original size:28 final size:28
Alignment explanation
Indices: 20599--20654 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
20589 GTAATGGTAT
20599 AACAAAATAATAAGGTAAATTAAAAAAA
1 AACAAAATAATAAGGTAAATTAAAAAAA
*
20627 AACAAAGTAATAAGGTAAATTAAAAAAA
1 AACAAAATAATAAGGTAAATTAAAAAAA
20655 TGAAAGACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.18
Consensus pattern (28 bp):
AACAAAATAATAAGGTAAATTAAAAAAA
Found at i:22124 original size:37 final size:41
Alignment explanation
Indices: 22083--22162 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
22073 TTATATAATA
22083 AATTAT-T-TAAAAAT-TA-ATTTTACATAA-AAAATTTATT
1 AATTATATATAAAAATATAGATTTTA-ATAAGAAAATTTATT
* *
22120 AATTATATATATAAATATAGATTTTAATAAGTAAATTTATT
1 AATTATATATAAAAATATAGATTTTAATAAGAAAATTTATT
22161 AA
1 AA
22163 AAATAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
37 6 0.17
38 1 0.03
39 6 0.17
40 6 0.17
41 17 0.47
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (41 bp):
AATTATATATAAAAATATAGATTTTAATAAGAAAATTTATT
Found at i:22170 original size:14 final size:14
Alignment explanation
Indices: 22153--22200 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 14
22143 TTAATAAGTA
22153 AATTTATTAAAAAT
1 AATTTATTAAAAAT
*
22167 AATTTATTATAACAAA
1 AATTTATTA-AA-AAT
*
22183 AATTTACTTTAAAAT
1 AATTTA-TTAAAAAT
22198 AAT
1 AAT
22201 AATTTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.32
15 7 0.25
16 10 0.36
17 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTATTAAAAAT
Found at i:22340 original size:16 final size:16
Alignment explanation
Indices: 22319--22350 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22309 AATTCGAATC
22319 TAAACTCAAAAAAGCT
1 TAAACTCAAAAAAGCT
22335 TAAACTCAAAAAAGCT
1 TAAACTCAAAAAAGCT
22351 CGAATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
TAAACTCAAAAAAGCT
Found at i:22378 original size:48 final size:48
Alignment explanation
Indices: 22327--22418 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
22317 TCTAAACTCA
*
22327 AAAAAGCTT-AAACTCAAAAAAGCTCGAA-TCTAAAAAAATTCAAATCT
1 AAAAAGATTCAAACTCAAAAAAGCTCGAATTC-AAAAAAATTCAAATCT
* * *
22374 AAAAAGATTCAAACTCGAATAAGCTCGAATTCAAATAAATTCAAA
1 AAAAAGATTCAAACTCAAAAAAGCTCGAATTCAAAAAAATTCAAA
22419 CTCAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 8 0.21
48 29 0.74
49 2 0.05
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.22
Consensus pattern (48 bp):
AAAAAGATTCAAACTCAAAAAAGCTCGAATTCAAAAAAATTCAAATCT
Found at i:22383 original size:16 final size:16
Alignment explanation
Indices: 22353--22386 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22343 AAAAAGCTCG
22353 AATCTAAAAAAATTCA
1 AATCTAAAAAAATTCA
*
22369 AATCTAAAAAGATTCA
1 AATCTAAAAAAATTCA
22385 AA
1 AA
22387 CTCGAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
AATCTAAAAAAATTCA
Found at i:22423 original size:16 final size:16
Alignment explanation
Indices: 22362--22425 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
22352 GAATCTAAAA
22362 AAATTCAAA-TCTAAA-
1 AAATTCAAACTC-AAAT
*
22377 AAGATTCAAACTCGAAT
1 AA-ATTCAAACTCAAAT
** * *
22394 AAGCTCGAATTCAAAT
1 AAATTCAAACTCAAAT
22410 AAATTCAAACTCAAAT
1 AAATTCAAACTCAAAT
22426 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.83
17 4 0.11
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.25
Consensus pattern (16 bp):
AAATTCAAACTCAAAT
Found at i:25634 original size:11 final size:11
Alignment explanation
Indices: 25606--25635 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
25596 TTTTTTATAT
25606 TAATATTTTAA
1 TAATATTTTAA
25617 T-ATATTTTAA
1 TAATATTTTAA
25627 TAATATTTT
1 TAATATTTT
25636 TCATCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:25863 original size:13 final size:14
Alignment explanation
Indices: 25845--25875 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25835 TAATTATATT
25845 AAATATAT-AATAA
1 AAATATATAAATAA
25858 AAATATATAAATAA
1 AAATATATAAATAA
25872 AAAT
1 AAAT
25876 TTATGTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATATATAAATAA
Found at i:26109 original size:25 final size:26
Alignment explanation
Indices: 26081--26129 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
26071 TTTTAAAATA
*
26081 AATTTTTGAAAAAT-ATTTTTTTATG
1 AATTTTTGAAAAATCATTATTTTATG
26106 AATTTTTGAAAAATCATTATTTTA
1 AATTTTTGAAAAATCATTATTTTA
26130 GATGACGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (26 bp):
AATTTTTGAAAAATCATTATTTTATG
Found at i:26746 original size:73 final size:72
Alignment explanation
Indices: 26658--26903 Score: 268
Period size: 73 Copynumber: 3.4 Consensus size: 72
26648 CTAAAAACAA
* * *
26658 ATTTAAA-TTTCTACAAAT-AAAA-AAATTATACGATCAAAAATATAAATTCGTGTAATCATATC
1 ATTTAAACTTT-TACAAATAAAAATAAATTATAC-AT-AAAAATTTAAATTCATATAATCATAT-
*
26720 CAAAAAAATAC
62 CTAAAAAATAC
* *
26731 ATTTAAACTTTTACAAATAAAAATAAATTATACCATAAAAATTTAAATTCATATAGGT-ATATTT
1 ATTTAAACTTTTACAAATAAAAATAAATTATA-CATAAAAATTTAAATTCATATA-ATCATATCT
* *
26795 GAAAAACAC
64 AAAAAATAC
* * * *
26804 ATTTAAACTTTTATAAATAAAAATAAATTATATCTTGAAAATTTTAATTCATATAATCATA-CTA
1 ATTTAAACTTTTACAAATAAAAATAAATTATA-CATAAAAATTTAAATTCATATAATCATATCTA
*
26868 AAAAATAA
65 AAAAATAC
*
26876 ATTTAAACTTTTATAAATAAAAATAAAT
1 ATTTAAACTTTTACAAATAAAAATAAAT
26904 AATATCTTAA
Statistics
Matches: 149, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
72 36 0.24
73 74 0.50
74 27 0.18
75 11 0.07
76 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (72 bp):
ATTTAAACTTTTACAAATAAAAATAAATTATACATAAAAATTTAAATTCATATAATCATATCTAA
AAAATAC
Found at i:27060 original size:12 final size:12
Alignment explanation
Indices: 27039--27099 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
27029 TAAATTTATA
27039 AAAAATATATTTT
1 AAAAA-ATATTTT
27052 AAAAAATATTTTTT
1 AAAAAATA--TTTT
*
27066 AAAAATTATTATT
1 AAAAAATATT-TT
*
27079 ATAAAA-ATTTT
1 AAAAAATATTTT
*
27090 AAAAATTATT
1 AAAAAATATT
27100 ATTATTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.15
12 11 0.28
13 11 0.28
14 11 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:27087 original size:15 final size:15
Alignment explanation
Indices: 27034--27085 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
27024 ATCACTAAAT
27034 TTATAAAAAATA-TA
1 TTATAAAAAATATTA
*
27048 TTTTAAAAAATATT-
1 TTATAAAAAATATTA
* *
27062 TTTTAAAAATTATTA
1 TTATAAAAAATATTA
27077 TTATAAAAA
1 TTATAAAAA
27086 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 24 0.73
15 9 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTATAAAAAATATTA
Found at i:27444 original size:57 final size:62
Alignment explanation
Indices: 27383--27507 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 62
27373 TTACATCTTT
*
27383 TAATATTAA-ATATAATTATATAAA-TTA-ATAAA-A-AAAATAA-TAAAATATAA-TATGATA
1 TAATATTAATATAT-ATTATA-AAATTTATATAAATATAAAATAATTAAAATATAATTATAATA
* *
27440 TAATATTAATATATATTTTAAAATTTATATAAATATAAAATAATTTTAAATATAATTATAATA
1 TAATATTAATATATATTATAAAATTTATATAAATATAAAATAA-TTAAAATATAATTATAATA
27503 TAATA
1 TAATA
27508 ACATATAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
56 3 0.05
57 17 0.30
58 9 0.16
59 1 0.02
60 7 0.12
62 9 0.16
63 11 0.19
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (62 bp):
TAATATTAATATATATTATAAAATTTATATAAATATAAAATAATTAAAATATAATTATAATA
Found at i:27496 original size:12 final size:12
Alignment explanation
Indices: 27466--27506 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
27456 TTTAAAATTT
*
27466 ATATAAATATAA
1 ATATAATTATAA
*
27478 A-ATAATTTTAA
1 ATATAATTATAA
27489 ATATAATTAT-A
1 ATATAATTATAA
27500 ATATAAT
1 ATATAAT
27507 AACATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATAATTATAA
Found at i:27911 original size:24 final size:23
Alignment explanation
Indices: 27857--27917 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
27847 TTTAATTTAT
27857 TTTTTAAA-ATTTAAATTATTAA
1 TTTTTAAATATTTAAATTATTAA
* *
27879 TATTAAAATATTTTAAA-TATATAA
1 TTTTTAAATA-TTTAAATTAT-TAA
*
27903 TTTTTAAATAATTAA
1 TTTTTAAATATTTAA
27918 TTAAATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 6 0.19
23 8 0.26
24 17 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTTAAATATTTAAATTATTAA
Found at i:29747 original size:15 final size:15
Alignment explanation
Indices: 29729--29778 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
29719 TATTATAATT
29729 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
29744 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
* *
29758 TTAATAATATAAAGA
1 TTAAAAATATAAAAA
29773 TTAAAA
1 TTAAAA
29779 TGTTTATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:29749 original size:14 final size:14
Alignment explanation
Indices: 29732--29779 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
29722 TATAATTTTA
29732 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
29746 AAAATATTAAATTT
1 AAAATATAAAAATT
*
29760 AATAATATAAAGATT
1 AA-AATATAAAAATT
29775 AAAAT
1 AAAAT
29780 GTTTATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:29766 original size:29 final size:31
Alignment explanation
Indices: 29719--29779 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
29709 ATTTTTTATT
29719 TATTATAATTTTAAAAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
* *
29750 TATTA-AA-TTTAATAATATAAAGATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
29779 T
1 T
29780 GTTTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.75
30 2 0.07
31 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (31 bp):
TATTATAATTTTAAAAATATAAAAATTAAAA
Found at i:29789 original size:29 final size:29
Alignment explanation
Indices: 29724--29789 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
29714 TTATTTATTA
29724 TAATTTTAAAAATATAAAAATTAAAATAT
1 TAATTTTAAAAATATAAAAATTAAAATAT
* * * *
29753 TAAATTTAATAATATAAAGATTAAAATGT
1 TAATTTTAAAAATATAAAAATTAAAATAT
*
29782 TTATTTTA
1 TAATTTTA
29790 CTTAGTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
TAATTTTAAAAATATAAAAATTAAAATAT
Found at i:31013 original size:28 final size:28
Alignment explanation
Indices: 30971--31041 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
30961 GTAAAAAAAG
* *
30971 GGGGTTGGAG-ATCCCCTCGGAATTGAT
1 GGGGTTGGAGTATCCCCTCGAAAATGAT
*
30998 GGGGTTGGAGTATCCCCTCGAAAATGGT
1 GGGGTTGGAGTATCCCCTCGAAAATGAT
* *
31026 GGGGCTAGAGTATCCC
1 GGGGTTGGAGTATCCC
31042 TTGAGATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 10 0.26
28 28 0.74
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTCGAAAATGAT
Found at i:31117 original size:108 final size:108
Alignment explanation
Indices: 30999--31200 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 108
30989 GGAATTGATG
* *
30999 GGGTTGGAGTATCCCCTCGA-AAATGGTGGGGCTAGAGTAT-CCCTTGAGATGAAAA-TTTGATG
1 GGGTTAGAGTATCCCCT-GAGAAAT-ATGGGGCTAGAGTATGCCC-TGAGATGAAAATTTTGATG
*
31061 TTTTGGAAAATAAAAATGGGGTTGGAGTATCCCCTAAACAATAATC
63 TTTTGGAAAATAAAAATGGGGTTAGAGTATCCCCTAAACAATAATC
* * *
31107 GGGTTAGAGTATTCCCTTAGAAATATGGGGTTAGAGTATGCCCTGAGATGAAAATTTTGATGTTT
1 GGGTTAGAGTATCCCCTGAGAAATATGGGGCTAGAGTATGCCCTGAGATGAAAATTTTGATGTTT
31172 TGGAAAATAAAAATGGGGTTAGAGTATCC
66 TGGAAAATAAAAATGGGGTTAGAGTATCC
31201 ATTCAGAAAC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
107 25 0.29
108 60 0.71
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (108 bp):
GGGTTAGAGTATCCCCTGAGAAATATGGGGCTAGAGTATGCCCTGAGATGAAAATTTTGATGTTT
TGGAAAATAAAAATGGGGTTAGAGTATCCCCTAAACAATAATC
Found at i:31145 original size:27 final size:29
Alignment explanation
Indices: 31075--31150 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
31065 GGAAAATAAA
* *
31075 AATGGGGTTGGAGTA-TCCCCTAAACAAT
1 AATGGGGTTAGAGTATTCCCTTAAACAAT
* *
31103 AATCGGGTTAGAGTATTCCCTTAGA-AAT
1 AATGGGGTTAGAGTATTCCCTTAAACAAT
*
31131 -ATGGGGTTAGAGTATGCCCT
1 AATGGGGTTAGAGTATTCCCT
31151 GAGATGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.44
28 16 0.39
29 7 0.17
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (29 bp):
AATGGGGTTAGAGTATTCCCTTAAACAAT
Found at i:31263 original size:80 final size:80
Alignment explanation
Indices: 31179--31361 Score: 269
Period size: 80 Copynumber: 2.3 Consensus size: 80
31169 TTTTGGAAAA
* *
31179 TAAAAATGGGGTTAGAGTATCCATTCAGAAACGATGGGTTTGGAGTATCCC-AAAGATGAAGAAA
1 TAAAAATGGGGTTGGAGTATCCACTCA-AAACGATGGGTTTGGAGTATCCCTAAAGATGAAGAAA
31243 TTCAATGTTTTAGAAG
65 TTCAATGTTTTAGAAG
** * * *
31259 TAAAAACAGGGTTGGAGTATCCCCTCAAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAAT
1 TAAAAATGGGGTTGGAGTATCCACTCAAAACGATGGGTTTGGAGTATCCCTAAAGATGAAGAAAT
31324 TCAATGTTTTAGAAG
66 TCAATGTTTTAGAAG
*
31339 TAAAAAATGGGGTTGGAGCATCC
1 T-AAAAATGGGGTTGGAGTATCC
31362 CTTCGGAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
79 22 0.24
80 51 0.56
81 18 0.20
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (80 bp):
TAAAAATGGGGTTGGAGTATCCACTCAAAACGATGGGTTTGGAGTATCCCTAAAGATGAAGAAAT
TCAATGTTTTAGAAG
Found at i:31413 original size:28 final size:28
Alignment explanation
Indices: 31348--31418 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
31338 GTAAAAAATG
* * * *
31348 GGGTTGGAGCATCCCTTCGGAATTGATG
1 GGGTTGGAGTATCCCTTCAGAAATGATA
* * *
31376 GGGCTAGAGTATCCCTTCAGAAATGGTA
1 GGGTTGGAGTATCCCTTCAGAAATGATA
31404 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
31419 CTGAGATCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (28 bp):
GGGTTGGAGTATCCCTTCAGAAATGATA
Found at i:31470 original size:81 final size:81
Alignment explanation
Indices: 31383--31579 Score: 225
Period size: 81 Copynumber: 2.4 Consensus size: 81
31373 ATGGGGCTAG
* *** * *
31383 AGTATCCCTTCAGAAATGGTAGGGTTGGAGTATCCCCTGAGATCAAAATTTTGGTGTCTTGGAAA
1 AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
31448 ATAAAAATGGGGTTGA
66 ATAAAAATGGGGTTGA
* * *
31464 AGTATCCCTTCAAAAACAATATGGTTGGAGTATCCCCTAAGATGAAAATTTTGATGTTTTGGAAA
1 AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
***** *
31529 ATAAAACCAATGTTGG
66 ATAAAAATGGGGTTGA
* *
31545 AGTATTCCC-TCAAAAACGATGGGGTTGGAGTATCC
1 AGTA-TCCCTTCAAAAACAATAGGGTTGGAGTATCC
31580 TCTCAGAAAT
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 93 0.96
82 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (81 bp):
AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
ATAAAAATGGGGTTGA
Found at i:31494 original size:270 final size:269
Alignment explanation
Indices: 30999--31579 Score: 665
Period size: 270 Copynumber: 2.2 Consensus size: 269
30989 GGAATTGATG
* * * * * **
30999 GGGTTGGAGTATCCCCTCGAAAATGGTGGGGCTAGAGTATCCCTTGAGATGAAAATTTGATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAAATTCAATGTTT
* * *
31064 TGGAAAATAAAAATGGGGTTGGAGTATCCCCTAAACAATAATCGGGTTAGAGTATTCCCTTAGAA
66 TAGAAAATAAAAATGGGGTTGGAGCATCCCCTAAACAATAATCGGGCTAGAGTATTCCCTTAGAA
* * * *
31129 ATATGGGGTTAGAGTATGCCCTGAGATGAAAATTTTGATGTTTTGGAAAATAAAAATGGGGTTAG
131 ATATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGGGGTTAG
* *
31194 AGTATCCATTCAGAAACGATGGGTTTGGAGTAT-CCCAAAGATGAAGAAATTCAATGTTTTAG-A
196 AGTATCCATTCAAAAACAATGGGTTTGGAGTATCCCCAAAGATGAA-AAATTCAATGTTTTAGAA
*
31257 AGTAAAAACA
260 AATAAAAACA
*
31267 GGGTTGGAGTATCCCCTC-AAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATG-A-AAATTCAATGT
* * ** * * *
31331 TTTAG-AAGTAAAAAATGGGGTTGGAGCATCCCTTCGGA-ATTGATGGGGCTAGAGTA-TCCCTT
64 TTTAGAAAAT-AAAAATGGGGTTGGAGCATCCCCT-AAACAATAATCGGGCTAGAGTATTCCCTT
* * *
31393 CAGAAATGGTAGGGTTGGAGTATCCCCTGAGATCAAAATTTTGGTGTCTTGGAAAATAAAAATGG
127 -AGAAAT-ATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGG
* * * * **
31458 GGTT-GAAGTATCCCTTCAAAAACAATATGG-TTGGAGTATCCCCTAAGATGAAAATTTTGATGT
190 GGTTAG-AGTATCCATTCAAAAACAAT-GGGTTTGGAGTATCCCCAAAGATGAAAAATTCAATGT
* *
31521 TTTGGAAAATAAAACCA
253 TTTAGAAAATAAAAACA
** * *
31538 ATGTTGGAGTATTCCCTCAAAAACGATGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCC
31580 TCTCAGAAAT
Statistics
Matches: 262, Mismatches: 40, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
267 27 0.10
268 28 0.11
269 56 0.21
270 93 0.35
271 37 0.14
272 21 0.08
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (269 bp):
GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAAATTCAATGTTT
TAGAAAATAAAAATGGGGTTGGAGCATCCCCTAAACAATAATCGGGCTAGAGTATTCCCTTAGAA
ATATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGGGGTTAG
AGTATCCATTCAAAAACAATGGGTTTGGAGTATCCCCAAAGATGAAAAATTCAATGTTTTAGAAA
ATAAAAACA
Found at i:33901 original size:51 final size:52
Alignment explanation
Indices: 33801--33922 Score: 147
Period size: 51 Copynumber: 2.3 Consensus size: 52
33791 TATATTAAAG
* * **
33801 AATGTATTAATACATTTGGGTCAAAAAAACCTAGAATGTATTGATACAATGAAA
1 AATGTATTAATACATTTGGGT--AAAAAACCCAAAATGTATCAATACAATGAAA
* *
33855 AATGTATTGATACATTTGGGT-TAAAACCCAAAATGTATCAATACAATGAAA
1 AATGTATTAATACATTTGGGTAAAAAACCCAAAATGTATCAATACAATGAAA
* *
33906 AATGTATCAGTACATTT
1 AATGTATTAATACATTT
33923 TCTTTCTAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 39 0.66
54 20 0.34
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (52 bp):
AATGTATTAATACATTTGGGTAAAAAACCCAAAATGTATCAATACAATGAAA
Found at i:34655 original size:65 final size:68
Alignment explanation
Indices: 34509--34669 Score: 181
Period size: 70 Copynumber: 2.4 Consensus size: 68
34499 TAGATAGATA
34509 CCACCAACTTGTGTGGGCTTTGAAAAAGGAAAGAAGTCTTACTCTTTAAAGACAAAAGAGATAAA
1 CCACCAACTTGTGTGGGCTTT--AAAAGGAAAGAAGTCTTACTCTTTAAAGACAAAAGAGATAAA
34574 AGGTG
64 AGGTG
* * * *
34579 CCACCAGCTTGTGTGGGCTTTAAAAGGAAA-ATACGTTTTGCT-TTTCAAGAACAAAA-A-A-AA
1 CCACCAACTTGTGTGGGCTTTAAAAGGAAAGA-A-GTCTTACTCTTTAAAG-ACAAAAGAGATAA
34639 AA-GTG
63 AAGGTG
*
34644 CCACCAACTTGTATGGGCTTTTAAAA
1 CCACCAACTTGTGTGGGC-TTTAAAA
34670 AAGAAAAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
65 19 0.23
66 11 0.14
67 2 0.02
68 17 0.21
69 12 0.15
70 20 0.25
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (68 bp):
CCACCAACTTGTGTGGGCTTTAAAAGGAAAGAAGTCTTACTCTTTAAAGACAAAAGAGATAAAAG
GTG
Found at i:34720 original size:70 final size:70
Alignment explanation
Indices: 34640--35286 Score: 389
Period size: 71 Copynumber: 9.5 Consensus size: 70
34630 CAAAAAAAAA
* * * * *
34640 AGTGCCACCAACTTGTATGGGCTTTTAAAAAAG-AAAAAAAAGTGTCATGCTCTTTGAGTACGGA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTACTCTTTGAGGAC-TA
34704 AACAA-G
65 AA-AAGG
* * *
34710 AGTGCTACCAACTTGTGTGGGC-TTTCAAAAAGAAAAAAAAAGGTGTCTTACTCTTTCAGGACTA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAA-GTGTCTTACTCTTTGAGGACT-
*
34774 AAAAATG
64 AAAAAGG
* ** *
34781 AGTGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACTCTTTGAGGACT
1 AGTGCCACCAACTTGTGTGGG-CTTTTAAAAAAGAAAAA-AAAAGTGTCTTACTCTTTGAGGACT
34846 AAAAAGG
64 AAAAAGG
* * * * * *
34853 AGTGCTACCAGCTTGTGTGAGCTTTTAAAAAAG---AAAAACGT-CCTT-TTCTTTGAGGACTAA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTACTCTTTGAGGACTAA
*
34913 AAAAG
66 AAAGG
* * * ** ***
34918 AGTGCCA-CAAGCTTATGTAGG-TTTTAAAATAGAAAAGGCATCTTGT-TT--T-TTTGAGGACT
1 AGTGCCACCAA-CTTGTGTGGGCTTTTAAAAAAGAAAA-AAAAAGTGTCTTACTCTTTGAGGACT
34977 -AAAA-G
64 AAAAAGG
* * * *
34982 -GTGCCACTAGCTTGTGTGGGC-TTT--AAAAGAAAAAGAAACA-CGTCTTGCTCTTTGAGGACT
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAA-AAA-AGTGTCTTACTCTTTGAGGACT
35042 AAAAAAGG
64 -AAAAAGG
* * * * * *
35050 AATGTCACCAATTTGTGTGGGC-TTT-AAAAAGGAAAAAACA---TCTTGCTCTTTGAGGACT-A
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTACTCTTTGAGGACTAA
35109 AAA-G
66 AAAGG
* * ** * * *
35113 -GTGTCACCAGCTTGTGTGGGC-TTT--AAAAGAAAAAGAAAAGCATCATACTTTTTGAGAACT-
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAA-AAAAGTGTCTTACTCTTTGAGGACTA
35173 AAAAGG
65 AAAAGG
* * * *
35179 TAAAAGGTGTCACCAGCTTGTGTGGGC-TTT--AAAAGAAAAAAAAAGTGTCCTGCTCTTTGAGG
1 ----A-GTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTACTCTTTGAGG
*
35241 ACT-AAAAGTA
61 ACTAAAAAG-G
* * *
35251 AGTGACACCAACTTGTGTAGGC-TTTAAAAAGGAAAA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAA
35287 GGCATCCTGC
Statistics
Matches: 464, Mismatches: 73, Indels: 81
0.75 0.12 0.13
Matches are distributed among these distances:
61 20 0.04
62 26 0.06
63 18 0.04
64 19 0.04
65 63 0.14
66 32 0.07
67 31 0.07
68 10 0.02
69 38 0.08
70 39 0.08
71 73 0.16
72 58 0.12
73 33 0.07
74 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (70 bp):
AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTACTCTTTGAGGACTAA
AAAGG
Found at i:34844 original size:73 final size:69
Alignment explanation
Indices: 34633--35350 Score: 398
Period size: 65 Copynumber: 10.7 Consensus size: 69
34623 TCAAGAACAA
* * * * * *
34633 AAAAAAAAGTGCCACCAACTTGTATGGGCTTTTAAAAA-AGAAAAAAAAGTGTCATGCTCTTTGA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGA-AAAAAAAAATGTCTTACTCTTTGA
* *
34697 GTACGG
65 GGAC-T
* * * *
34703 AAACAAGAGTGCTACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAGGTGTCTTACTCTTTCA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAA-ATGTCTTACTCTTTGA
34768 GGACT
65 GGACT
* *
34773 AAAAAATGAGTGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACTCTT
1 AAAAAA-GAGTGCCACCAACTTGTGTGGG-C-TTTCAAAAAGAAAAA-AAAAATGTCTTACTCTT
34838 TGAGGACT
62 TGAGGACT
* * * * * * * *
34846 AAAAAGGAGTGCTACCAGCTTGTGTGAGCTTT---TAA-AAAAGAAAAACGTCCTT-TTCTTTGA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGT-CTTACTCTTTGA
34906 GGACT
65 GGACT
* * * ** ***
34911 AAAAAAGAGTGCCA-CAAGCTTATGTAGG-TTTTAAAATAGAAAAGGCATCTTGT-TT--T-TTT
1 AAAAAAGAGTGCCACCAA-CTTGTGTGGGCTTTCAAAA-AGAAAA-AAAAAATGTCTTACTCTTT
34970 GAGGACT
63 GAGGACT
* * * * *
34977 --AAAAG-GTGCCACTAGCTTGTGTGGGCTTT--AAAAGAAAAAGAAACACGTCTTGCTCTTTGA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAA-AAAAATGTCTTACTCTTTGA
35037 GGACT
65 GGACT
* * * * * *
35042 AAAAAAGGAATGTCACCAATTTGTGTGGGCTTT-AAAAAG-GAAAAAACA--TCTTGCTCTTTGA
1 AAAAAA-GAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTTACTCTTTGA
35103 GGACT
65 GGACT
* * * * *
35108 --AAAAG-GTGTCACCAGCTTGTGTGGGCTTT--AAAAGAAAAAGAAAA-GCATCATACTTTTTG
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATG--TCTTACTCTTTG
*
35167 AGAACT
64 AGGACT
* * * * * *
35173 AAAAGGTAAAAGGTGTCACCAGCTTGTGTGGGCTTT--AAAAGAAAAAAAAAGTGTCCTGCTCTT
1 AAAA---AAGA-GTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTTACTCTT
35236 TGAGGACT
62 TGAGGACT
* * * * *** * * * *
35244 AAAAGTA-AGTGACACCAACTTGTGTAGGCTTT-AAAAAG-GAAAAGGCA--TCCTGCTTTTTTA
1 AAAA-AAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTTACTCTTTGA
35304 GGACT
65 GGACT
*
35309 --AAAAG-GTGCCACCAGCTTGTGTGGGCTTT--AAAAGAAAAAAAA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAA
35351 GCATCATATT
Statistics
Matches: 519, Mismatches: 88, Indels: 90
0.74 0.13 0.13
Matches are distributed among these distances:
61 20 0.04
62 58 0.11
63 17 0.03
64 19 0.04
65 78 0.15
66 35 0.07
67 35 0.07
68 15 0.03
69 27 0.05
70 60 0.12
71 56 0.11
72 56 0.11
73 39 0.08
74 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (69 bp):
AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTTACTCTTTGAG
GACT
Found at i:35167 original size:131 final size:125
Alignment explanation
Indices: 34783--35378 Score: 394
Period size: 131 Copynumber: 4.5 Consensus size: 125
34773 AAAAAATGAG
* * *
34783 TGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACTCTTTGAGGACTAA
1 TGCCACCAACTTGTGTGGG-C--TT-TAAAAG-AAAA-AAACA--TCTTGCTCTTTGAGGACT-A
* * * * * *
34848 AAAGGAGTGCTACCAGCTTGTGTGAGCTTTTAAAAAAGAAAAACGTCCT-TTTCTTTGAGGACTA
57 AAAGGTGT-C-ACCAGCTTGTGTGGGCTTTAAAAAAAGAAAAGCATCCTGCTT-TTTGAGGACT-
* *
34912 AAAAAGAG
118 AAAAGGAA
* * * * ** * *
34920 TGCCA-CAAGCTTATGTAGGTTTTAAAATAGAAAAGGCATCTTGTTTTTTTGAGGACTAAAAGGT
1 TGCCACCAA-CTTGTGTGGGCTTTAAAAGA-AAAAAACATCTTG-CTCTTTGAGGACTAAAAGGT
* * * * *
34984 GCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACA-CGTCTTGCTCTTTGAGGACTAAAAAA
63 GTCACCAGCTTGTGTGGGCTTT--AA-AAAAAGAAA-AGCATCCTGCTTTTTGAGGACT--AAAA
35048 GGAA
122 GGAA
* * *
35052 TGTCACCAATTTGTGTGGGCTTTAAAAAGGAAAAAACATCTTGCTCTTTGAGGACTAAAAGGTGT
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAACATCTTGCTCTTTGAGGACTAAAAGGTGT
* * *
35117 CACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGAACTAAAAGGTAA
65 CACCAGCTTGTGTGGGCTTT--AA-AAAAAGAAAAGCATCCTGCTTTTTGAGGACTAAAAGG---
35182 AA
124 AA
* * * *
35184 GGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAAGTGTCCTGCTCTTTGAGGACTAAAAG
1 --TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAACA---TCTTGCTCTTTGAGGACTAAAAG
* * * * *
35249 TAAGTGACACCAACTTGTGTAGGCTTT-AAAAAGGAAAAGGCATCCTGCTTTTTTAGGACTAAAA
61 ---GTGTCACCAGCTTGTGTGGGCTTTAAAAAAAGAAAA-GCATCCTGCTTTTTGAGGACTAAAA
35313 GG--
122 GGAA
* * ** *
35315 TGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGGACTGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAAAA-CATCTTGCTCTTTGAGGACTAAAAGGT
35379 AAATTGTTTA
Statistics
Matches: 377, Mismatches: 56, Indels: 64
0.76 0.11 0.13
Matches are distributed among these distances:
125 2 0.01
128 36 0.10
129 34 0.09
130 20 0.05
131 103 0.27
132 39 0.10
133 27 0.07
134 23 0.06
135 9 0.02
136 49 0.13
137 14 0.04
139 21 0.06
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (125 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAACATCTTGCTCTTTGAGGACTAAAAGGTGTC
ACCAGCTTGTGTGGGCTTTAAAAAAAGAAAAGCATCCTGCTTTTTGAGGACTAAAAGGAA
Found at i:35187 original size:72 final size:70
Alignment explanation
Indices: 34976--35381 Score: 288
Period size: 62 Copynumber: 6.1 Consensus size: 70
34966 TTTTGAGGAC
* * * * * *
34976 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACA-CGTCTTGCTCTTTGAGGA
1 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAA-AAA-AGCATCATACTTTTTGAGGA
35040 CT--AA-
64 CTAAAAG
** ** * * *
35044 -AAAAGGAATGTCACCAATTTGTGTGGGCTTTAAAA-AGGAAAAAA-CATCTTGCTCTTTGAGGA
1 TAAAAGG--TGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAAGCATCATACTTTTTGAGGA
35106 C------
64 CTAAAAG
*
35107 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGAAC
1 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAA-AAAAGCATCATACTTTTTGAGGAC
35172 TAAAAGG
65 TAAAA-G
** * * *
35179 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAAGTGTCCTGCTCTTTGAGGACT
1 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAAGCATCATACTTTTTGAGGACT
35244 AAAAG
66 AAAAG
* * * ** * * * *
35249 T--AA-GTGACACCAACTTGTGTAGGCTTT-AAA-AAGGAAAAGGCATCCTGCTTTTTTAGGAC-
1 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAAGCATCATACTTTTTGAGGACT
35308 -----
66 AAAAG
*
35308 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG-AAAAAAAAGCATCATA-TTCTTTGAGGAC
1 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAAGCATCATACTT-TTTGAGGAC
*
35371 TGAAAGG
65 T-AAAAG
35378 TAAA
1 TAAA
35382 TTGTTTAAGT
Statistics
Matches: 272, Mismatches: 40, Indels: 50
0.75 0.11 0.14
Matches are distributed among these distances:
59 1 0.00
61 2 0.01
62 48 0.18
63 25 0.09
64 10 0.04
65 37 0.14
66 22 0.08
67 30 0.11
68 5 0.02
69 23 0.08
70 6 0.02
71 23 0.08
72 40 0.15
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (70 bp):
TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAAGCATCATACTTTTTGAGGACT
AAAAG
Found at i:35324 original size:201 final size:200
Alignment explanation
Indices: 34782--35381 Score: 591
Period size: 201 Copynumber: 3.0 Consensus size: 200
34772 TAAAAAATGA
* * * * * *
34782 GTGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACTCTTTGAGGACTA
1 GTGCCACCAGCTTGTGTGGG-C--TT-TAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGACTA
* * * * **
34847 AAAAGGAGTG-CTACCAGCTTGTGT-GAGCTTTTAAAAAAG-AAAAACGTCCTTTTCTTTGAGGA
62 AAAAGGAATGAC-ACCAACTTGTGTAG-GC-TTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGA
* * * * * * * * * *
34909 CTAAAAAAGAGTGCCACAAGCTTATGTAGGTTTTAAAA-TAGAAAAGGCATCTTGTTTTTTTGAG
124 CT--AAAAG-GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCAT-ATTCTTTGAG
*
34973 GAC-------TAAAAG
185 AACTAAAAGGTAAAAG
* *
34982 GTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCTTGCTCTTTGAGGACTAAAAA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGACT-AAAA
* * * *
35047 AGGAATGTCACCAATTTGTGTGGGCTTTAAAAAGGAAAAAACATCTTGCTCTTTGAGGACTAAAA
65 AGGAATGACACCAACTTGTGTAGGCTTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACTAAAA
*
35112 GGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTT-TTTGAGAACTAAA
130 GGTGCCACCAGCTTGTGTGGGCTTTAAAAG-AAAA-AAAAGCATCATA-TTCTTTGAGAACTAAA
35176 AGGTAAAAG
192 AGGTAAAAG
* *
35185 GTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAA-AAA-AGTGTCCTGCTCTTTGAGGACT-AAA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACA-CGTCCTGCTCTTTGAGGACTAAAA
* ** * *
35247 AGTAAGTGACACCAACTTGTGTAGGCTTTAAAAAGGAAAAGGCATCCTGCTTTTTTAGGACTAAA
65 AGGAA-TGACACCAACTTGTGTAGGCTTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACTAAA
* *
35312 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGGACTGAAAG
129 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGAACTAAAAG
35377 GTAAA
194 GTAAA
35382 TTGTTTAAGT
Statistics
Matches: 341, Mismatches: 41, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
194 23 0.07
195 5 0.01
196 53 0.16
197 56 0.16
198 4 0.01
199 31 0.09
200 28 0.08
201 82 0.24
202 21 0.06
203 38 0.11
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (200 bp):
GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGACTAAAAA
GGAATGACACCAACTTGTGTAGGCTTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACTAAAAG
GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGAACTAAAAGGT
AAAAG
Found at i:39639 original size:13 final size:14
Alignment explanation
Indices: 39621--39651 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
39611 TAATTATATT
39621 AAATATAT-AATAA
1 AAATATATAAATAA
39634 AAATATATAAATAA
1 AAATATATAAATAA
39648 AAAT
1 AAAT
39652 TTATGTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATATATAAATAA
Found at i:39900 original size:26 final size:25
Alignment explanation
Indices: 39853--39901 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
39843 TTTTAAAATA
**
39853 AATTTTTGAAAAATATTTTTTTATG
1 AATTTTTGAAAAATATCATTTTATG
39878 AATTTTTGAAAAATCATCATTTTA
1 AATTTTTGAAAAAT-ATCATTTTA
39902 GATGACGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (25 bp):
AATTTTTGAAAAATATCATTTTATG
Found at i:40507 original size:73 final size:72
Alignment explanation
Indices: 40362--40675 Score: 274
Period size: 73 Copynumber: 4.4 Consensus size: 72
40352 TAAAATAAAA
* * * * * * * *
40362 ATTTAAACTTCTAAAAATAAAGATAAATAATAATATAAAAATTTAAA--CTTAT-GTCA-ACCTA
1 ATTTAAACTTTTACAAATAAAAATAAATTAT-ACATAAAAATTTAAATTCATATAATCATATCTA
40423 AAAACA-A-
65 AAAA-ATAC
* * *
40430 ATTTAAA-TTTCTACAAAT-AAAA-AAATTATACAATCAAAAATATAAATTCGTGTAATCATATC
1 ATTTAAACTTT-TACAAATAAAAATAAATTATAC-AT-AAAAATTTAAATTCATATAATCATATC
40492 TAAAAAAATAC
63 T-AAAAAATAC
*
40503 ATTTAAACTTTTACAAATAAAAATAAATTATACCATAAAAATTTAAATTCATATAGGT-ATAT-T
1 ATTTAAACTTTTACAAATAAAAATAAATTATA-CATAAAAATTTAAATTCATATA-ATCATATCT
* *
40566 CGAAAAACAC
64 -AAAAAATAC
* * * * *
40576 ATTTAAATTTTTATAAATAAAAATAAATTATATCTTGAAAATTTTAATTCATATAATCATA-CTA
1 ATTTAAACTTTTACAAATAAAAATAAATTATA-CATAAAAATTTAAATTCATATAATCATATCTA
*
40640 AAAAATAA
65 AAAAATAC
40648 ATTTAAACTTTTACAAATAAAAATAAAT
1 ATTTAAACTTTTACAAATAAAAATAAAT
40676 AATATCTTAA
Statistics
Matches: 200, Mismatches: 29, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
65 1 0.00
66 8 0.04
67 15 0.08
68 13 0.06
69 3 0.01
70 3 0.01
71 4 0.02
72 39 0.19
73 75 0.38
74 27 0.14
75 11 0.05
76 1 0.00
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (72 bp):
ATTTAAACTTTTACAAATAAAAATAAATTATACATAAAAATTTAAATTCATATAATCATATCTAA
AAAATAC
Found at i:40825 original size:14 final size:16
Alignment explanation
Indices: 40806--40844 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
40796 ATCACTAAAT
40806 TTATAAAAAA-TA-TA
1 TTATAAAAAATTATTA
40820 TTATAAAAAATTATTA
1 TTATAAAAAATTATTA
40836 TTATAAAAA
1 TTATAAAAA
40845 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTATAAAAAATTATTA
Found at i:40843 original size:15 final size:14
Alignment explanation
Indices: 40806--40846 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
40796 ATCACTAAAT
*
40806 TTATAAAAAATATA
1 TTATAAAAATTATA
40820 TTATAAAAAATTATTA
1 TTAT-AAAAATTA-TA
40836 TTATAAAAATT
1 TTATAAAAATT
40847 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTATAAAAATTATA
Found at i:41194 original size:11 final size:11
Alignment explanation
Indices: 41159--41262 Score: 58
Period size: 11 Copynumber: 9.5 Consensus size: 11
41149 AAATATAATT
41159 ATATAAAT-TA
1 ATATAAATATA
41169 ATA-AAA-A-A
1 ATATAAATATA
41177 ATAATAAATATA
1 AT-ATAAATATA
41189 ATAT-AATATA
1 ATATAAATATA
41199 ATATTAATATATA
1 ATA-TAA-ATATA
* * *
41212 TTTTAAA-ATTT
1 ATATAAATA-TA
41223 ATATAAATATA
1 ATATAAATATA
* * *
41234 AAATAATTTTAA
1 ATATAAATAT-A
*
41246 ATATAATTATA
1 ATATAAATATA
41257 ATATAA
1 ATATAA
41263 TAACATATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 16 0.22
11 26 0.36
12 17 0.24
13 6 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATATAAATATA
Found at i:41253 original size:12 final size:12
Alignment explanation
Indices: 41148--41263 Score: 57
Period size: 11 Copynumber: 10.8 Consensus size: 12
41138 CTTTTAATAT
41148 TAAATATAATTA
1 TAAATATAATTA
41160 T--ATA-AATTAA
1 TAAATATAATT-A
* *
41170 TAAA-AAAATAA
1 TAAATATAATTA
41181 TAAATATAA-TA
1 TAAATATAATTA
41192 T-AATATAA-TA
1 TAAATATAATTA
* *
41202 TTAATATATATTT
1 TAAATATA-ATTA
41215 TAAA-AT--TTA
1 TAAATATAATTA
41224 T--ATA-AA-TA
1 TAAATATAATTA
*
41232 TAAA-ATAATTT
1 TAAATATAATTA
41243 TAAATATAATTA
1 TAAATATAATTA
41255 T-AATATAAT
1 TAAATATAAT
41264 AACATATAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 33
0.66 0.07 0.27
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 8 0.10
10 18 0.22
11 27 0.34
12 18 0.22
13 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATATAATTA
Found at i:43499 original size:15 final size:15
Alignment explanation
Indices: 43481--43530 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
43471 TATTATAATT
43481 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
43496 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
* *
43510 TTAATAATATAAAGA
1 TTAAAAATATAAAAA
43525 TTAAAA
1 TTAAAA
43531 TGTTTATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:43501 original size:14 final size:14
Alignment explanation
Indices: 43484--43531 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
43474 TATAATTTTA
43484 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
43498 AAAATATTAAATTT
1 AAAATATAAAAATT
*
43512 AATAATATAAAGATT
1 AA-AATATAAAAATT
43527 AAAAT
1 AAAAT
43532 GTTTATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:43518 original size:29 final size:31
Alignment explanation
Indices: 43471--43531 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
43461 ATTTTTTATT
43471 TATTATAATTTTAAAAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
* *
43502 TATTA-AA-TTTAATAATATAAAGATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
43531 T
1 T
43532 GTTTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.75
30 2 0.07
31 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (31 bp):
TATTATAATTTTAAAAATATAAAAATTAAAA
Found at i:43541 original size:29 final size:29
Alignment explanation
Indices: 43476--43541 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
43466 TTATTTATTA
43476 TAATTTTAAAAATATAAAAATTAAAATAT
1 TAATTTTAAAAATATAAAAATTAAAATAT
* * * *
43505 TAAATTTAATAATATAAAGATTAAAATGT
1 TAATTTTAAAAATATAAAAATTAAAATAT
*
43534 TTATTTTA
1 TAATTTTA
43542 CTTAGTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
TAATTTTAAAAATATAAAAATTAAAATAT
Found at i:44757 original size:109 final size:108
Alignment explanation
Indices: 44638--44948 Score: 267
Period size: 108 Copynumber: 2.9 Consensus size: 108
44628 AATAAAAATA
** * * * *
44638 GGGTTAGAGTATCCTTTTGAAAATGATGAGGTTGGAGTGTCCCTAGAGATGAAAAAATTCAATGT
1 GGGTTAGAGTATCCCCTCGAAAATGATGAGGCTAGAGTATCCCTAGAGATG--AAAATTCAATGT
44703 TTTAGAAGTAA-AAAAA-GGGGTTGGAG-ATCCCCTCGGAATTGATG
64 TTTAGAA--AATAAAAATGGGGTTGGAGTATCCCCTCGGAATTGATG
* * * * **
44747 GGGTTGGAGTATCCCCTCGAAAATGGTGGGGCTAGAGTATCCCTTGAGATGAAAATTTGATGTTT
1 GGGTTAGAGTATCCCCTCGAAAATGATGAGGCTAGAGTATCCCTAGAGATGAAAATTCAATGTTT
* ** * * *
44812 TGGAAAATAAAAATGGGGTTGGAGTATCCCCT-AAACAATAATC
66 TAGAAAATAAAAATGGGGTTGGAGTATCCCCTCGGA-ATTGATG
* * * * **
44855 GGGTTAGAGTATTCCCT-TAGAAAT-ATGGGGTTAGAGTATGCCCT-GAGATGAAAATTTTGATG
1 GGGTTAGAGTATCCCCTCGA-AAATGATGAGGCTAGAGTAT-CCCTAGAGATGAAAA-TTCAATG
* *
44917 TTTTGGAAAATAAAAATGGGGTTAGAGTATCC
63 TTTTAGAAAATAAAAATGGGGTTGGAGTATCC
44949 ATTCAGAAAC
Statistics
Matches: 171, Mismatches: 24, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
105 2 0.01
106 5 0.03
107 51 0.30
108 72 0.42
109 41 0.24
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (108 bp):
GGGTTAGAGTATCCCCTCGAAAATGATGAGGCTAGAGTATCCCTAGAGATGAAAATTCAATGTTT
TAGAAAATAAAAATGGGGTTGGAGTATCCCCTCGGAATTGATG
Found at i:44776 original size:28 final size:28
Alignment explanation
Indices: 44719--44789 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
44709 AGTAAAAAAA
* *
44719 GGGGTTGGAG-ATCCCCTCGGAATTGAT
1 GGGGTTGGAGTATCCCCTCGAAAATGAT
*
44746 GGGGTTGGAGTATCCCCTCGAAAATGGT
1 GGGGTTGGAGTATCCCCTCGAAAATGAT
* *
44774 GGGGCTAGAGTATCCC
1 GGGGTTGGAGTATCCC
44790 TTGAGATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 10 0.26
28 28 0.74
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTCGAAAATGAT
Found at i:44893 original size:27 final size:29
Alignment explanation
Indices: 44823--44898 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
44813 GGAAAATAAA
* *
44823 AATGGGGTTGGAGTA-TCCCCTAAACAAT
1 AATGGGGTTAGAGTATTCCCTTAAACAAT
* *
44851 AATCGGGTTAGAGTATTCCCTTAGA-AAT
1 AATGGGGTTAGAGTATTCCCTTAAACAAT
*
44879 -ATGGGGTTAGAGTATGCCCT
1 AATGGGGTTAGAGTATTCCCT
44899 GAGATGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.44
28 16 0.39
29 7 0.17
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (29 bp):
AATGGGGTTAGAGTATTCCCTTAAACAAT
Found at i:45092 original size:81 final size:80
Alignment explanation
Indices: 44855--45140 Score: 274
Period size: 80 Copynumber: 3.5 Consensus size: 80
44845 AACAATAATC
* * * * * **
44855 GGGTTAGAGTATTCCCTTAGAAAT-ATGGGGTTAGAGTATGCCCT-GAGATGAA-AATTTTGATG
1 GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTAT-CCCTAGAGATGAAGAAATTCAATG
* * *
44917 TTTTGGAAAATAAAAATG
65 TTTTAG-AAGTAAAAA-A
** * *
44935 GGGTTAGAGTATCCATTCAGAAACGATGGGTTTGGAGTATCCC-AAAGATGAAGAAATTCAATGT
1 GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
44999 TTTAGAAGTAAAAACA
66 TTTAGAAGTAAAAA-A
* *
45015 GGGTTGGAGTATCCCCTCAAAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
1 GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
45080 TTTAGAAGTAAAAAA
66 TTTAGAAGTAAAAAA
* * * * * ** *
45095 TGGGGTTGGAGCATCCCTTCGGAATTGATGGGGCTAGAGTATCCCT
1 --GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCT
45141 TCAGAAATGG
Statistics
Matches: 171, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
80 76 0.44
81 59 0.35
82 36 0.21
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (80 bp):
GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
TTTAGAAGTAAAAAA
Found at i:45162 original size:28 final size:28
Alignment explanation
Indices: 45097--45167 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
45087 GTAAAAAATG
* * * *
45097 GGGTTGGAGCATCCCTTCGGAATTGATG
1 GGGTTGGAGTATCCCTTCAGAAATGATA
* * *
45125 GGGCTAGAGTATCCCTTCAGAAATGGTA
1 GGGTTGGAGTATCCCTTCAGAAATGATA
45153 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
45168 CTGAGATCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (28 bp):
GGGTTGGAGTATCCCTTCAGAAATGATA
Found at i:45219 original size:81 final size:81
Alignment explanation
Indices: 45132--45328 Score: 225
Period size: 81 Copynumber: 2.4 Consensus size: 81
45122 ATGGGGCTAG
* *** * *
45132 AGTATCCCTTCAGAAATGGTAGGGTTGGAGTATCCCCTGAGATCAAAATTTTGGTGTCTTGGAAA
1 AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
45197 ATAAAAATGGGGTTGA
66 ATAAAAATGGGGTTGA
* * *
45213 AGTATCCCTTCAAAAACAATATGGTTGGAGTATCCCCTAAGATGAAAATTTTGATGTTTTGGAAA
1 AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
***** *
45278 ATAAAACCAATGTTGG
66 ATAAAAATGGGGTTGA
* *
45294 AGTATTCCC-TCAAAAACGATGGGGTTGGAGTATCC
1 AGTA-TCCCTTCAAAAACAATAGGGTTGGAGTATCC
45329 TCTCAGAAAT
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 93 0.96
82 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (81 bp):
AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
ATAAAAATGGGGTTGA
Found at i:45243 original size:271 final size:269
Alignment explanation
Indices: 44747--45328 Score: 674
Period size: 271 Copynumber: 2.2 Consensus size: 269
44737 GGAATTGATG
* * * * * **
44747 GGGTTGGAGTATCCCCTCGAAAATGGTGGGGCTAGAGTATCCCTTGAGATGAAAATTTGATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAAATTCAATGTTT
* * *
44812 TGGAAAATAAAAATGGGGTTGGAGTATCCCCTAAACAATAATCGGGTTAGAGTATTCCCTTAGAA
66 TAGAAAATAAAAATGGGGTTGGAGCATCCCCTAAACAATAATCGGGCTAGAGTATTCCCTTAGAA
* * * *
44877 ATATGGGGTTAGAGTATGCCCTGAGATGAAAATTTTGATGTTTTGGAAAATAAAAATGGGGTTAG
131 ATATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGGGGTTAG
* *
44942 AGTATCCATTCAGAAACGATGGGTTTGGAGTAT-CCCAAAGATGAAGAAATTCAATGTTTTAG-A
196 AGTATCCATTCAAAAACAATGGGTTTGGAGTATCCCCAAAGATGAA-AAATTCAATGTTTTAGAA
*
45005 AGTAAAAACA
260 AATAAAAACA
*
45015 GGGTTGGAGTATCCCCTCAAAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATG-A-AAATTCAATGT
* * ** * * *
45080 TTTAG-AAGTAAAAAATGGGGTTGGAGCATCCCTTCGGA-ATTGATGGGGCTAGAGTA-TCCCTT
64 TTTAGAAAAT-AAAAATGGGGTTGGAGCATCCCCT-AAACAATAATCGGGCTAGAGTATTCCCTT
* * *
45142 CAGAAATGGTAGGGTTGGAGTATCCCCTGAGATCAAAATTTTGGTGTCTTGGAAAATAAAAATGG
127 -AGAAAT-ATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGG
* * * * **
45207 GGTT-GAAGTATCCCTTCAAAAACAATATGG-TTGGAGTATCCCCTAAGATGAAAATTTTGATGT
190 GGTTAG-AGTATCCATTCAAAAACAAT-GGGTTTGGAGTATCCCCAAAGATGAAAAATTCAATGT
* *
45270 TTTGGAAAATAAAACCA
253 TTTAGAAAATAAAAACA
** * *
45287 ATGTTGGAGTATTCCCTCAAAAACGATGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCC
45329 TCTCAGAAAT
Statistics
Matches: 263, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
268 45 0.17
269 10 0.04
270 56 0.21
271 93 0.35
272 59 0.22
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (269 bp):
GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAAATTCAATGTTT
TAGAAAATAAAAATGGGGTTGGAGCATCCCCTAAACAATAATCGGGCTAGAGTATTCCCTTAGAA
ATATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGGGGTTAG
AGTATCCATTCAAAAACAATGGGTTTGGAGTATCCCCAAAGATGAAAAATTCAATGTTTTAGAAA
ATAAAAACA
Found at i:47640 original size:51 final size:52
Alignment explanation
Indices: 47543--47662 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 52
47533 TATATTAAAG
* * **
47543 ATGTATTAATACATTTGGGTCAAAAAACCTAGAATGTATTGATACAATGAAAA
1 ATGTATTAATACATTTGGGT-AAAAAACCCAAAATGTATCAATACAATGAAAA
* *
47596 ATGTATTGATACATTTGGGT-TAAAACCCAAAATGTATCAATACAATGAAAA
1 ATGTATTAATACATTTGGGTAAAAAACCCAAAATGTATCAATACAATGAAAA
* *
47647 ATGTATCAGTACATTT
1 ATGTATTAATACATTT
47663 TCTTTCTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 39 0.67
53 19 0.33
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (52 bp):
ATGTATTAATACATTTGGGTAAAAAACCCAAAATGTATCAATACAATGAAAA
Found at i:48455 original size:69 final size:70
Alignment explanation
Indices: 48366--49001 Score: 275
Period size: 72 Copynumber: 9.5 Consensus size: 70
48356 CTTTTCAAGA
** * * * *
48366 ACAAAAAAAAAGTGCCACCAACTTGTATGGGCTTTTAAAAAAG-AAAAAAAAGTGTCATGCTCTT
1 ACAAAAAAGGAGTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAAAAAAGTGTCTTACTCTT
*
48430 TGAGT
66 TGAGG
* * *
48435 ACGGAACAA-GAGTGCTACCAAC-TGTGTGGGC-TTTCAAAAAGAAAAAAAAAGGTGTCTTAC-C
1 AC-AAAAAAGGAGTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAAAAAA-GTGTCTTACTC
*
48496 TTTCAGG
64 TTTGAGG
* * * *
48503 ACTAAAAAATGAGTGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACT
1 AC-AAAAAAGGAGTGCCACCAACTTGTGTGGG-CTTTTCAAAAAGAAAAA-AAAAGTGTCTTACT
48568 CTTTGAGG
63 CTTTGAGG
* * * * * * *
48576 ACTAAAAAGGAGTGCTACCAGCTTGTGTGAGCTTTT-AAAAAG---AAAAACGT-CCTT-TTCTT
1 ACAAAAAAGGAGTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAAAAAAGTGTCTTACTCTT
48635 TGAGG
66 TGAGG
* * *** **
48640 ACTAAAAAA-GAG-GCCA-CAAGCTTATGTAGG-TTTT-AAAATAGAAAAGGCATCTGT-TT--T
1 AC-AAAAAAGGAGTGCCACCAA-CTTGTGTGGGCTTTTCAAAA-AGAAAAAAAAAGTGTCTTACT
48697 -TTTGAGG
63 CTTTGAGG
* * * * *
48704 AC-TAAAA-G-GTGCCACTAGCTTGTGTGGGC-TTT--AAAAGAAAAAGAAACA-CGTCTTGCTC
1 ACAAAAAAGGAGTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAA-AAA-AGTGTCTTACTC
48762 TTTGAGG
64 TTTGAGG
* * * * * * *
48769 ACTAAAAAGGAATGTCACCAATTTGTGTGGGC--TT-AAAAAGGAAAAAACA---TCTTGCTCTT
1 ACAAAAAAGGAGTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAAAAAAGTGTCTTACTCTT
48828 TGAGG
66 TGAGG
* * * ** * *
48833 AC--TAAA-G-GTGTCACCAGCTTGTGTGGGC-TTT--AAAAGAAAAAGAAAAGCATCATACTTT
1 ACAAAAAAGGAGTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAA-AAAAGTGTCTTACTCT
*
48891 TTGAGA
65 TTGAGG
* * * * *
48897 ACTAAAAGGTAA-AAGGTGTCACCAGCTTGTGTGGGC-TTT--AAAAG-AAAAAAAAGTGTCCTG
1 AC-AAAA---AAGGA-GTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAAAAAAGTGTCTTA
48957 CTCTTTGAGG
61 CTCTTTGAGG
* * * *
48967 AC-TAAAAGTAAGTGACACCAACTTGTGTAGGCTTT
1 ACAAAAAAG-GAGTGCCACCAACTTGTGTGGGCTTT
49002 AAAAGGAAAA
Statistics
Matches: 441, Mismatches: 81, Indels: 92
0.72 0.13 0.15
Matches are distributed among these distances:
60 33 0.07
61 13 0.03
62 35 0.08
63 13 0.03
64 54 0.12
65 20 0.05
66 32 0.07
67 21 0.05
68 55 0.12
69 32 0.07
70 36 0.08
71 10 0.02
72 74 0.17
73 13 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (70 bp):
ACAAAAAAGGAGTGCCACCAACTTGTGTGGGCTTTTCAAAAAGAAAAAAAAAGTGTCTTACTCTT
TGAGG
Found at i:48834 original size:64 final size:63
Alignment explanation
Indices: 48566--49102 Score: 360
Period size: 64 Copynumber: 8.3 Consensus size: 63
48556 AAATGTCTTA
* * * *
48566 CTCTTTGAGGACTAAAAAGGAGTG-CTACCAGCTTGTGTGAGCTTTTAAAA-AGAAAAACGTCCT
1 CTCTTTGAGGACT-AAAAGGAATGTC-ACCAGCTTGTGTGGGC-TTTAAAAGAAAAAAACATCCT
*
48629 T
63 G
* * * * * * * * * **
48630 TTCTTTGAGGACTAAAA-AAGAGGCCACAAGCTTATGTAGGTTTTAAAATAGAAAAGGCAT-CTG
1 CTCTTTGAGGACTAAAAGGA-ATGTCACCAGCTTGTGTGGGCTTTAAAAGA-AAAAAACATCCTG
* * * *
48693 TTTTTTTGAGGACTAAAAGG--TGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTC
1 -CTCTTTGAGGACTAAAAGGAATGTCACCAGCTTGTGTGGGCTTTAAAAG-AAAA-AAACA--TC
*
48756 TTG
61 CTG
** * * *
48759 CTCTTTGAGGACTAAAAAGGAATGTCACCAATTTGTGTGGGCTTAAAAAGGAAAAAACATCTTG
1 CTCTTTGAGGACT-AAAAGGAATGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAACATCCTG
*
48823 CTCTTTGAGGACT-AAAGG--TGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCA
1 CTCTTTGAGGACTAAAAGGAATGTCACCAGCTTGTGTGGGCTTTAAAAG--AAA-AAAA-CATCC
*
48885 TA
62 TG
* *
48887 CTTTTTGAGAACTAAAAGGTAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAA-AGT
1 CTCTTTGAGGACTAAAAGG---AA--TGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAACA--
48951 GTCCTG
59 -TCCTG
* * * * * **
48957 CTCTTTGAGGACTAAAAGTAAGTGACACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCCTG
1 CTCTTTGAGGACTAAAAGGAA-TGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAACATCCTG
* * * * *
49021 CTTTTTTAGGACTAAAAGG--TGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATA
1 CTCTTTGAGGACTAAAAGGAATGTCACCAGCTTGTGTGGGCTTTAAAAG-AAAAAAA-CATCCTG
* *
49084 TTCTTTGAGGACTGAAAGG
1 CTCTTTGAGGACTAAAAGG
49103 TAAATTGTTA
Statistics
Matches: 374, Mismatches: 67, Indels: 65
0.74 0.13 0.13
Matches are distributed among these distances:
60 25 0.07
61 25 0.07
62 44 0.12
63 47 0.13
64 89 0.24
65 17 0.05
66 43 0.11
67 7 0.02
68 23 0.06
69 4 0.01
70 22 0.06
72 28 0.07
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (63 bp):
CTCTTTGAGGACTAAAAGGAATGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAACATCCTG
Found at i:48921 original size:72 final size:69
Alignment explanation
Indices: 48836--49106 Score: 269
Period size: 72 Copynumber: 4.0 Consensus size: 69
48826 TTTGAGGACT
*
48836 AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGAACTA
1 AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAG-AAAA-AAAAGCATCATACTTTTTGAGGACTA
48901 AAAGGTA
64 AAA-GTA
** * * *
48908 AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGTGTCCTGCTCTTTGAGGACTAAA
1 AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATACTTTTTGAGGACTAAA
48973 AGT-
66 AGTA
* * * * * * * *
48976 -AA-GTGACACCAACTTGTGTAGGCTTTAAAAG--GAAAAGGCATCCTGCTTTTTTAGGAC----
1 AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATACTTTTTGAGGACTAAA
49033 --TA
66 AGTA
*
49035 AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATA-TTCTTTGAGGACTGA
1 AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATACTT-TTTGAGGACT-A
*
49099 AAGGTA
64 AAAGTA
49105 AA
1 AA
49107 TTGTTAAGTT
Statistics
Matches: 163, Mismatches: 23, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
58 1 0.01
60 2 0.01
61 26 0.16
62 2 0.01
63 18 0.11
64 20 0.12
66 26 0.16
67 2 0.01
69 2 0.01
70 27 0.17
71 4 0.02
72 33 0.20
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (69 bp):
AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATACTTTTTGAGGACTAAA
AGTA
Found at i:49025 original size:134 final size:122
Alignment explanation
Indices: 48697--49103 Score: 323
Period size: 127 Copynumber: 3.1 Consensus size: 122
48687 CATCTGTTTT
* * * * * * * *
48697 TTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCTTGCTC
1 TTTGAGGACT-AAAGGTGACACCAACTTGTGTAGGCTTTAAAAGAAAAAG-AGCA--TCATACTT
* ** * * *
48762 TTTGAGGACTAAAAAGGAATGTCACCAATTTGTGTGGGCTTAAAAAGGAAAAAACA-TCTTGCTC
62 TTTGAGAACT-AAAAGG--TGTCACCAGCTTGTGTGGGCTTTAAAA-GAAAAAAAAGTCCTGCTC
* * *
48826 TTTGAGGACTAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTT
1 TTTGAGGACTAAAGGTGACACCAACTTGTGTAGGCTTTAAAAGAAAAAG---AGCATCATACTTT
48891 TTGAGAACTAAAAGGTAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGTGTCCT
63 TTGAGAAC-------TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAA--GTCCT
48956 GCTC
119 GCTC
* * *
48960 TTTGAGGACTAAAAGTAAGTGACACCAACTTGTGTAGGCTTTAAAAGGAAAAG-GCATCCTGCTT
1 TTTGAGGACT-AAAG---GTGACACCAACTTGTGTAGGCTTTAAAAGAAAAAGAGCATCATACTT
* * * * **
49024 TTTTAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTC
62 TTTGAGAACTAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAG--TCCTGCTC
49087 TTTGAGGACTGAAAGGT
1 TTTGAGGACT-AAAGGT
49104 AAATTGTTAA
Statistics
Matches: 235, Mismatches: 25, Indels: 41
0.78 0.08 0.14
Matches are distributed among these distances:
124 2 0.01
125 1 0.00
127 61 0.26
128 50 0.21
129 10 0.04
130 4 0.02
131 8 0.03
132 24 0.10
134 39 0.17
135 5 0.02
138 31 0.13
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (122 bp):
TTTGAGGACTAAAGGTGACACCAACTTGTGTAGGCTTTAAAAGAAAAAGAGCATCATACTTTTTG
AGAACTAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGTCCTGCTC
Found at i:49034 original size:198 final size:199
Alignment explanation
Indices: 48706--49106 Score: 569
Period size: 198 Copynumber: 2.0 Consensus size: 199
48696 TTTTGAGGAC
* *
48706 TAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCTTGCTCTTTGAGGAC
1 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGAC
* * * *
48771 TAAAAAGGAATGTCACCAATTTGTGTGGGCTTAAAAAGGAAAAAACATCTTGCTCTTTGAGGACT
66 TAAAAAGGAATGACACCAACTTGTGTAGGCTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACT
*
48836 -AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTT-TTTGAGAAC
131 AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG-AAAA-AAAAGCATCATA-TTCTTTGAGAAC
48899 TAAAAGG
193 TAAAAGG
* **
48906 TAAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAA-AAA-GTGTCCTGCTCTTTGAGGAC
1 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGAC
* * ** * *
48969 T-AAAAGTAAGTGACACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCCTGCTTTTTTAGGAC
66 TAAAAAGGAA-TGACACCAACTTGTGTAGGCTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGAC
* *
49033 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGGACTG
130 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGAACTA
49098 AAAGG
195 AAAGG
49103 TAAA
1 TAAA
49107 TTGTTAAGTT
Statistics
Matches: 180, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
196 2 0.01
197 37 0.21
198 68 0.38
199 35 0.19
200 38 0.21
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (199 bp):
TAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGAC
TAAAAAGGAATGACACCAACTTGTGTAGGCTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACT
AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGAACTAA
AAGG
Found at i:53105 original size:13 final size:14
Alignment explanation
Indices: 53087--53115 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53077 TATATTAATA
53087 TTTAAAT-ATAGTT
1 TTTAAATAATAGTT
53100 TTTAAATAATAGTT
1 TTTAAATAATAGTT
53114 TT
1 TT
53116 CATCGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTTAAATAATAGTT
Found at i:53858 original size:21 final size:22
Alignment explanation
Indices: 53833--53874 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
53823 CTCAAGTATC
*
53833 ATATTTA-AAAGTTAATAATTT
1 ATATTTACAAAATTAATAATTT
*
53854 ATATTTACAAAATTTATAATT
1 ATATTTACAAAATTAATAATT
53875 AATAATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTTACAAAATTAATAATTT
Found at i:54203 original size:73 final size:73
Alignment explanation
Indices: 54126--54370 Score: 286
Period size: 72 Copynumber: 3.4 Consensus size: 73
54116 CTAAAAACAA
* * *
54126 ATTTAAA-TTTCTACAAATAAAAA-AAATTATA-CATCAAAAATATAAATTCGTGTAATCATATC
1 ATTTAAACTTT-TACAAATAAAAATAAATTATACCAT-AAAAATTTAAATTCATATAATCATAT-
*
54188 CAAAAAAATAC
63 CTAAAAAATAC
* *
54199 ATTTAAACTTTTACAAATAAAAATAAATTATACCATAAAAATTTAAATTCATATAGGT-ATATTT
1 ATTTAAACTTTTACAAATAAAAATAAATTATACCATAAAAATTTAAATTCATATA-ATCATATCT
* *
54263 GAAAAACAC
65 AAAAAATAC
* * * * *
54272 ATTTAAA-TTTTATAAATAAAAATAAATTATATCTTGAAAATTTTAATTCATATAATCATA-CTA
1 ATTTAAACTTTTACAAATAAAAATAAATTATACCATAAAAATTTAAATTCATATAATCATATCTA
*
54335 AAAAATAA
66 AAAAATAC
54343 ATTTAAACTTTTACAAATAAAAATAAAT
1 ATTTAAACTTTTACAAATAAAAATAAAT
54371 AATATCTTAA
Statistics
Matches: 147, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
71 15 0.10
72 64 0.44
73 33 0.22
74 31 0.21
75 4 0.03
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (73 bp):
ATTTAAACTTTTACAAATAAAAATAAATTATACCATAAAAATTTAAATTCATATAATCATATCTA
AAAAATAC
Found at i:54554 original size:15 final size:15
Alignment explanation
Indices: 54501--54552 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
54491 ATCACTAAAT
54501 TTATAAAAAATA-TA
1 TTATAAAAAATATTA
*
54515 TTTTAAAAAATATT-
1 TTATAAAAAATATTA
* * *
54529 TTTTTAAAATTATTA
1 TTATAAAAAATATTA
54544 TTATAAAAA
1 TTATAAAAA
54553 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTATAAAAAATATTA
Found at i:54900 original size:5 final size:5
Alignment explanation
Indices: 54885--54973 Score: 56
Period size: 5 Copynumber: 17.2 Consensus size: 5
54875 TAATAAAAAA
* ** * *
54885 ATAAT AAAAT ATAAT ATAAT ATAAT ATTAAT AT-AT ATTTT AAAAT -TTAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT
* *
54934 ATAAAT ATAAA ATAATT TTAAAT ATAATT ATAAT ATAAT A
1 AT-AAT ATAAT ATAA-T AT-AAT ATAA-T ATAAT ATAAT A
54974 ACATATAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
4 6 0.09
5 39 0.61
6 17 0.27
7 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:54919 original size:18 final size:18
Alignment explanation
Indices: 54850--54943 Score: 50
Period size: 18 Copynumber: 5.2 Consensus size: 18
54840 TTACATCTTT
54850 TAATATTAA-ATATAATTA
1 TAATATTAATATATAA-TA
* * *
54868 TATAAATTAATA-AAAAAA
1 TA-ATATTAATATATAATA
**
54886 TAATAAAATATAATATAATA
1 TAATATTA-AT-ATATAATA
* *
54906 TAATATTAATATATATTT
1 TAATATTAATATATAATA
* *
54924 TAAAATTTATATA-AATA
1 TAATATTAATATATAATA
54941 TAA
1 TAA
54944 AATAATTTTA
Statistics
Matches: 55, Mismatches: 16, Indels: 11
0.67 0.20 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 12 0.22
20 11 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATATTAATATATAATA
Found at i:54962 original size:12 final size:12
Alignment explanation
Indices: 54932--54972 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
54922 TTTAAAATTT
*
54932 ATATAAATATAA
1 ATATAATTATAA
*
54944 A-ATAATTTTAA
1 ATATAATTATAA
54955 ATATAATTAT-A
1 ATATAATTATAA
54966 ATATAAT
1 ATATAAT
54973 AACATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATAATTATAA
Found at i:57215 original size:15 final size:15
Alignment explanation
Indices: 57197--57246 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
57187 TATTATAATT
57197 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
57212 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
* *
57226 TTAATAATATAAAGA
1 TTAAAAATATAAAAA
57241 TTAAAA
1 TTAAAA
57247 TGTTTATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:57217 original size:14 final size:14
Alignment explanation
Indices: 57200--57247 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
57190 TATAATTTTA
57200 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
57214 AAAATATTAAATTT
1 AAAATATAAAAATT
*
57228 AATAATATAAAGATT
1 AA-AATATAAAAATT
57243 AAAAT
1 AAAAT
57248 GTTTATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:57234 original size:29 final size:31
Alignment explanation
Indices: 57187--57247 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
57177 ATTTTTTATT
57187 TATTATAATTTTAAAAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
* *
57218 TATTA-AA-TTTAATAATATAAAGATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
57247 T
1 T
57248 GTTTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.75
30 2 0.07
31 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (31 bp):
TATTATAATTTTAAAAATATAAAAATTAAAA
Found at i:57257 original size:29 final size:29
Alignment explanation
Indices: 57192--57257 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
57182 TTATTTATTA
57192 TAATTTTAAAAATATAAAAATTAAAATAT
1 TAATTTTAAAAATATAAAAATTAAAATAT
* * * *
57221 TAAATTTAATAATATAAAGATTAAAATGT
1 TAATTTTAAAAATATAAAAATTAAAATAT
*
57250 TTATTTTA
1 TAATTTTA
57258 CTTAGTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
TAATTTTAAAAATATAAAAATTAAAATAT
Found at i:58479 original size:110 final size:108
Alignment explanation
Indices: 58357--58668 Score: 258
Period size: 108 Copynumber: 2.9 Consensus size: 108
58347 AATAAAAATA
** * * * *
58357 GGGTTAGAGTATCCTTTTGAAAATGATGAGGTTGGAGTGTCCCTAGAGATGAAAAAATTCAATGT
1 GGGTTAGAGTATCCCCTCGAAAATGATGAGGCTAGAGTATCCCTAGAGATG--AAAATTCAATGT
58422 TTTAGAAGTAA-AAAAAAGGGGTTGGAG-ATCCCCTCGGAATTGATG
64 TTTAGAA--AATAAAAAAGGGGTTGGAGTATCCCCTCGGAATTGATG
* * * * **
58467 GGGTTGGAGTATCCCCTCGAAAATGGTGGGGCTAGAGTATCCCTTGAGATGAAAATTTGATGTTT
1 GGGTTAGAGTATCCCCTCGAAAATGATGAGGCTAGAGTATCCCTAGAGATGAAAATTCAATGTTT
* * ** * * *
58532 TGGAAAATAAAAATGGGGTTGGAGTATCCCCT-AAACAATAATC
66 TAGAAAATAAAAAAGGGGTTGGAGTATCCCCTCGGA-ATTGATG
* * * * **
58575 GGGTTAGAGTATTCCCT-TAGAAAT-ATGGGGTTAGAGTATGCCCT-GAGATGAAAATTTTGATG
1 GGGTTAGAGTATCCCCTCGA-AAATGATGAGGCTAGAGTAT-CCCTAGAGATGAAAA-TTCAATG
* * *
58637 TTTTGGAAAATAAAAATGGGGTTAGAGTATCC
63 TTTTAGAAAATAAAAAAGGGGTTGGAGTATCC
58669 ATTCAGAAAC
Statistics
Matches: 171, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
106 2 0.01
107 40 0.23
108 88 0.51
110 41 0.24
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (108 bp):
GGGTTAGAGTATCCCCTCGAAAATGATGAGGCTAGAGTATCCCTAGAGATGAAAATTCAATGTTT
TAGAAAATAAAAAAGGGGTTGGAGTATCCCCTCGGAATTGATG
Found at i:58496 original size:28 final size:28
Alignment explanation
Indices: 58439--58509 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
58429 GTAAAAAAAA
* *
58439 GGGGTTGGAG-ATCCCCTCGGAATTGAT
1 GGGGTTGGAGTATCCCCTCGAAAATGAT
*
58466 GGGGTTGGAGTATCCCCTCGAAAATGGT
1 GGGGTTGGAGTATCCCCTCGAAAATGAT
* *
58494 GGGGCTAGAGTATCCC
1 GGGGTTGGAGTATCCC
58510 TTGAGATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 10 0.26
28 28 0.74
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTCGAAAATGAT
Found at i:58585 original size:108 final size:108
Alignment explanation
Indices: 58467--58668 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 108
58457 GGAATTGATG
* *
58467 GGGTTGGAGTATCCCCTCGA-AAATGGTGGGGCTAGAGTAT-CCCTTGAGATGAAAA-TTTGATG
1 GGGTTAGAGTATCCCCT-GAGAAAT-ATGGGGCTAGAGTATGCCC-TGAGATGAAAATTTTGATG
*
58529 TTTTGGAAAATAAAAATGGGGTTGGAGTATCCCCTAAACAATAATC
63 TTTTGGAAAATAAAAATGGGGTTAGAGTATCCCCTAAACAATAATC
* * *
58575 GGGTTAGAGTATTCCCTTAGAAATATGGGGTTAGAGTATGCCCTGAGATGAAAATTTTGATGTTT
1 GGGTTAGAGTATCCCCTGAGAAATATGGGGCTAGAGTATGCCCTGAGATGAAAATTTTGATGTTT
58640 TGGAAAATAAAAATGGGGTTAGAGTATCC
66 TGGAAAATAAAAATGGGGTTAGAGTATCC
58669 ATTCAGAAAC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
107 25 0.29
108 60 0.71
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (108 bp):
GGGTTAGAGTATCCCCTGAGAAATATGGGGCTAGAGTATGCCCTGAGATGAAAATTTTGATGTTT
TGGAAAATAAAAATGGGGTTAGAGTATCCCCTAAACAATAATC
Found at i:58613 original size:27 final size:29
Alignment explanation
Indices: 58543--58618 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
58533 GGAAAATAAA
* *
58543 AATGGGGTTGGAGTA-TCCCCTAAACAAT
1 AATGGGGTTAGAGTATTCCCTTAAACAAT
* *
58571 AATCGGGTTAGAGTATTCCCTTAGA-AAT
1 AATGGGGTTAGAGTATTCCCTTAAACAAT
*
58599 -ATGGGGTTAGAGTATGCCCT
1 AATGGGGTTAGAGTATTCCCT
58619 GAGATGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.44
28 16 0.39
29 7 0.17
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (29 bp):
AATGGGGTTAGAGTATTCCCTTAAACAAT
Found at i:58812 original size:81 final size:80
Alignment explanation
Indices: 58575--58860 Score: 274
Period size: 80 Copynumber: 3.5 Consensus size: 80
58565 AACAATAATC
* * * * * **
58575 GGGTTAGAGTATTCCCTTAGAAAT-ATGGGGTTAGAGTATGCCCT-GAGATGAA-AATTTTGATG
1 GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTAT-CCCTAGAGATGAAGAAATTCAATG
* * *
58637 TTTTGGAAAATAAAAATG
65 TTTTAG-AAGTAAAAA-A
** * *
58655 GGGTTAGAGTATCCATTCAGAAACGATGGGTTTGGAGTATCCC-AAAGATGAAGAAATTCAATGT
1 GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
58719 TTTAGAAGTAAAAACA
66 TTTAGAAGTAAAAA-A
* *
58735 GGGTTGGAGTATCCCCTCAAAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
1 GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
58800 TTTAGAAGTAAAAAA
66 TTTAGAAGTAAAAAA
* * * * * ** *
58815 TGGGGTTGGAGCATCCCTTCGGAATTGATGGGGCTAGAGTATCCCT
1 --GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCT
58861 TCAGAAATGG
Statistics
Matches: 171, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
80 76 0.44
81 59 0.35
82 36 0.21
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (80 bp):
GGGTTAGAGTATCCCCTCAGAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
TTTAGAAGTAAAAAA
Found at i:58882 original size:28 final size:28
Alignment explanation
Indices: 58817--58887 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
58807 GTAAAAAATG
* * * *
58817 GGGTTGGAGCATCCCTTCGGAATTGATG
1 GGGTTGGAGTATCCCTTCAGAAATGATA
* * *
58845 GGGCTAGAGTATCCCTTCAGAAATGGTA
1 GGGTTGGAGTATCCCTTCAGAAATGATA
58873 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
58888 CTGAGATCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (28 bp):
GGGTTGGAGTATCCCTTCAGAAATGATA
Found at i:58939 original size:81 final size:81
Alignment explanation
Indices: 58852--59048 Score: 225
Period size: 81 Copynumber: 2.4 Consensus size: 81
58842 ATGGGGCTAG
* *** * *
58852 AGTATCCCTTCAGAAATGGTAGGGTTGGAGTATCCCCTGAGATCAAAATTTTGGTGTCTTGGAAA
1 AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
58917 ATAAAAATGGGGTTGA
66 ATAAAAATGGGGTTGA
* * *
58933 AGTATCCCTTCAAAAACAATATGGTTGGAGTATCCCCTAAGATGAAAATTTTGATGTTTTGGAAA
1 AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
***** *
58998 ATAAAACCAATGTTGG
66 ATAAAAATGGGGTTGA
* *
59014 AGTATTCCC-TCAAAAACGATGGGGTTGGAGTATCC
1 AGTA-TCCCTTCAAAAACAATAGGGTTGGAGTATCC
59049 TCTCAGAAAT
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 93 0.96
82 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (81 bp):
AGTATCCCTTCAAAAACAATAGGGTTGGAGTATCCCCTAAGATCAAAATTTTGATGTCTTGGAAA
ATAAAAATGGGGTTGA
Found at i:58963 original size:271 final size:269
Alignment explanation
Indices: 58467--59048 Score: 674
Period size: 271 Copynumber: 2.2 Consensus size: 269
58457 GGAATTGATG
* * * * * **
58467 GGGTTGGAGTATCCCCTCGAAAATGGTGGGGCTAGAGTATCCCTTGAGATGAAAATTTGATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAAATTCAATGTTT
* * *
58532 TGGAAAATAAAAATGGGGTTGGAGTATCCCCTAAACAATAATCGGGTTAGAGTATTCCCTTAGAA
66 TAGAAAATAAAAATGGGGTTGGAGCATCCCCTAAACAATAATCGGGCTAGAGTATTCCCTTAGAA
* * * *
58597 ATATGGGGTTAGAGTATGCCCTGAGATGAAAATTTTGATGTTTTGGAAAATAAAAATGGGGTTAG
131 ATATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGGGGTTAG
* *
58662 AGTATCCATTCAGAAACGATGGGTTTGGAGTAT-CCCAAAGATGAAGAAATTCAATGTTTTAG-A
196 AGTATCCATTCAAAAACAATGGGTTTGGAGTATCCCCAAAGATGAA-AAATTCAATGTTTTAGAA
*
58725 AGTAAAAACA
260 AATAAAAACA
*
58735 GGGTTGGAGTATCCCCTCAAAAATGATGGGTTTGGAGTATCCCTAGAGATGAAGAAATTCAATGT
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATG-A-AAATTCAATGT
* * ** * * *
58800 TTTAG-AAGTAAAAAATGGGGTTGGAGCATCCCTTCGGA-ATTGATGGGGCTAGAGTA-TCCCTT
64 TTTAGAAAAT-AAAAATGGGGTTGGAGCATCCCCT-AAACAATAATCGGGCTAGAGTATTCCCTT
* * *
58862 CAGAAATGGTAGGGTTGGAGTATCCCCTGAGATCAAAATTTTGGTGTCTTGGAAAATAAAAATGG
127 -AGAAAT-ATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGG
* * * * **
58927 GGTT-GAAGTATCCCTTCAAAAACAATATGG-TTGGAGTATCCCCTAAGATGAAAATTTTGATGT
190 GGTTAG-AGTATCCATTCAAAAACAAT-GGGTTTGGAGTATCCCCAAAGATGAAAAATTCAATGT
* *
58990 TTTGGAAAATAAAACCA
253 TTTAGAAAATAAAAACA
** * *
59007 ATGTTGGAGTATTCCCTCAAAAACGATGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCC
59049 TCTCAGAAAT
Statistics
Matches: 263, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
268 45 0.17
269 10 0.04
270 56 0.21
271 93 0.35
272 59 0.22
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (269 bp):
GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAAATTCAATGTTT
TAGAAAATAAAAATGGGGTTGGAGCATCCCCTAAACAATAATCGGGCTAGAGTATTCCCTTAGAA
ATATAGGGTTAGAGTATCCCCTGAGATCAAAATTTTGATGTCTTGGAAAATAAAAATGGGGTTAG
AGTATCCATTCAAAAACAATGGGTTTGGAGTATCCCCAAAGATGAAAAATTCAATGTTTTAGAAA
ATAAAAACA
Found at i:61370 original size:51 final size:52
Alignment explanation
Indices: 61251--61391 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 52
61241 AATAGCCTAC
* * * * *
61251 ATGTATCGATATATTGAAGAATGTATTAATACATTTGGGTCAAAAAAACCTAGA
1 ATGTATCGATACAATGAAAAATGTATTAATACATTTGGGT--AAAAAACCCAAA
* * *
61305 ATGTATTGATACAATGAAAAATGTATTGATACATTTGGGT-TAAAACCCAAA
1 ATGTATCGATACAATGAAAAATGTATTAATACATTTGGGTAAAAAACCCAAA
* * *
61356 ATGTATCAATACAATGAAAAATGTATCAGTACATTT
1 ATGTATCGATACAATGAAAAATGTATTAATACATTT
61392 TCTTTCTAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
51 39 0.53
54 35 0.47
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATTAATACATTTGGGTAAAAAACCCAAA
Found at i:62189 original size:71 final size:70
Alignment explanation
Indices: 62108--62756 Score: 396
Period size: 72 Copynumber: 9.5 Consensus size: 70
62098 ACAAAAAAAA
* * * *
62108 AGTGCCACCAACTTGTATGGGCTTTTAAAAAAGAAAAAAAAAGTGTCATGCTCTTTGAGTACGGA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTGCTCTTTGAGGAC-TA
62173 AACAA-G
65 AA-AAGG
* * *
62179 AGTGCTACCAACTTGTGTGGGC-TTTCAAAAAGAAAAAAAAAGGTGTCTTGCTCTTTCAGGACTA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAA-GTGTCTTGCTCTTTGAGGACT-
*
62243 AAAAATG
64 AAAAAGG
* ** * *
62250 AGTGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACTCTTTGAGGACT
1 AGTGCCACCAACTTGTGTGGG-CTTTTAAAAAAGAAAAA-AAAAGTGTCTTGCTCTTTGAGGACT
62315 AAAAAGG
64 AAAAAGG
* * * * * *
62322 AGTGCTACCAGCTTGTGTGAGCTTTTAAAAAAG---AAAAACGT-CCTT-TTCTTTGAGGACTAA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTGCTCTTTGAGGACTAA
*
62382 AAAAG
66 AAAGG
* * ** *** ** * *
62387 AGTGCCA-CAAGCTTATGTAGG-TTTTAAAATGGAAAAGGCATCT-TATT--TTTTTGAGGACT-
1 AGTGCCACCAA-CTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTGCTCTTTGAGGACTA
62446 AAAA-G
65 AAAAGG
* * *
62451 -GTGCCACTAGCTTGTGTGGGC-TTT--AAAAGAAAAAGAAACA-CGTCTTGCTCTTTGAGGACT
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAA-AAA-AGTGTCTTGCTCTTTGAGGACT
62511 AAAAAAGG
64 -AAAAAGG
* * * * *
62519 AATGCCACCAATTTGTATGGGC-TTT-AAAAAGGAAAAAACA---TCTTGCTCTTTGAGGACT--
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTGCTCTTTGAGGACTAA
*
62577 AAATG
66 AAAGG
* ** * * * *
62582 -GTGCCACCAGCTTGTGTGGGC-TTT--AAAAGAAAAAGAAAAGCATCATACTTTTTGAGAACTA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAA-AAAAGTGTCTTGCTCTTTGAGGACTA
*
62643 AAAGGTG
65 AAAAG-G
* * * *
62650 AAAGGTGTCACCAGCTTGTGTGGGC-TTT--AAAAGAAAAAGAACAGTGTCCTGCTCTTTGAGGA
1 --A-GTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAA-AAAAGTGTCTTGCTCTTTGAGGA
*
62712 CT-AAAAGTA
62 CTAAAAAG-G
* * *
62721 AGTGACACCAACTTGTGTAGGC-TTTAAAAAGGAAAA
1 AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAA
62757 GGCATCCTGC
Statistics
Matches: 456, Mismatches: 87, Indels: 71
0.74 0.14 0.12
Matches are distributed among these distances:
61 16 0.04
62 24 0.05
63 24 0.05
64 13 0.03
65 60 0.13
66 32 0.07
67 15 0.03
68 26 0.06
69 22 0.05
70 37 0.08
71 75 0.16
72 76 0.17
73 32 0.07
74 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (70 bp):
AGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGAAAAAAAAAGTGTCTTGCTCTTTGAGGACTAA
AAAGG
Found at i:62313 original size:73 final size:69
Alignment explanation
Indices: 62101--62820 Score: 400
Period size: 65 Copynumber: 10.7 Consensus size: 69
62091 TTCAAGAACA
* * * * *
62101 AAAAAAAAGTGCCACCAACTTGTATGGGCTTTTAAAAAAGAAAAAAAAAGTGTCATGCTCTTTGA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGC-TTTCAAAAAGAAAAAAAAAATGTCTTGCTCTTTGA
* *
62166 GTACGG
65 GGAC-T
* * * *
62172 AAACAAGAGTGCTACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAGGTGTCTTGCTCTTTCA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAA-ATGTCTTGCTCTTTGA
62237 GGACT
65 GGACT
* * *
62242 AAAAAATGAGTGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACTCTT
1 AAAAAA-GAGTGCCACCAACTTGTGTGGG-C-TTTCAAAAAGAAAAA-AAAAATGTCTTGCTCTT
62307 TGAGGACT
62 TGAGGACT
* * * * * * * *
62315 AAAAAGGAGTGCTACCAGCTTGTGTGAGCTTT---TAA-AAAAGAAAAACGTCCTT-TTCTTTGA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGT-CTTGCTCTTTGA
62375 GGACT
65 GGACT
* * * * * *** ** *
62380 AAAAAAGAGTGCCA-CAAGCTTATGTAGG-TTTTAAAATG-GAAAAGGCA--TCTTATTTTTTTG
1 AAAAAAGAGTGCCACCAA-CTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTT-GCTCTTTG
62440 AGGACT
64 AGGACT
* * * *
62446 --AAAAG-GTGCCACTAGCTTGTGTGGGCTTT--AAAAGAAAAAGAAACACGTCTTGCTCTTTGA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAA-AAAAATGTCTTGCTCTTTGA
62506 GGACT
65 GGACT
* * * * *
62511 AAAAAAGGAATGCCACCAATTTGTATGGGCTTT-AAAAAG-GAAAAAACA--TCTTGCTCTTTGA
1 AAAAAA-GAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTTGCTCTTTGA
62572 GGACT
65 GGACT
* * * * * *
62577 --AAATG-GTGCCACCAGCTTGTGTGGGCTTT--AAAAGAAAAAGAAAA-GCATCATACTTTTTG
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATG--TCTTGCTCTTTG
*
62636 AGAACT
64 AGGACT
* * * * *
62642 AAAAGGTGAA-AGGTGTCACCAGCTTGTGTGGGCTTT--AAAAGAAAAAGAACAGTGTCCTGCTC
1 AAAA----AAGA-GTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAA-AAAAATGTCTTGCTC
62704 TTTGAGGACT
60 TTTGAGGACT
* * * * *** * * *
62714 AAAAGTA-AGTGACACCAACTTGTGTAGGCTTT-AAAAAG-GAAAAGGCA--TCCTGCTTTTTTA
1 AAAA-AAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTTGCTCTTTGA
62774 GGACT
65 GGACT
*
62779 --AAAAG-GTGCCACCAGCTTGTGTGGGCTTT--AAAAGAAAAAAAA
1 AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAA
62821 GCATCATATT
Statistics
Matches: 513, Mismatches: 95, Indels: 91
0.73 0.14 0.13
Matches are distributed among these distances:
61 10 0.02
62 56 0.11
63 20 0.04
64 23 0.04
65 80 0.16
66 41 0.08
67 14 0.03
68 30 0.06
69 30 0.06
70 31 0.06
71 64 0.12
72 70 0.14
73 39 0.08
74 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (69 bp):
AAAAAAGAGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAAAAAAAATGTCTTGCTCTTTGAG
GACT
Found at i:62494 original size:131 final size:130
Alignment explanation
Indices: 62297--62620 Score: 374
Period size: 131 Copynumber: 2.5 Consensus size: 130
62287 AAGAAAAATG
* * * *
62297 TCTTACTCTTTGAGGACTAAAAAGGAGTGCTACCAGCTTGTGTGAGCTTT--TA-AAAAAGAAAA
1 TCTTGCTCTTTGAGGACT-AAAA-G-GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAA
* * * *
62359 ACGTCCTT-TTCTTTGAGGACTAAAAAA-GAGTGCCA-CAAGCTTATGTA-GGTTTTAAAATGGA
63 ACGT-CTTGCTCTTTGAGGACTAAAAAAGGAATGCCACCAA--TT-TGTAGGGCTTTAAAAAGGA
**
62420 AAAGGCA
124 AAAAACA
** * * *
62427 TCTTATTTTTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACAC
1 TCTT-GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAAC
62492 GTCTTGCTCTTTGAGGACTAAAAAAGGAATGCCACCAATTTGTATGGGCTTTAAAAAGGAAAAAA
65 GTCTTGCTCTTTGAGGACTAAAAAAGGAATGCCACCAATTTGTA-GGGCTTTAAAAAGGAAAAAA
62557 CA
129 CA
*
62559 TCTTGCTCTTTGAGGACTAAATGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAA
1 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAA
62621 GCATCATACT
Statistics
Matches: 165, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
128 21 0.13
129 1 0.01
130 16 0.10
131 96 0.58
132 28 0.17
133 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (130 bp):
TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAACG
TCTTGCTCTTTGAGGACTAAAAAAGGAATGCCACCAATTTGTAGGGCTTTAAAAAGGAAAAAACA
Found at i:62666 original size:72 final size:70
Alignment explanation
Indices: 62447--62851 Score: 295
Period size: 72 Copynumber: 6.0 Consensus size: 70
62437 TTGAGGACTA
* * * * *
62447 AAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACA-CGTCTTGCTCTTTGAGGACT
1 AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAA-AGCATCATACTTTTTGAGGACT
62511 -AAA--
65 AAAAGT
** * ** * * *
62514 AAAGGAATGCCACCAATTTGTATGGGCTTTAAAA-AGGAA-AAAA-CATCTTGCTCTTTGAGGAC
1 AAAGG--TGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGGAC
62576 T-AAA-T
64 TAAAAGT
*
62581 ---GGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGAACTA
1 AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGGACTA
62643 AAAGGT
66 AAA-GT
* * ** * * *
62649 GAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAACAGTGTCCTGCTCTTTGAGGACT
1 -AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGGACT
62714 AAAAGT
65 AAAAGT
* * * * * * *
62720 -AA-GTGACACCAACTTGTGTAGGCTTT---A-AAAAGGAAAAGGCATCCTGCTTTTTTAGGACT
1 AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAA-GCATCATACTTTTTGAGGACT
62779 ---A--
65 AAAAGT
62780 AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG-AAAA-AAAAGCATCATA-TTCTTTGAGGACT
1 AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTT-TTTGAGGACT
*
62842 GAAAGGT
65 -AAAAGT
62849 AAA
1 AAA
62852 ATGTTTAAGT
Statistics
Matches: 270, Mismatches: 41, Indels: 52
0.74 0.11 0.14
Matches are distributed among these distances:
61 2 0.01
62 48 0.18
63 18 0.07
64 18 0.07
65 38 0.14
66 26 0.10
67 8 0.03
68 25 0.09
69 28 0.10
71 2 0.01
72 57 0.21
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (70 bp):
AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTTTTTGAGGACTA
AAAGT
Found at i:62687 original size:131 final size:131
Alignment explanation
Indices: 62297--62749 Score: 355
Period size: 131 Copynumber: 3.4 Consensus size: 131
62287 AAGAAAAATG
* * * * *
62297 TCTTACTCTTTGAGGACTAAAAAGGAGTGCTACCAGCTTGTGTGAGCTTT--TA-AAAAAGAAAA
1 TCTTGCTCTTTGAGGACT-AAAA-G-GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAC
* * ** * * * * * * *
62359 ACGTCCTTTTCTTTGAGGACTAAAAAA-GAGTGCCA-CAAGCTTATGTAGGTTTTAAAATGGAAA
63 ACATCATACTCTTTGAGAACTAAAAAAGGAATGCCACCAA-CTTGTATGGGCTTTAAAAAGGAAA
**
62422 AGGCA
127 AAACA
** * *
62427 TCTTATTTTTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACAC
1 TCTT-GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACAC
* * * * *
62492 GTCTTGCTCTTTGAGGACTAAAAAAGGAATGCCACCAATTTGTATGGGCTTTAAAAAGGAAAAAA
65 ATCATACTCTTTGAGAACTAAAAAAGGAATGCCACCAACTTGTATGGGCTTTAAAAAGGAAAAAA
62557 CA
130 CA
*
62559 TCTTGCTCTTTGAGGACTAAATGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAA-AGC
1 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACA-C
* * * * * *
62623 ATCATACTTTTTGAGAACT-AAAAGGTGAAAGGTGTCACCAGCTTGTGTGGGCTTT-AAAAGAAA
65 ATCATACTCTTTGAGAACTAAAAAAG-G-AA--TGCCACCAACTTGTATGGGCTTTAAAAAGGAA
62686 AAGAACA
126 AA-AACA
* * * *
62693 GTGTCCTGCTCTTTGAGGACTAAAAGTAAGTGACACCAACTTGTGTAGGCTTTAAAA
1 ---TCTTGCTCTTTGAGGACTAAAAG---GTGCCACCAGCTTGTGTGGGCTTTAAAA
62750 AGGAAAAGGC
Statistics
Matches: 264, Mismatches: 41, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
128 21 0.08
129 1 0.00
130 15 0.06
131 112 0.42
132 34 0.13
133 12 0.05
134 23 0.09
137 21 0.08
140 25 0.09
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (131 bp):
TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACA
TCATACTCTTTGAGAACTAAAAAAGGAATGCCACCAACTTGTATGGGCTTTAAAAAGGAAAAAAC
A
Found at i:62762 original size:137 final size:127
Alignment explanation
Indices: 62436--62817 Score: 299
Period size: 131 Copynumber: 2.9 Consensus size: 127
62426 ATCTTATTTT
* * * * * * *
62436 TTTGAGGACTAAA-AGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCTTGCT
1 TTTGAGGACTAAATA-GTGACACCAACTTGTGTAGGCTTTAAAAGAAAAAG-AGCA--TCATACT
* * ** * *
62500 CTTTGAGGACTAAAAAAGGAATGCCACCAATTTGTATGGGCTTTAAAAAGGAAAA-AACA---TC
62 TTTTGAGAACT--AAAAGG--TGCCACCAGCTTGTGTGGGCTTT-AAAAGAAAAAGAACAGTGTC
*
62561 TTGCTC
122 CTGCTC
* * * *
62567 TTTGAGGACTAAATGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTT
1 TTTGAGGACTAAATAGTGACACCAACTTGTGTAGGCTTTAAAAGAAAAAG---AGCATCATACTT
*
62632 TTTGAGAACTAAAAGGTGAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAACAGTGT
63 TTTGAGAACT---A----AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAACAGTGT
62697 CCTGCTC
121 CCTGCTC
* * *
62704 TTTGAGGACTAAAAGTAAGTGACACCAACTTGTGTAGGCTTTAAAAAGGAAAAG-GCATCCTGCT
1 TTTGAGGACT-AAA-T-AGTGACACCAACTTGTGTAGGCTTT-AAAAGAAAAAGAGCATCATACT
* *
62768 TTTTTAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAA
62 TTTTGAGAACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAA
62818 AAAGCATCAT
Statistics
Matches: 212, Mismatches: 23, Indels: 33
0.79 0.09 0.12
Matches are distributed among these distances:
130 37 0.17
131 61 0.29
132 3 0.01
133 13 0.06
134 24 0.11
136 5 0.02
137 34 0.16
138 3 0.01
139 1 0.00
140 21 0.10
141 10 0.05
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (127 bp):
TTTGAGGACTAAATAGTGACACCAACTTGTGTAGGCTTTAAAAGAAAAAGAGCATCATACTTTTT
GAGAACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAACAGTGTCCTGCTC
Found at i:62811 original size:202 final size:200
Alignment explanation
Indices: 62251--62848 Score: 578
Period size: 202 Copynumber: 3.0 Consensus size: 200
62241 TAAAAAATGA
* * * * * *
62251 GTGCCACCAACTTATGTGGGCCTTTTCTAAAAGAAAAAGAAAAATGTCTTACTCTTTGAGGACTA
1 GTGCCACCAGCTTGTGTGGG-C--TT-TAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGACTA
* * * * * **
62316 AAAAGGAGTG-CTACCAGCTTGTGT-GAGCTTTTAAAAAAG-AAAAACGTCCTTTTCTTTGAGGA
62 AAAAGGAATGAC-ACCAACTTGTATAG-GC-TTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGA
* * * * * * * *
62378 CTAAAAAAGAGTGCCACAAGCTTATGTAGGTTTTAAAATG--GAAAAGGCATCTTATTTTTTTGA
124 CT--AAAAG-GTGCCACCAGCTTGTGTGGGCTTTAAAA-GAAAAAAAAGCATCATA-TTCTTTGA
*
62441 GGACT---A----AAAG
184 GAACTAAAAGGTGAAAG
* *
62451 GTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCTTGCTCTTTGAGGACTAAAAA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGACT-AAAA
* * * * *
62516 AGGAATGCCACCAATTTGTATGGGCTTTAAAAAGGAAAAAACATCTTGCTCTTTGAGGACTAAAT
65 AGGAATGACACCAACTTGTATAGGCTTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACTAAAA
62581 GGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCATCATACTT-TTTGAGAACTAAA
130 GGTGCCACCAGCTTGTGTGGGCTTTAAAAG-AAAA-AAAAGCATCATA-TTCTTTGAGAACTAAA
62645 AGGTGAAAG
192 AGGTGAAAG
* *
62654 GTGTCACCAGCTTGTGTGGGCTTTAAAAGAAAAAG-AACAGTGTCCTGCTCTTTGAGGACT-AAA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACA-CGTCCTGCTCTTTGAGGACTAAAA
* * ** * *
62717 AGTAAGTGACACCAACTTGTGTAGGCTTTAAAAAGGAAAAGGCATCCTGCTTTTTTAGGACTAAA
65 AGGAA-TGACACCAACTTGTATAGGCTTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACTAAA
* *
62782 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGGACTGAAAG
129 AGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGAACTAAAAG
62847 GT
194 GT
62849 AAAATGTTTA
Statistics
Matches: 338, Mismatches: 42, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
193 1 0.00
194 24 0.07
195 4 0.01
196 53 0.16
197 56 0.17
198 2 0.01
199 4 0.01
200 44 0.13
201 11 0.03
202 84 0.25
203 55 0.16
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (200 bp):
GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGAAACACGTCCTGCTCTTTGAGGACTAAAAA
GGAATGACACCAACTTGTATAGGCTTTAAAAAGGAAAAAACATCCTGCTCTTTGAGGACTAAAAG
GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAAAGCATCATATTCTTTGAGAACTAAAAGGT
GAAAG
Found at i:63748 original size:13 final size:13
Alignment explanation
Indices: 63730--63756 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63720 TTGACCATTA
63730 TGATTTGGTGTCT
1 TGATTTGGTGTCT
63743 TGATTTGGTGTCT
1 TGATTTGGTGTCT
63756 T
1 T
63757 AACATGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.30, T:0.56
Consensus pattern (13 bp):
TGATTTGGTGTCT
Found at i:67650 original size:52 final size:52
Alignment explanation
Indices: 67580--67700 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
67570 GAAAATTTAT
*
67580 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
67632 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
67684 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
67701 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:67713 original size:52 final size:51
Alignment explanation
Indices: 67580--67720 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
67570 GAAAATTTAT
67580 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
67632 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
67684 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
67721 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:67727 original size:13 final size:13
Alignment explanation
Indices: 67709--67733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67699 CAAAGATCAG
67709 TGTATCGATACAA
1 TGTATCGATACAA
67722 TGTATCGATACA
1 TGTATCGATACA
67734 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67811 original size:33 final size:33
Alignment explanation
Indices: 67774--67840 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
67764 AGTAGCTTAA
67774 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
67807 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
67840 A
1 A
67841 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:67814 original size:13 final size:13
Alignment explanation
Indices: 67796--67820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67786 CAAAAAAATA
67796 TGTATCGATACAT
1 TGTATCGATACAT
67809 TGTATCGATACA
1 TGTATCGATACA
67821 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:68926 original size:49 final size:49
Alignment explanation
Indices: 68717--69475 Score: 1089
Period size: 49 Copynumber: 15.7 Consensus size: 49
68707 AAAAGGATGT
*
68717 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
68769 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
68812 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
68860 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
68909 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
68957 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
69006 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
69055 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
69098 CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
69146 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
69195 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
69244 CAATATGCTGATTCAGGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
69293 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
69342 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
69391 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
69440 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
69476 GAAGGGTTGC
Statistics
Matches: 633, Mismatches: 59, Indels: 33
0.87 0.08 0.05
Matches are distributed among these distances:
43 78 0.12
45 1 0.00
48 138 0.22
49 385 0.61
52 31 0.05
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:69232 original size:286 final size:287
Alignment explanation
Indices: 68717--69475 Score: 1286
Period size: 286 Copynumber: 2.6 Consensus size: 287
68707 AAAAGGATGT
* * *
68717 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
68782 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
63 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
68847 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
128 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* *
68912 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTG-AGGTGCCAATGTGCTGATTCAAGGC
193 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
68976 CAGCGACATTGGACTTAATGGTGAAGGTGC
258 CAGCGACATTGGACTTAATGGTGAAGGTGC
69006 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
69071 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
69136 GGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
131 GGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
*
69201 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAG
196 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG
* *
69266 CTATATTGGACTTAATGGTGAAGGTGC
261 CGACATTGGACTTAATGGTGAAGGTGC
69293 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
69358 GGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
66 GGCCAGCTATATTGGACTT-A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
* * * * *
69423 CTTAAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
125 CTTAAAGGTG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
69476 GAAGGGTTGC
Statistics
Matches: 446, Mismatches: 16, Indels: 11
0.94 0.03 0.02
Matches are distributed among these distances:
286 187 0.42
287 135 0.30
288 1 0.00
289 39 0.09
293 46 0.10
294 38 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (287 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
GGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG
CGACATTGGACTTAATGGTGAAGGTGC
Found at i:69519 original size:33 final size:33
Alignment explanation
Indices: 69475--69546 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
69465 TATTGGGCTT
*
69475 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* *
69508 AGAATGGTTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
69541 A-AAGGG
1 AGAAGGG
69547 AAAAAGAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 4 0.11
33 31 0.89
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:69576 original size:37 final size:36
Alignment explanation
Indices: 69529--69674 Score: 125
Period size: 37 Copynumber: 4.3 Consensus size: 36
69519 CACCAACTTG
* *
69529 TGTGGGCTTTGGAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTGGAAA-AGAAAAAGAGTGCCACGGAGT
* *
69566 TGTGGGCTTT-GAAAAGAAGAAG-GTGTCACGGAGT
1 TGTGGGCTTTGGAAAAGAAAAAGAGTGCCACGGAGT
*
69600 TGTGGACTTT---------AAAGAGTGCCACGGAGT
1 TGTGGGCTTTGGAAAAGAAAAAGAGTGCCACGGAGT
* *
69627 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGGAAA-AGAAAAAGAGTGCCACGGAGT
*
69664 TGTGGACTTTG
1 TGTGGGCTTTG
69675 AGACAAAATG
Statistics
Matches: 87, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
26 3 0.03
27 19 0.22
34 19 0.22
35 6 0.07
36 4 0.05
37 36 0.41
ACGTcount: A:0.29, C:0.12, G:0.36, T:0.23
Consensus pattern (36 bp):
TGTGGGCTTTGGAAAAGAAAAAGAGTGCCACGGAGT
Found at i:70733 original size:17 final size:15
Alignment explanation
Indices: 70711--70745 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
70701 CTTATCGAGA
70711 TTTTCTGTTTTGTTTTT
1 TTTTCT-TTTT-TTTTT
70728 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
70743 TTT
1 TTT
70746 GTGTTTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 4 0.22
17 6 0.33
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:78008 original size:52 final size:52
Alignment explanation
Indices: 77938--78058 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
77928 GAAAATTTAT
*
77938 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
77990 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
78042 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
78059 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:78071 original size:52 final size:51
Alignment explanation
Indices: 77938--78078 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
77928 GAAAATTTAT
77938 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
77990 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
78042 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
78079 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:78085 original size:13 final size:13
Alignment explanation
Indices: 78067--78091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78057 CAAAGATCAG
78067 TGTATCGATACAA
1 TGTATCGATACAA
78080 TGTATCGATACA
1 TGTATCGATACA
78092 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:78169 original size:33 final size:33
Alignment explanation
Indices: 78132--78198 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
78122 AGTAGCTTAA
78132 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
78165 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
78198 A
1 A
78199 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:78172 original size:13 final size:13
Alignment explanation
Indices: 78154--78178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78144 CAAAAAAATA
78154 TGTATCGATACAT
1 TGTATCGATACAT
78167 TGTATCGATACA
1 TGTATCGATACA
78179 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:79093 original size:56 final size:52
Alignment explanation
Indices: 79009--79541 Score: 494
Period size: 49 Copynumber: 10.9 Consensus size: 52
78999 GAAAAGTGAT
* * * * * *
79009 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-A
* * * *
79064 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
79117 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
79160 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
79210 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
79258 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG-TTG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
79307 --AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--A-ATGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
79354 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
79403 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
79446 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
79495 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
79542 GTGCCAATGT
Statistics
Matches: 422, Mismatches: 33, Indels: 52
0.83 0.07 0.10
Matches are distributed among these distances:
43 78 0.18
44 2 0.00
46 4 0.01
48 88 0.21
49 168 0.40
51 2 0.00
52 33 0.08
53 6 0.01
54 1 0.00
55 4 0.01
56 36 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:79282 original size:49 final size:49
Alignment explanation
Indices: 79073--79574 Score: 675
Period size: 49 Copynumber: 10.6 Consensus size: 49
79063 AAAAGGATGT
*
79073 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
79125 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
79168 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
79216 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
79265 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
79313 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
79362 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
79411 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
79454 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
79503 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
79546 CAATGTGCTGATTCAAGGCCAGATACATT
1 CAATGTGCTGATTCAAGGCCAGCTACATT
79575 ATAACAATGT
Statistics
Matches: 406, Mismatches: 30, Indels: 37
0.86 0.06 0.08
Matches are distributed among these distances:
43 112 0.28
45 2 0.00
47 1 0.00
48 92 0.23
49 168 0.41
52 31 0.08
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:79298 original size:97 final size:92
Alignment explanation
Indices: 79064--79574 Score: 720
Period size: 97 Copynumber: 5.4 Consensus size: 92
79054 AGATGATGAA
* * * *
79064 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AGAGGTGCCAAT
79129 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
79160 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGGTGCCAATATGC
*
79224 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
79251 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG-TTGAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGGTGCCA
* * *
79315 ATGTGCTGATTCAAGGCCAGCGACATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
79348 AATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 -A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGGTGCCA
79413 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
79446 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGGTGCCAATATGC
79511 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
79538 AAAGGTGCCAATGTGCTGATTCAAGGCCAGATACATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
79575 ATAACAATGT
Statistics
Matches: 387, Mismatches: 17, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
91 38 0.10
92 126 0.33
94 1 0.00
95 42 0.11
96 6 0.02
97 135 0.35
98 39 0.10
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:82825 original size:63 final size:65
Alignment explanation
Indices: 82728--82869 Score: 171
Period size: 64 Copynumber: 2.2 Consensus size: 65
82718 TTGTTTGGGC
* * * *
82728 TTTAAAAGGAAAAGGCGTCTTGCTTTTTGAGGACTAAAA-AAAAATGCCACCAAATTGTATGAGC
1 TTTAAAAAGAAAA-GTGTCATGCTCTTTGAGGACTAAAACAAAAATGCCACCAAATTGTATGAGC
82792 T
65 T
* * * * * *
82793 TTTAAAAA-AAAAGTGTCATGCTCTTTGAGGACTAAAACAAGAGTGCCATCAACTTGTGTGAGTT
1 TTTAAAAAGAAAAGTGTCATGCTCTTTGAGGACTAAAACAAAAATGCCACCAAATTGTATGAGCT
82857 TTTAAAAAGAAAA
1 TTTAAAAAGAAAA
82870 TAAAAAAGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 22 0.34
64 32 0.49
65 11 0.17
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (65 bp):
TTTAAAAAGAAAAGTGTCATGCTCTTTGAGGACTAAAACAAAAATGCCACCAAATTGTATGAGCT
Found at i:82919 original size:73 final size:71
Alignment explanation
Indices: 82799--83007 Score: 250
Period size: 69 Copynumber: 2.9 Consensus size: 71
82789 AGCTTTTAAA
* *
82799 AAAAAAGTGTCATGCTCTTTGAGGACTAAAACAA-GAGTGCCATCAACTTGTGTGAGTTTTTAAA
1 AAAAAAGTGTCCTGCTCTTTGAGGACTAAAA-AAGGAGTGCCATCAACTTGTGTGGGTTTTTAAA
82863 AAGAAAAT
65 AA-AAAAT
*
82871 AAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAAGGAGTGCCACCAACTTGTGTGGGCCATTTTT
1 AAAAAA-GTGTCCTGCTCTTTGAGGACTAAAAAAGGAGTGCCATCAACTTGTGTGGG---TTTTT
82936 AAAAAAAAAT
62 AAAAAAAAAT
* * * * *
82946 ----AA-TGTCCTACTATTTGAGGACTAAAAAAGGAGTGCTATCAGCTTGTGTGGGCTTTTAAAA
1 AAAAAAGTGTCCTGCTCTTTGAGGACTAAAAAAGGAGTGCCATCAACTTGTGTGGGTTTTTAAAA
83006 AA
66 AA
83008 GGAAAGCATC
Statistics
Matches: 123, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
66 10 0.08
69 44 0.36
71 2 0.02
72 8 0.07
73 44 0.36
75 5 0.04
76 10 0.08
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (71 bp):
AAAAAAGTGTCCTGCTCTTTGAGGACTAAAAAAGGAGTGCCATCAACTTGTGTGGGTTTTTAAAA
AAAAAT
Done.