Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 67 of 145
Found at i:22959496 original size:19 final size:19
Alignment explanation
Indices: 22959487--22959524 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
22959477 TTTATCTTTG
22959487 TCTTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTTAA
22959506 TCTTTAATTTTAATGTTTA
1 TCTTTAATTTTAAT-TTTA
22959525 TTTTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (19 bp):
TCTTTAATTTTAATTTTAA
Found at i:22959513 original size:13 final size:12
Alignment explanation
Indices: 22959423--22959529 Score: 60
Period size: 12 Copynumber: 8.8 Consensus size: 12
22959413 AAATTTCTAA
22959423 TTAATTTTAAAATT
1 TTAATTTT--AATT
* *
22959437 TTTATTTTTATT
1 TTAATTTTAATT
*
22959449 TT--TTTTAGTT
1 TTAATTTTAATT
* *
22959459 TTAGTTTTAGTT
1 TTAATTTTAATT
* *
22959471 TTCATTTTTATCT
1 TTAATTTTAAT-T
*
22959484 TT-GTCTTTAATT
1 TTAAT-TTTAATT
22959496 TTAATTTTAATCT
1 TTAATTTTAAT-T
22959509 TTAATTTTAATGT
1 TTAATTTTAAT-T
22959522 TT-ATTTTA
1 TTAATTTTA
22959530 TTTATGTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
10 8 0.11
12 36 0.48
13 24 0.32
14 7 0.09
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (12 bp):
TTAATTTTAATT
Found at i:22959517 original size:25 final size:24
Alignment explanation
Indices: 22959437--22959529 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
22959427 TTTTAAAATT
* *
22959437 TTTA-TTTTTATTTT-TTTTAGT-
1 TTTAGTTTTAATTTTATTTTAATC
* *
22959458 TTTAGTTTTAGTTTTCATTTTTATC
1 TTTAGTTTTAATTTT-ATTTTAATC
22959483 TTT-GTCTTTAATTTTAATTTTAATC
1 TTTAGT-TTTAATTTT-ATTTTAATC
*
22959508 TTTAATTTTAATGTTTATTTTA
1 TTTAGTTTTAAT-TTTATTTTA
22959530 TTTATGTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
21 4 0.07
22 8 0.14
24 7 0.12
25 34 0.60
26 4 0.07
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTAGTTTTAATTTTATTTTAATC
Found at i:22971340 original size:17 final size:19
Alignment explanation
Indices: 22971305--22971341 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
22971295 AAGTTAAGTC
*
22971305 TGAGATTCATTAGATCGTA
1 TGAGATTCATTAGAGCGTA
22971324 TGAGATT-A-TAGAGCGTA
1 TGAGATTCATTAGAGCGTA
22971341 T
1 T
22971342 CGGGCCGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (19 bp):
TGAGATTCATTAGAGCGTA
Found at i:22973002 original size:43 final size:43
Alignment explanation
Indices: 22972930--22973057 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
22972920 CTGATAAGTG
* * *
22972930 TTTTCGGGTAAGACCACGTCTGGGCCGATGGCATCGACTTGTA
1 TTTTCGAGTAAGACCACTTCTGGGACGATGGCATCGACTTGTA
* * * *
22972973 TTTTCGTGTAAGACCACTTTTGGGACGATGACATTGACTTGTA
1 TTTTCGAGTAAGACCACTTCTGGGACGATGGCATCGACTTGTA
* *
22973016 TTTTCAAGTAAGACC-CTGTCTGGGAC-AGTGGCATCGATTTGT
1 TTTTCGAGTAAGACCACT-TCTGGGACGA-TGGCATCGACTTGT
22973058 GATTATATGT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
42 3 0.04
43 68 0.96
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTTCGAGTAAGACCACTTCTGGGACGATGGCATCGACTTGTA
Found at i:22982207 original size:17 final size:18
Alignment explanation
Indices: 22982173--22982209 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22982163 ACCTGTGTGG
*
22982173 CATGCTCGTGTGGGCCCA
1 CATGCCCGTGTGGGCCCA
22982191 CATGCCCGTGT-GGCCCA
1 CATGCCCGTGTGGGCCCA
22982208 CA
1 CA
22982210 CACCCAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.14, C:0.38, G:0.30, T:0.19
Consensus pattern (18 bp):
CATGCCCGTGTGGGCCCA
Found at i:22984979 original size:35 final size:35
Alignment explanation
Indices: 22984925--22985039 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 35
22984915 TAGTCGAATA
*
22984925 AGCCCAGCTCTACTTGGATATACCAACGGTATTTG
1 AGCCCAGCTCTAGTTGGATATACCAACGGTATTTG
* * * * * **
22984960 TGCCCAGCGCTAGTCGGATAAACCTACAAATAATTAGTG
1 AGCCCAGCTCTAGTTGGATATACCAAC-GGT-ATT--TG
*
22984999 AGTCCAGCTCTAGTTGGATATACCAACGGTATTTG
1 AGCCCAGCTCTAGTTGGATATACCAACGGTATTTG
*
22985034 CGCCCA
1 AGCCCA
22985040 TTGTTAGTTG
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
35 27 0.47
36 1 0.02
37 6 0.10
38 1 0.02
39 23 0.40
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (35 bp):
AGCCCAGCTCTAGTTGGATATACCAACGGTATTTG
Found at i:22985053 original size:74 final size:74
Alignment explanation
Indices: 22984928--22985071 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
22984918 TCGAATAAGC
* *
22984928 CCAGCTCTACTTGGATATACCAACGGTATTTGTGCCCAGCGCTAGTCGGATAAACCTACAAATAA
1 CCAGCTCTACTTGGATATACCAACGGTATTTGCGCCCAGCGCTAGTCGGATAAACCGACAAATAA
*
22984993 TTAGTGAGT
66 ATAGTGAGT
* ** * * *
22985002 CCAGCTCTAGTTGGATATACCAACGGTATTTGCGCCCATTGTTAGTTGGATAAACCGACGAATAA
1 CCAGCTCTACTTGGATATACCAACGGTATTTGCGCCCAGCGCTAGTCGGATAAACCGACAAATAA
22985067 ATAGT
66 ATAGT
22985072 TATTTATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (74 bp):
CCAGCTCTACTTGGATATACCAACGGTATTTGCGCCCAGCGCTAGTCGGATAAACCGACAAATAA
ATAGTGAGT
Found at i:22988651 original size:19 final size:19
Alignment explanation
Indices: 22988624--22988677 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
22988614 AATCATATAT
22988624 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22988643 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22988662 TCTAAGATTTCATATC
1 TCTAAGATTGCATATC
22988678 CTCAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22995875 original size:1 final size:1
Alignment explanation
Indices: 22995869--22995902 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
22995859 NNNNNNNNNN
22995869 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22995903 GAGATAAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22996442 original size:17 final size:17
Alignment explanation
Indices: 22996420--22996463 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22996410 ATTATCTTAG
22996420 AAAATTTTAATATTTAT
1 AAAATTTTAATATTTAT
* *
22996437 AAAATTTGAAATTTTTAT
1 AAAATTT-TAATATTTAT
22996455 AAATATTTT
1 AAA-ATTTT
22996464 GAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
AAAATTTTAATATTTAT
Found at i:22997055 original size:16 final size:17
Alignment explanation
Indices: 22997023--22997060 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
22997013 CCTAAAATAT
22997023 TATTTAATAATTAAAAA
1 TATTTAATAATTAAAAA
*
22997040 TATTTAATTA-TAAAAA
1 TATTTAATAATTAAAAA
22997056 T-TTTA
1 TATTTA
22997061 CTACTTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTAATAATTAAAAA
Found at i:22997584 original size:158 final size:153
Alignment explanation
Indices: 22997310--22997592 Score: 451
Period size: 158 Copynumber: 1.8 Consensus size: 153
22997300 ATTTCAGCCT
** * *
22997310 TTTGTTCGTATTTTTTTCCCGATTTTATTACTTTTAAAAAATATATTATTTTTTAGTTTTATTAT
1 TTTGTTCGTATTTTTTTCCCGATTTTATTACTTAAAAAAAATATACTATTTTCTAGTTTTATTAT
22997375 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTTATTGAAATTT
66 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG--TTTTTATTGAAATTT
22997440 TAAAAAAAAACCCTTATTTCGTCCC
129 TAAAAAAAAACCCTTATTTCGTCCC
22997465 TTTGTTCGTATTTTTTTCCTCAGATTTTATTACTTAAAAAAAAATATACTATTTTCTAGTTTTAT
1 TTTGTTCGTATTTTTTTCC-C-GATTTTATTACTT-AAAAAAAATATACTATTTTCTAGTTTTAT
* *
22997530 TATTTTGCATTATTTTAGTACATTATGTTTG-AATGTATTCTTTTAGTGTGGTTTTTATTGAAA
63 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGT-GTTTTTATTGAAA
22997593 GTAATAAAAT
Statistics
Matches: 118, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
155 19 0.16
156 13 0.11
157 30 0.25
158 56 0.47
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.54
Consensus pattern (153 bp):
TTTGTTCGTATTTTTTTCCCGATTTTATTACTTAAAAAAAATATACTATTTTCTAGTTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTATTGAAATTTTA
AAAAAAAACCCTTATTTCGTCCC
Found at i:22998167 original size:154 final size:153
Alignment explanation
Indices: 22997581--22998400 Score: 1167
Period size: 155 Copynumber: 5.3 Consensus size: 153
22997571 TTTAGTGTGG
* * **
22997581 TTTTTATTGAAAGTAATAAAATCC-GGTAAAAAATACGAATAAAGGGCCGAAATAAGGGGTTTTT
1 TTTTT-TT-AAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
* *
22997645 TT-AATTT-ATTTAAAAACACACTAAATGAATACATTTCAAACATAGTGTACTAAAATAATGTAA
64 TTAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
* *
22997708 AATAATAAAATTAAAAAATAGTAT-
129 AATAATAAAACTAGAAAATAGTATA
*
22997732 GTTTTTTAAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTT
1 TTTTTTTAAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTTT
* ** * *
22997797 TAAATTTATTTAAAAAACACGGTAAATTAATACATTTCAAACACAATGTACTAAAATAATGTAAA
65 TAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
22997862 ATAATAAAATTAGAAAATAGTATA
130 ATAATAAAACTAGAAAATAGTATA
* *
22997886 TTTTTTTAAAAGTAAT-AAATCCAAGGAAAAAAATATGAACAAAGGGCCGAAATAAGAGTTTTTT
1 TTTTTTT-AAAGTAATAAAATCC-AGGGAAAAAATACGAACAAAGGGCCGAAATAAG-GTTTTTT
* * *
22997950 TTTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
63 TTTAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
*
22998015 AAATAATAAAA-TACGAAAATAATATA
128 AAATAATAAAACTA-GAAAATAGTATA
*
22998041 TTTTTATTGAAAGTAATAAAATCC-GGGAAAAAATACGAACAAATGGCCGAAATAAGGTTTTTTT
1 TTTTT-TT-AAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
* *
22998105 TTAATTTTAATAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
64 TTAAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
22998170 AATAATAAAACTAGAAAATAGTATA
129 AATAATAAAACTAGAAAATAGTATA
* * *
22998195 -TTTTTTAAAGTAATAAAATCCGGGGAAATAAATACAAACAAATGGCCGAAATAAGAG-TTTTTT
1 TTTTTTTAAAGTAATAAAATCCAGGGAAA-AAATACGAACAAAGGGCCGAAATAAG-GTTTTTTT
*
22998258 TT-AATTTCAA-TAAAAAACATACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
64 TTAAATTT-AATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
*
22998321 AAAAAATAAAACTAGAAAATAGTATA
128 AAATAATAAAACTAGAAAATAGTATA
* *
22998347 TTTTTTTAAAGTAATAAAATCCAGGGAAAAAAATATGAACAAAGGGCTGAAATA
1 TTTTTTTAAAGTAATAAAATCCAGGG-AAAAAATACGAACAAAGGGCCGAAATA
22998401 CGAACATGTT
Statistics
Matches: 612, Mismatches: 39, Indels: 34
0.89 0.06 0.05
Matches are distributed among these distances:
149 15 0.02
150 31 0.05
151 28 0.05
152 93 0.15
153 155 0.25
154 108 0.18
155 166 0.27
156 10 0.02
157 6 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (153 bp):
TTTTTTTAAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTT
AAATTTAATTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAACTAGAAAATAGTATA
Found at i:23003750 original size:20 final size:21
Alignment explanation
Indices: 23003725--23003765 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
23003715 TTGTTTAATG
*
23003725 TCTTAATGTCA-AATTTTGAA
1 TCTTAACGTCAGAATTTTGAA
23003745 TCTTAACGTCAGAATTTTGAA
1 TCTTAACGTCAGAATTTTGAA
23003766 AAGATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
TCTTAACGTCAGAATTTTGAA
Found at i:23006468 original size:87 final size:87
Alignment explanation
Indices: 23006363--23006873 Score: 869
Period size: 87 Copynumber: 5.9 Consensus size: 87
23006353 ACTTGTAATC
* * * **
23006363 TTCGATCTGCTTCACTGTTGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* *
23006428 CTGATGGAGGCAAGGCCTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* **
23006450 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAACATCTGCTATCTTTAACCAGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
23006515 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
23006537 TTCGATCTGTTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
23006602 CCGATGGAGGCAAGACTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
23006624 TTCGATCTGCTTCACTGTTAACGCATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
23006689 CCGATGGAGGCAAGACTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
23006711 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
23006776 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
23006798 TTCGATCTGTTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
23006863 CCGATGGAGGC
66 CCGATGGAGGC
23006874 TCTGCTTCGC
Statistics
Matches: 405, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 405 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:23006483 original size:43 final size:43
Alignment explanation
Indices: 23006435--23006571 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
23006425 TAACTGATGG
*
23006435 AGGCAAGGCCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
** * * * *
23006478 AGGCAA--CATCTGCTATCTTTAACCAGCTCCACTG-TAAC-CGATGG-
1 AGGCAAGGCAT-TG-T-T-TTCGATCTGCTTCGCTGTTAACGC-A-GGA
* *
23006522 AGGCAAGGCTTTGTTTTCGATCTGTTTCGCTGTTAACGCAGGA
1 AGGCAAGGCATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
23006565 AGGCAAG
1 AGGCAAG
23006572 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
41 2 0.03
42 14 0.21
43 21 0.31
44 14 0.21
45 15 0.22
46 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
Found at i:23006656 original size:174 final size:174
Alignment explanation
Indices: 23006363--23006961 Score: 906
Period size: 174 Copynumber: 3.5 Consensus size: 174
23006353 ACTTGTAATC
* * * **
23006363 TTCGATCTGCTTCACTGTTGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* * *
23006428 CTGATGGAGGCAAGGCCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAACATCTGCTA
66 CCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTA
*
23006493 TCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTT
131 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
*
23006537 TTCGATCTGTTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* * *
23006602 CCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTCACTGTTAACGCATGAAGGCAAGATCTGCTA
66 CCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTA
* *
23006667 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTGTT
131 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
23006711 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
23006776 CCGATGGAGGCAAGGCTTTGTTTTCGATCTGTTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTA
66 CCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTA
23006841 TCTTTAACCAGCTCCACTGCAACCGAT---GG--A-G----G--
131 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
* * *
23006873 --C--TCTGCTTCGCTGTTAACGCAGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
23006934 CAGATGGAGGCAAGGCTTTGTTTTCGAT
66 CCGATGGAGGCAAGGCTTTGTTTTCGAT
23006962 TCTCATTGAT
Statistics
Matches: 399, Mismatches: 26, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
158 84 0.21
160 1 0.00
164 1 0.00
169 1 0.00
171 2 0.01
174 310 0.78
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (174 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTA
TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
Found at i:23006827 original size:261 final size:249
Alignment explanation
Indices: 23006363--23006961 Score: 918
Period size: 261 Copynumber: 2.4 Consensus size: 249
23006353 ACTTGTAATC
* * *
23006363 TTCGATCTGCTTCACTGTTGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* *
23006428 CTGATGGAGGCAAGGCCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAACATCTGCTA
66 CAGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAACATCTGCTA
**
23006493 TCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGTTTCGCTGTTAA
131 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGTTTCGCTGTTAA
23006558 CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTG
196 CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT---GG--AG-----G
* *
23006622 TTTTCGATCTGCTTCACTGTTAACGCATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTAC
1 --TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGC
* * *
23006687 AACCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC
64 AACAGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAACATCTGC
23006752 TATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGTTTCGCTGTT
129 TATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGTTTCGCTGTT
*
23006817 AACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
194 AACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGG
* * *
23006873 --C--TCTGCTTCGCTGTTAACGCAGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTGCAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
23006934 CAGATGGAGGCAAGGCTTTGTTTTCGAT
66 CAGATGGAGGCAAGGCTTTGTTTTCGAT
23006962 TCTCATTGAT
Statistics
Matches: 319, Mismatches: 19, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
245 81 0.25
247 1 0.00
251 1 0.00
256 2 0.01
258 2 0.01
261 232 0.73
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (249 bp):
TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CAGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAACATCTGCTA
TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGTTTCGCTGTTAA
CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGG
Found at i:23006927 original size:71 final size:71
Alignment explanation
Indices: 23006803--23006944 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
23006793 TTGTTTTCGA
* * *
23006803 TCTGTTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
23006868 GGAGGC
66 GGAGGC
*
23006874 TCTGCTTCGCTGTTAACGCAGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
23006939 GGAGGC
66 GGAGGC
23006945 AAGGCTTTGT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (71 bp):
TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
GGAGGC
Found at i:23008190 original size:14 final size:14
Alignment explanation
Indices: 23008171--23008211 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
23008161 TTAGCCTCTC
23008171 CATTTTT-ACTCTTT
1 CATTTTTCA-TCTTT
*
23008185 CATTTTTCATTTTT
1 CATTTTTCATCTTT
23008199 CATTTTTCATCTT
1 CATTTTTCATCTT
23008212 CTCTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 23 0.96
15 1 0.04
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (14 bp):
CATTTTTCATCTTT
Found at i:23008204 original size:6 final size:7
Alignment explanation
Indices: 23008182--23008208 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23008172 ATTTTTACTC
23008182 TTTCATT
1 TTTCATT
23008189 TTTCATT
1 TTTCATT
23008196 TTTCATT
1 TTTCATT
23008203 TTTCAT
1 TTTCAT
23008209 CTTCTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTCATT
Found at i:23008680 original size:33 final size:33
Alignment explanation
Indices: 23008613--23008710 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 33
23008603 TCATATTTTA
** *
23008613 TTTTGACTTTGATTGATTTC--TC-TTTTTTGC
1 TTTTGACTTTGATTTTTTTCTTTCTTTTTTTGT
23008643 TTTTGACTTTGA-TTTTTTCTTTTCTTTTTTTGT
1 TTTTGACTTTGATTTTTTTC-TTTCTTTTTTTGT
* *
23008676 TTTTGATTTTGATTTTTTTCTCTCTTTTTTT-T
1 TTTTGACTTTGATTTTTTTCTTTCTTTTTTTGT
23008708 TTT
1 TTT
23008711 GAATCTGAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
29 5 0.09
30 12 0.21
32 6 0.10
33 28 0.48
34 7 0.12
ACGTcount: A:0.07, C:0.10, G:0.09, T:0.73
Consensus pattern (33 bp):
TTTTGACTTTGATTTTTTTCTTTCTTTTTTTGT
Found at i:23011976 original size:265 final size:265
Alignment explanation
Indices: 23011503--23012035 Score: 994
Period size: 265 Copynumber: 2.0 Consensus size: 265
23011493 GTTTGTCCTT
*
23011503 CTTGCAGGTGCGACATACAGAGGGTGGACGTGGCACGTACGGAGACGCGTGAGAGGGCAAGGGCT
1 CTTGCAGGTGCGACATACAGAAGGTGGACGTGGCACGTACGGAGACGCGTGAGAGGGCAAGGGCT
* *
23011568 CAGAGCGTACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGGACGAGG
66 CAGAGCGTACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGAAAGAGG
23011633 CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
131 CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
23011698 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAAATGGACTATT
196 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAAATGGACTATT
23011763 TTAGA
261 TTAGA
* *
23011768 CTTGCAGGTGCGACATACGGAAGGTGGACGTGGCACGTACGGAGGCGCGTGAGAGGGCAAGGGCT
1 CTTGCAGGTGCGACATACAGAAGGTGGACGTGGCACGTACGGAGACGCGTGAGAGGGCAAGGGCT
23011833 CAGAGCGTACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGAAAGAGG
66 CAGAGCGTACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGAAAGAGG
* *
23011898 CCCTGGGTTCGACGGCGTTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGTTGCGTTG
131 CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
*
23011963 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTGGAGGGTTAGGTCTTTGTAAATGGACTATT
196 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAAATGGACTATT
23012028 TTAGA
261 TTAGA
23012033 CTT
1 CTT
23012036 TGGTTTTTAT
Statistics
Matches: 260, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
265 260 1.00
ACGTcount: A:0.20, C:0.18, G:0.39, T:0.22
Consensus pattern (265 bp):
CTTGCAGGTGCGACATACAGAAGGTGGACGTGGCACGTACGGAGACGCGTGAGAGGGCAAGGGCT
CAGAGCGTACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGAAAGAGG
CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAAATGGACTATT
TTAGA
Found at i:23016236 original size:49 final size:50
Alignment explanation
Indices: 23016034--23016277 Score: 364
Period size: 50 Copynumber: 4.9 Consensus size: 50
23016024 TCTGATAATA
** *
23016034 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATATTCTCATATC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTC
* * ***
23016085 GGTGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
* * *
23016135 GGTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATTTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
*
23016185 GGTGCCAATGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
23016234 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23016278 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
49 45 0.26
50 92 0.54
51 34 0.20
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
Found at i:23016246 original size:99 final size:100
Alignment explanation
Indices: 23016034--23016278 Score: 393
Period size: 99 Copynumber: 2.5 Consensus size: 100
23016024 TCTGATAATA
** * *
23016034 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATATTCTCATATCGGTGCCCATGCCAT
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTTATATCGGTGCCAATGCCAT
**
23016099 GTCCCAGACATGGTCTTATGGGGGACCTCTCATCTC
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCATCTC
* *
23016135 GGTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATTTCGGTGCCAATGCCATG
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCCATG
*
23016200 T-CCAGACATGGTCTTACATGGGACCTCTCATCTC
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTC
23016234 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
23016279 TACCCAAATG
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
99 74 0.55
100 22 0.16
101 38 0.28
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (100 bp):
GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCATCTC
Found at i:23022106 original size:50 final size:50
Alignment explanation
Indices: 23021986--23022178 Score: 242
Period size: 50 Copynumber: 3.8 Consensus size: 50
23021976 GATAATAACA
* ** * *
23021986 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATGTTCTAATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
23022037 TACCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
23022087 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
23022137 TGCCAATGTCATATCCCAGACATGGTCTTACATGAGACCTCT
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCT
23022179 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 92 0.75
51 31 0.25
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:23026860 original size:21 final size:21
Alignment explanation
Indices: 23026822--23026861 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23026812 GTCAAGCCAT
* **
23026822 TTTAGGGTTTTAGTTTAGTAG
1 TTTAGGATTTTAACTTAGTAG
23026843 TTTAGGATTTTAACTTAGT
1 TTTAGGATTTTAACTTAGT
23026862 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.53
Consensus pattern (21 bp):
TTTAGGATTTTAACTTAGTAG
Found at i:23026906 original size:28 final size:29
Alignment explanation
Indices: 23026857--23026913 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
23026847 GGATTTTAAC
23026857 TTAGTTTTATTTTATTTTAAAATATTTTT
1 TTAGTTTTATTTTATTTTAAAATATTTTT
23026886 TTAGTTTTA-TTTATTTTAAAATATTTTT
1 TTAGTTTTATTTTATTTTAAAATATTTTT
23026914 ATTTCTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (29 bp):
TTAGTTTTATTTTATTTTAAAATATTTTT
Found at i:23033667 original size:19 final size:19
Alignment explanation
Indices: 23033643--23033682 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23033633 TGACCGTCAA
*
23033643 TGTAGATATATTTTAATCT
1 TGTAGATAGATTTTAATCT
*
23033662 TGTAGATAGGTTTTAATCT
1 TGTAGATAGATTTTAATCT
23033681 TG
1 TG
23033683 ACCGTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (19 bp):
TGTAGATAGATTTTAATCT
Found at i:23037443 original size:15 final size:15
Alignment explanation
Indices: 23037423--23037453 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23037413 GTTTTAGTTA
23037423 ATTTTTAATTAATGT
1 ATTTTTAATTAATGT
*
23037438 ATTTTTAATTATTGT
1 ATTTTTAATTAATGT
23037453 A
1 A
23037454 ATTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTAATGT
Found at i:23037815 original size:18 final size:17
Alignment explanation
Indices: 23037787--23037820 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23037777 TAAATTTAAA
23037787 TAAATTGTAATTATTTT
1 TAAATTGTAATTATTTT
23037804 TAAATGTGTAATTATTT
1 TAAAT-TGTAATTATTT
23037821 AAACTTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TAAATTGTAATTATTTT
Found at i:23037823 original size:16 final size:16
Alignment explanation
Indices: 23037787--23037820 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
23037777 TAAATTTAAA
23037787 TAAATTGTAATTATTTT
1 TAAATTGTAATTA-TTT
23037804 TAAATGTGTAATTATTT
1 TAAAT-TGTAATTATTT
23037821 AAACTTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAAATTGTAATTATTT
Found at i:23037873 original size:44 final size:44
Alignment explanation
Indices: 23037776--23037873 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
23037766 NNTTTAAGTA
* *
23037776 ATAAATT-TAAATAAATTGTAATTATTTTTAAATGTGTAATTATT
1 ATAAATTCT-AATAAATTGTAATGATTTTTAAATGTATAATTATT
**
23037820 -TAAACTTCTAATAAATTGTAATGATTTTTAAATGTATGGTT-TT
1 ATAAA-TTCTAATAAATTGTAATGATTTTTAAATGTATAATTATT
23037863 CATAAATTCTA
1 -ATAAATTCTA
23037874 TTTTACGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
43 6 0.13
44 35 0.76
45 5 0.11
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (44 bp):
ATAAATTCTAATAAATTGTAATGATTTTTAAATGTATAATTATT
Found at i:23044292 original size:63 final size:63
Alignment explanation
Indices: 23044216--23044340 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
23044206 AGATAGAGAT
* *
23044216 ATGGATGTAACTTACTAGACTGATATTAGATCAAACTAGACCCAAGAAGAATAGATCCTGAAC
1 ATGGATGTAACTTACTAGACTGATAGTAGATCAAACTAGACCCAAGAAAAATAGATCCTGAAC
* * *** * *
23044279 ATGGATGTGACTTACTGGACTGATAGTAGATTGGACTAGGCCCAAGAAAAATAGATGCTGAA
1 ATGGATGTAACTTACTAGACTGATAGTAGATCAAACTAGACCCAAGAAAAATAGATCCTGAA
23044341 AATCCGTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (63 bp):
ATGGATGTAACTTACTAGACTGATAGTAGATCAAACTAGACCCAAGAAAAATAGATCCTGAAC
Found at i:23048401 original size:13 final size:13
Alignment explanation
Indices: 23048385--23048414 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23048375 TTTTTACCTT
*
23048385 TTAATTTTCTTAG
1 TTAATTTACTTAG
23048398 TTAATTTACTTAG
1 TTAATTTACTTAG
23048411 TTAA
1 TTAA
23048415 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:23058715 original size:18 final size:20
Alignment explanation
Indices: 23058692--23058731 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
23058682 GAGGTGGCAA
23058692 TTTTTCT-AT-CACTTCAAT
1 TTTTTCTAATCCACTTCAAT
23058710 TTTTTCTCAATCCACTTCAAT
1 TTTTTCT-AATCCACTTCAAT
23058731 T
1 T
23058732 CCTCTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
20 2 0.11
21 10 0.53
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTCTAATCCACTTCAAT
Found at i:23063901 original size:54 final size:54
Alignment explanation
Indices: 23063843--23063988 Score: 157
Period size: 54 Copynumber: 2.7 Consensus size: 54
23063833 TGTGTCTTAA
* * * * *
23063843 ACCGTGTAACTCACTGAGTTGGGTCACATGACCGTGTCGCAGGTCGTGTGCCAG
1 ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTCACAGGCCGTGTGCCAG
* * * *
23063897 ACCGTATAACTCTCTGACTTGTGACACACGACCGTGTCACAGGCCGTGTGCTAG
1 ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTCACAGGCCGTGTGCCAG
** * ** *
23063951 GTCGTGTAACTCACTAACTTGATACACACGACTGTGTC
1 ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTC
23063989 TTAAGCCGTG
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (54 bp):
ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTCACAGGCCGTGTGCCAG
Found at i:23066993 original size:9 final size:8
Alignment explanation
Indices: 23066976--23067000 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23066966 CCAAGTAGGA
23066976 TTATTTTT
1 TTATTTTT
23066984 TTATTTTT
1 TTATTTTT
23066992 TTATTTTT
1 TTATTTTT
23067000 T
1 T
23067001 GAATTCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:23073366 original size:19 final size:20
Alignment explanation
Indices: 23073342--23073380 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
23073332 GTGTGTTCAA
23073342 ATTTTTAATTT-TTT-TTACT
1 ATTTTT-ATTTATTTATTACT
23073361 ATTTTTATTTATTTATTACT
1 ATTTTTATTTATTTATTACT
23073381 TAATCGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTATTTATTTATTACT
Found at i:23077207 original size:15 final size:16
Alignment explanation
Indices: 23077187--23077216 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23077177 TTGTTTGGTT
23077187 CACCG-TTTGCTATTC
1 CACCGTTTTGCTATTC
23077202 CACCGTTTTGCTATT
1 CACCGTTTTGCTATT
23077217 ACTTGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.30, G:0.13, T:0.43
Consensus pattern (16 bp):
CACCGTTTTGCTATTC
Found at i:23079120 original size:25 final size:25
Alignment explanation
Indices: 23079092--23079169 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
23079082 TGAAGCAGCT
*
23079092 TTGAAGCAACTTGCTGCTATTGAAA
1 TTGAAGCAGCTTGCTGCTATTGAAA
* * * *
23079117 TTGAAGCAGTTTGCTGCTAATGCCAT
1 TTGAAGCAGCTTGCTGCTATTG-AAA
23079143 TTGAAGCAGCTTGCTGCTATTGAAA
1 TTGAAGCAGCTTGCTGCTATTGAAA
23079168 TT
1 TT
23079170 AAAGGACAAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
25 22 0.51
26 21 0.49
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (25 bp):
TTGAAGCAGCTTGCTGCTATTGAAA
Found at i:23079151 original size:26 final size:25
Alignment explanation
Indices: 23079091--23079166 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 25
23079081 TTGAAGCAGC
* *
23079091 TTTGAAGCAACTTGCTGCTATTGAA
1 TTTGAAGCAGCTTGCTGCTAATGAA
* * *
23079116 ATTGAAGCAGTTTGCTGCTAATGCCA
1 TTTGAAGCAGCTTGCTGCTAATG-AA
*
23079142 TTTGAAGCAGCTTGCTGCTATTGAA
1 TTTGAAGCAGCTTGCTGCTAATGAA
23079167 ATTAAAGGAC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 20 0.49
26 21 0.51
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (25 bp):
TTTGAAGCAGCTTGCTGCTAATGAA
Found at i:23079610 original size:25 final size:25
Alignment explanation
Indices: 23079572--23079649 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
23079562 AATAAATTAT
*
23079572 TTGAAGCAACTTGCTGCTATTGAAA
1 TTGAAGCAGCTTGCTGCTATTGAAA
* * * *
23079597 TTGAAGCAGTTTGCTGCTAATGTCAT
1 TTGAAGCAGCTTGCTGCTATTG-AAA
23079623 TTGAAGCAGCTTGCTGCTATTGAAA
1 TTGAAGCAGCTTGCTGCTATTGAAA
23079648 TT
1 TT
23079650 AAAGGACAAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
25 22 0.51
26 21 0.49
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (25 bp):
TTGAAGCAGCTTGCTGCTATTGAAA
Found at i:23079992 original size:480 final size:480
Alignment explanation
Indices: 23079091--23079993 Score: 1745
Period size: 480 Copynumber: 1.9 Consensus size: 480
23079081 TTGAAGCAGC
23079091 TTTGAAGCAACTTGCTGCTATTGAAATTGAAGCAGTTTGCTGCTAATGCCATTTGAAGCAGCTTG
1 TTTGAAGCAACTTGCTGCTATTGAAATTGAAGCAGTTTGCTGCTAATGCCATTTGAAGCAGCTTG
23079156 CTGCTATTGAAATTAAAGGACAACAAACGTGAATGATGGAGTTTCCAACAGTTGAAATGGGAAAA
66 CTGCTATTGAAATTAAAGGACAACAAACGTGAATGATGGAGTTTCCAACAGTTGAAATGGGAAAA
*
23079221 AGAAAAGTTGAATTGTTTTGATCAACAAGCATCATGGATGACATATGAAATATTTTTTATTATTA
131 AGAAAAGTTGAATTGTTTTGATCAACAAGAATCATGGATGACATATGAAATATTTTTTATTATTA
23079286 ATTTTGAATGGAACACAGAGGGTGCCTTCTCTGAGCTCTAACAGCATGCTCATAATATTTATTTA
196 ATTTTGAATGGAACACAGAGGGTGCCTTCTCTGAGCTCTAACAGCATGCTCATAATATTTATTTA
*
23079351 TGTTTATTTGACCCTGTTGGTTTGGATTATCATTTTGTGAAGAAATTCAATGGTAATGTTGTAAC
261 TGTTTATTTGACCCTGTTGGTTTGGATCATCATTTTGTGAAGAAATTCAATGGTAATGTTGTAAC
23079416 TTTTTTATGTTGTAAAATTTTATAACATATGGATTATGACATATAAATTAATGAAATCATGTAAC
326 TTTTTTATGTTGTAAAATTTTATAACATATGGATTATGACATATAAATTAATGAAATCATGTAAC
23079481 CTTTTGTTAATATTTGAATATTATATTTATGCAAAATATAATTCTCAAGTTATTTATTACTTCTA
391 CTTTTGTTAATATTTGAATATTATATTTATGCAAAATATAATTCTCAAGTTATTTATTACTTCTA
23079546 ATATTTTTTTAGAATAAATAAATTA
456 ATATTTTTTTAGAATAAATAAATTA
*
23079571 TTTGAAGCAACTTGCTGCTATTGAAATTGAAGCAGTTTGCTGCTAATGTCATTTGAAGCAGCTTG
1 TTTGAAGCAACTTGCTGCTATTGAAATTGAAGCAGTTTGCTGCTAATGCCATTTGAAGCAGCTTG
23079636 CTGCTATTGAAATTAAAGGACAACAAACGTGAATGATGGAGTTTCCAACAGTTGAAATGGGAAAA
66 CTGCTATTGAAATTAAAGGACAACAAACGTGAATGATGGAGTTTCCAACAGTTGAAATGGGAAAA
23079701 AGAAAAGTTGAATTGTTTTGATCAACAAGAATCATGGATGACATATGAAATATTTTTTATTATTA
131 AGAAAAGTTGAATTGTTTTGATCAACAAGAATCATGGATGACATATGAAATATTTTTTATTATTA
* *
23079766 ATTTTGAATGGAACACAGAGGGTGCCTTCTCTGAGCTCTAACAGCCATGCTTAT-GTATTTATTT
196 ATTTTGAATGGAACACAGAGGGTGCCTTCTCTGAGCTCTAACAG-CATGCTCATAATATTTATTT
23079830 ATGTTTATTTGACCCTGTTGGTTTGGATCATCATTTTGTGAAGAAATTCAATGGTAATGTTGTAA
260 ATGTTTATTTGACCCTGTTGGTTTGGATCATCATTTTGTGAAGAAATTCAATGGTAATGTTGTAA
23079895 CTTTTTTATGTTGTAAAATTTTATAACATATGGATTATGACATATAAATTAATGAAATCATGTAA
325 CTTTTTTATGTTGTAAAATTTTATAACATATGGATTATGACATATAAATTAATGAAATCATGTAA
23079960 CCTTTTGTTAATATTTGAATATTATATTTATGCA
390 CCTTTTGTTAATATTTGAATATTATATTTATGCA
23079994 TTAAATTATA
Statistics
Matches: 417, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
480 409 0.98
481 8 0.02
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (480 bp):
TTTGAAGCAACTTGCTGCTATTGAAATTGAAGCAGTTTGCTGCTAATGCCATTTGAAGCAGCTTG
CTGCTATTGAAATTAAAGGACAACAAACGTGAATGATGGAGTTTCCAACAGTTGAAATGGGAAAA
AGAAAAGTTGAATTGTTTTGATCAACAAGAATCATGGATGACATATGAAATATTTTTTATTATTA
ATTTTGAATGGAACACAGAGGGTGCCTTCTCTGAGCTCTAACAGCATGCTCATAATATTTATTTA
TGTTTATTTGACCCTGTTGGTTTGGATCATCATTTTGTGAAGAAATTCAATGGTAATGTTGTAAC
TTTTTTATGTTGTAAAATTTTATAACATATGGATTATGACATATAAATTAATGAAATCATGTAAC
CTTTTGTTAATATTTGAATATTATATTTATGCAAAATATAATTCTCAAGTTATTTATTACTTCTA
ATATTTTTTTAGAATAAATAAATTA
Found at i:23093326 original size:23 final size:23
Alignment explanation
Indices: 23093298--23093343 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23093288 GAGGTGTCTG
*
23093298 ATACGACATATAAAATGCCTGAT
1 ATACGACACATAAAATGCCTGAT
*
23093321 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAATGCCTGAT
23093344 CAGCAAGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (23 bp):
ATACGACACATAAAATGCCTGAT
Found at i:23094180 original size:11 final size:9
Alignment explanation
Indices: 23094173--23094223 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
23094163 GCTTTTGCTG
23094173 TTCTTTTGT
1 TTCTTTTGT
23094182 TTCTTTT-T
1 TTCTTTTGT
23094190 CTTCTTTT-T
1 -TTCTTTTGT
*
23094199 TTCTTTTAT
1 TTCTTTTGT
*
23094208 TTCTTTAGT
1 TTCTTTTGT
23094217 TTCTTTT
1 TTCTTTT
23094224 ATTTACTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 8 0.22
9 29 0.78
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (9 bp):
TTCTTTTGT
Found at i:23094187 original size:9 final size:8
Alignment explanation
Indices: 23094173--23094237 Score: 58
Period size: 9 Copynumber: 7.2 Consensus size: 8
23094163 GCTTTTGCTG
23094173 TTCTTTTGT
1 TTCTTTT-T
23094182 TTCTTTTT
1 TTCTTTTT
23094190 CTTCTTTTT
1 -TTCTTTTT
23094199 TTCTTTTAT
1 TTCTTTT-T
*
23094208 TTCTTTAGT
1 TTCTTT-TT
23094217 TTCTTTTAT
1 TTCTTTT-T
23094226 TTACTTTATT
1 TT-CTTT-TT
23094236 TT
1 TT
23094238 ATTTACTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.17
9 32 0.67
10 7 0.15
11 1 0.02
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.77
Consensus pattern (8 bp):
TTCTTTTT
Found at i:23094220 original size:26 final size:27
Alignment explanation
Indices: 23094173--23094236 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
23094163 GCTTTTGCTG
* *
23094173 TTCTTTTGTTTCTTTTTCTTCTTTT-T
1 TTCTTTTATTTCTTTGTCTTCTTTTAT
23094199 TTCTTTTATTTCTTTAGT-TTCTTTTAT
1 TTCTTTTATTTCTTT-GTCTTCTTTTAT
23094226 TTAC-TTTATTT
1 TT-CTTTTATTT
23094237 TATTTACTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 21 0.64
27 11 0.33
28 1 0.03
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.77
Consensus pattern (27 bp):
TTCTTTTATTTCTTTGTCTTCTTTTAT
Found at i:23094224 original size:18 final size:18
Alignment explanation
Indices: 23094173--23094233 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
23094163 GCTTTTGCTG
*
23094173 TTCTTTTGTTTCTTTT-T
1 TTCTTTAGTTTCTTTTAT
*
23094190 CTTCTTT-TTTTCTTTTAT
1 -TTCTTTAGTTTCTTTTAT
23094208 TTCTTTAGTTTCTTTTAT
1 TTCTTTAGTTTCTTTTAT
23094226 TTACTTTA
1 TT-CTTTA
23094234 TTTTATTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
17 14 0.37
18 19 0.50
19 5 0.13
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.75
Consensus pattern (18 bp):
TTCTTTAGTTTCTTTTAT
Found at i:23094487 original size:24 final size:24
Alignment explanation
Indices: 23094455--23094540 Score: 163
Period size: 24 Copynumber: 3.6 Consensus size: 24
23094445 ATATCATATA
*
23094455 TACCATACACTTGTATTAAATCAT
1 TACCATACATTTGTATTAAATCAT
23094479 TACCATACATTTGTATTAAATCAT
1 TACCATACATTTGTATTAAATCAT
23094503 TACCATACATTTGTATTAAATCAT
1 TACCATACATTTGTATTAAATCAT
23094527 TACCATACATTTGT
1 TACCATACATTTGT
23094541 CTTTATTTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.41
Consensus pattern (24 bp):
TACCATACATTTGTATTAAATCAT
Found at i:23096605 original size:38 final size:37
Alignment explanation
Indices: 23096563--23096635 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
23096553 ATGTGTGGAA
* *
23096563 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
23096601 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
23096636 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:23101133 original size:13 final size:13
Alignment explanation
Indices: 23101089--23101134 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
23101079 AAGATTTAAT
23101089 ATTTATTAGTATA
1 ATTTATTAGTATA
*
23101102 ATATATATT--TATC
1 AT-T-TATTAGTATA
23101115 ATTTATTAGTATA
1 ATTTATTAGTATA
23101128 ATTTATT
1 ATTTATT
23101135 TGAACTACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.15
12 1 0.04
13 17 0.63
14 1 0.04
15 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:23102479 original size:61 final size:60
Alignment explanation
Indices: 23102382--23102507 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 60
23102372 CTAAATATAA
* * * * * *
23102382 AAAAAATTCAACAAATTTATCCCTTAATGTTAACAAAAATT-TTCATTTTAGTTCTAATTCT
1 AAAAAATTCAACAAATTTAGCCCTCAATATTAAC-AAAATTATT-AATTTAGTCCTAACTCT
* * * *
23102443 AAAAAATTCAATAAATTTGGCCGTCAATATTTACAAAATTATTAATTTAGTCCTAACTCT
1 AAAAAATTCAACAAATTTAGCCCTCAATATTAACAAAATTATTAATTTAGTCCTAACTCT
23102503 AAAAA
1 AAAAA
23102508 TTTAAAAATT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 25 0.46
61 29 0.54
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (60 bp):
AAAAAATTCAACAAATTTAGCCCTCAATATTAACAAAATTATTAATTTAGTCCTAACTCT
Found at i:23110132 original size:66 final size:66
Alignment explanation
Indices: 23110046--23110365 Score: 475
Period size: 66 Copynumber: 4.8 Consensus size: 66
23110036 ACCCGCGCAG
* * *
23110046 CCAAGTGCAAATCCAC-ATGGCCAGCTTGCTCAGCCCAGTGCTAATCCATATGGCCAAAATGGGC
1 CCAAGTGCTAATCC-CTATGGCCAGCCTGCTCAGCCCAGTGCTAACCCATATGGCCAAAATGGGC
23110110 AA
65 AA
* *
23110112 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAATCCATATGGCCAAAATGGGCA
1 CCAAGTGCTAATCCCTATGGCCAGCCTGCTCAGCCCAGTGCTAACCCATATGGCCAAAATGGGCA
23110177 A
66 A
*
23110178 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCAAAATGGGC-
1 CCAAGTGCTAATCCCTATGGCCAGCCTGCTCAGCCCAGTGCTAACCCATATGGCCAAAATGGGCA
23110242 A
66 A
** *
23110243 CTCAAGTGCTAATCCCTATGGCCAGCCTG-TGCAGCCCAGTGCTAACCCATACAGCCAAAACGGG
1 C-CAAGTGCTAATCCCTATGGCCAGCCTGCT-CAGCCCAGTGCTAACCCATATGGCCAAAATGGG
*
23110307 CAG
64 CAA
* * *
23110310 CCAAGTGCTAATCCCTATGGCCTGCCTGCTCAACCCAGTGCAAACCCATATGGCCA
1 CCAAGTGCTAATCCCTATGGCCAGCCTGCTCAGCCCAGTGCTAACCCATATGGCCA
23110366 GTCAAGTGCT
Statistics
Matches: 235, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
65 3 0.01
66 230 0.98
67 2 0.01
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.18
Consensus pattern (66 bp):
CCAAGTGCTAATCCCTATGGCCAGCCTGCTCAGCCCAGTGCTAACCCATATGGCCAAAATGGGCA
A
Found at i:23110350 original size:33 final size:33
Alignment explanation
Indices: 23110040--23110366 Score: 252
Period size: 33 Copynumber: 9.9 Consensus size: 33
23110030 GTACCAACCC
* * *
23110040 GCGCAGCCAAGTGCAAATCCAC-ATGGCCAGCTT
1 GCGCAGCCCAGTGCTAATCC-CTATGGCCAGCCT
* * ***
23110073 GCTCAGCCCAGTGCTAATCCATATGGCCAAAAT
1 GCGCAGCCCAGTGCTAATCCCTATGGCCAGCCT
* * *
23110106 GGGCAACCAAGTGCTAATCCCTATGGCCAGCCT
1 GCGCAGCCCAGTGCTAATCCCTATGGCCAGCCT
* ***
23110139 GCGCAGCCCAGTGCTAATCCATATGGCCAAAAT
1 GCGCAGCCCAGTGCTAATCCCTATGGCCAGCCT
* * *
23110172 GGGCAACCAAGTGCTAATCCCTATGGCCAGCCT
1 GCGCAGCCCAGTGCTAATCCCTATGGCCAGCCT
***
23110205 GCGCAGCCCAGTGCTAA-CCCATATGGCCAAAAT
1 GCGCAGCCCAGTGCTAATCCC-TATGGCCAGCCT
* *
23110238 GGGCA-CTCAAGTGCTAATCCCTATGGCCAGCCT
1 GCGCAGC-CCAGTGCTAATCCCTATGGCCAGCCT
* ** **
23110271 GTGCAGCCCAGTGCTAA-CCCATACAGCCAAAAC-
1 GCGCAGCCCAGTGCTAATCCC-TATGGCC-AGCCT
* * *
23110304 GGGCAGCCAAGTGCTAATCCCTATGGCCTGCCT
1 GCGCAGCCCAGTGCTAATCCCTATGGCCAGCCT
* * *
23110337 GCTCAACCCAGTGC-AAACCCATATGGCCAG
1 GCGCAGCCCAGTGCTAATCCC-TATGGCCAG
23110367 TCAAGTGCTA
Statistics
Matches: 225, Mismatches: 59, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
32 13 0.06
33 203 0.90
34 9 0.04
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.17
Consensus pattern (33 bp):
GCGCAGCCCAGTGCTAATCCCTATGGCCAGCCT
Found at i:23110419 original size:33 final size:33
Alignment explanation
Indices: 23110372--23110545 Score: 150
Period size: 33 Copynumber: 5.3 Consensus size: 33
23110362 GCCAGTCAAG
* * **
23110372 TGCTAATCCCTATGGCCAGCCAACACAACCAAA
1 TGCTAATCCCTATGGTCAACCTGCACAACCAAA
* * *
23110405 TGCTATTCCTTATGGTCAATCTGCACAACCAAA
1 TGCTAATCCCTATGGTCAACCTGCACAACCAAA
*
23110438 TGCTAATCCGTATGGTCAACCTGCACAACCAAA
1 TGCTAATCCCTATGGTCAACCTGCACAACCAAA
* ** * * *** *
23110471 TGCTAATCCATACAGCCAACCTGTACAGGTACA
1 TGCTAATCCCTATGGTCAACCTGCACAACCAAA
* * * * *
23110504 TGCTAATCCATATGGCCAACCTGCTCAGCCGAA
1 TGCTAATCCCTATGGTCAACCTGCACAACCAAA
23110537 TGCTAATCC
1 TGCTAATCC
23110546 ATACAGCCAG
Statistics
Matches: 114, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 114 1.00
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (33 bp):
TGCTAATCCCTATGGTCAACCTGCACAACCAAA
Found at i:23110507 original size:66 final size:65
Alignment explanation
Indices: 23110436--23110680 Score: 303
Period size: 66 Copynumber: 3.7 Consensus size: 65
23110426 TGCACAACCA
* * * * * **
23110436 AATGCTAATCCGTATGGTCAACCTGCACAACCAAATGCTAATCCATACAGCCAACCTGTACAG-G
1 AATGCTAATCCATACGGCCAACCTGCACAGCCAAATGCTAATCCATACAGCCAGCCTACACAGCG
* * *
23110500 TACATGCTAATCCATATGGCCAACCTGCTCAGCCGAATGCTAATCCATACAGCCAGCCTACACAG
1 -A-ATGCTAATCCATACGGCCAACCTGCACAGCCAAATGCTAATCCATACAGCCAGCCTACACAG
23110565 CCG
64 -CG
* * * *
23110568 AATGCTAATCCATACAGCCAGCCTACACAGCCGAATGCTAATCCATACAGCCAGCCTACACAGCC
1 AATGCTAATCCATACGGCCAACCTGCACAGCCAAATGCTAATCCATACAGCCAGCCTACACAG-C
23110633 G
65 G
* *
23110634 AATGCTAATCCATACGGCCAACCTGTACAGCCAAGTGCTAATCCATA
1 AATGCTAATCCATACGGCCAACCTGCACAGCCAAATGCTAATCCATA
23110681 TGCCCAACCC
Statistics
Matches: 158, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.01
66 155 0.98
67 1 0.01
68 1 0.01
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (65 bp):
AATGCTAATCCATACGGCCAACCTGCACAGCCAAATGCTAATCCATACAGCCAGCCTACACAGCG
Found at i:23110544 original size:99 final size:98
Alignment explanation
Indices: 23110403--23110680 Score: 306
Period size: 99 Copynumber: 2.8 Consensus size: 98
23110393 AACACAACCA
* * * * * * * * * *
23110403 AATGCTATTCCTTATGGTCAATCTGCACAACCAAATGCTAATCCGTATGGTCAACCTGCACAACC
1 AATGCTAATCCATATGGCCAACCTGCACAGCCGAATGCTAATCCATACGGCCAACCTGCACAGCC
**
23110468 AAATGCTAATCCATACAGCCAACCTGTACAG-G
66 AAATGCTAATCCATACAGCCAACCTACACAGCG
* * * *
23110500 TACATGCTAATCCATATGGCCAACCTGCTCAGCCGAATGCTAATCCATACAGCCAGCCTACACAG
1 -A-ATGCTAATCCATATGGCCAACCTGCACAGCCGAATGCTAATCCATACGGCCAACCTGCACAG
* *
23110565 CCGAATGCTAATCCATACAGCCAGCCTACACAGCCG
64 CCAAATGCTAATCCATACAGCCAACCTACACAG-CG
** * * *
23110601 AATGCTAATCCATACAGCCAGCCTACACAGCCGAATGCTAATCCATACGGCCAACCTGTACAGCC
1 AATGCTAATCCATATGGCCAACCTGCACAGCCGAATGCTAATCCATACGGCCAACCTGCACAGCC
*
23110666 AAGTGCTAATCCATA
66 AAATGCTAATCCATA
23110681 TGCCCAACCC
Statistics
Matches: 148, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
98 1 0.01
99 145 0.98
100 1 0.01
101 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.20
Consensus pattern (98 bp):
AATGCTAATCCATATGGCCAACCTGCACAGCCGAATGCTAATCCATACGGCCAACCTGCACAGCC
AAATGCTAATCCATACAGCCAACCTACACAGCG
Found at i:23110546 original size:33 final size:33
Alignment explanation
Indices: 23110425--23110689 Score: 275
Period size: 33 Copynumber: 8.0 Consensus size: 33
23110415 TATGGTCAAT
* * * * *
23110425 CTGCACAACCAAATGCTAATCCGTATGGTCAAC
1 CTGCACAGCCGAATGCTAATCCATACGGCCAAC
* * *
23110458 CTGCACAACCAAATGCTAATCCATACAGCCAAC
1 CTGCACAGCCGAATGCTAATCCATACGGCCAAC
* *
23110491 CTGTACAG--GTACATGCTAATCCATATGGCCAAC
1 CTGCACAGCCG-A-ATGCTAATCCATACGGCCAAC
* * *
23110524 CTGCTCAGCCGAATGCTAATCCATACAGCCAGC
1 CTGCACAGCCGAATGCTAATCCATACGGCCAAC
* * *
23110557 CTACACAGCCGAATGCTAATCCATACAGCCAGC
1 CTGCACAGCCGAATGCTAATCCATACGGCCAAC
* * *
23110590 CTACACAGCCGAATGCTAATCCATACAGCCAGC
1 CTGCACAGCCGAATGCTAATCCATACGGCCAAC
*
23110623 CTACACAGCCGAATGCTAATCCATACGGCCAAC
1 CTGCACAGCCGAATGCTAATCCATACGGCCAAC
* * *
23110656 CTGTACAGCC-AAGTGCTAATCCATATGCCCAAC
1 CTGCACAGCCGAA-TGCTAATCCATACGGCCAAC
23110689 C
1 C
23110690 CACACAGTCT
Statistics
Matches: 205, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
32 3 0.01
33 200 0.98
34 1 0.00
35 1 0.00
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.18
Consensus pattern (33 bp):
CTGCACAGCCGAATGCTAATCCATACGGCCAAC
Found at i:23110586 original size:20 final size:20
Alignment explanation
Indices: 23110561--23110619 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
23110551 GCCAGCCTAC
23110561 ACAGCCGAATGCTAATCCAT
1 ACAGCCGAATGCTAATCCAT
23110581 ACAGCC--A-GCCT-A--C--
1 ACAGCCGAATG-CTAATCCAT
23110594 ACAGCCGAATGCTAATCCAT
1 ACAGCCGAATGCTAATCCAT
23110614 ACAGCC
1 ACAGCC
23110620 AGCCTACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 18
0.62 0.00 0.38
Matches are distributed among these distances:
13 6 0.20
15 4 0.13
16 2 0.07
17 2 0.07
18 4 0.13
20 12 0.40
ACGTcount: A:0.34, C:0.36, G:0.15, T:0.15
Consensus pattern (20 bp):
ACAGCCGAATGCTAATCCAT
Found at i:23111513 original size:18 final size:17
Alignment explanation
Indices: 23111492--23111684 Score: 88
Period size: 18 Copynumber: 11.8 Consensus size: 17
23111482 TGGGGATGAA
*
23111492 CATGGGTATGAACCCAGG
1 CATGGGGATGAA-CCAGG
*
23111510 CATGGGGATGAA-CA-A
1 CATGGGGATGAACCAGG
*
23111525 CATGGGCATGAATCCAGG
1 CATGGGGATGAA-CCAGG
* *
23111543 CATGGGGATG-AGCA-A
1 CATGGGGATGAACCAGG
* *
23111558 TATGGGCATGAATCCAGG
1 CATGGGGATGAA-CCAGG
* *
23111576 CATGGGGATG-AGCA-A
1 CATGGGGATGAACCAGG
* * *
23111591 TATGGGCATGAATCAAGG
1 CATGGGGATGAA-CCAGG
23111609 CATGGGGATG-A--A--
1 CATGGGGATGAACCAGG
*
23111621 CATGGGCATGAATCCAGG
1 CATGGGGATGAA-CCAGG
*
23111639 CATGGGGATGAA-CA-A
1 CATGGGGATGAACCAGG
* *
23111654 CATGGGCATGAATCGAGG
1 CATGGGGATGAA-CCAGG
*
23111672 CATGGAGATGAAC
1 CATGGGGATGAAC
23111685 AATATAGGCA
Statistics
Matches: 127, Mismatches: 30, Indels: 37
0.65 0.15 0.19
Matches are distributed among these distances:
12 9 0.07
13 1 0.01
14 1 0.01
15 38 0.30
16 11 0.09
17 10 0.08
18 57 0.45
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.17
Consensus pattern (17 bp):
CATGGGGATGAACCAGG
Found at i:23111536 original size:33 final size:33
Alignment explanation
Indices: 23111490--23111718 Score: 313
Period size: 33 Copynumber: 7.0 Consensus size: 33
23111480 AATGGGGATG
* *
23111490 AACATGGGTATGAACCCAGGCATGGGGATGAAC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
*
23111523 AACATGGGCATGAATCCAGGCATGGGGATGAGC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* *
23111556 AATATGGGCATGAATCCAGGCATGGGGATGAGC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* *
23111589 AATATGGGCATGAATCAAGGCATGGGGATG---
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
23111619 AACATGGGCATGAATCCAGGCATGGGGATGAAC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* *
23111652 AACATGGGCATGAATCGAGGCATGGAGATGAAC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* * *
23111685 AATATAGGCATG-AGCGCAGGCATGGGGATGAAC
1 AACATGGGCATGAATC-CAGGCATGGGGATGAAC
23111718 A
1 A
23111719 TGGGAATGGG
Statistics
Matches: 178, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
30 28 0.16
32 2 0.01
33 148 0.83
ACGTcount: A:0.33, C:0.16, G:0.35, T:0.16
Consensus pattern (33 bp):
AACATGGGCATGAATCCAGGCATGGGGATGAAC
Found at i:23111663 original size:129 final size:129
Alignment explanation
Indices: 23111481--23111715 Score: 391
Period size: 129 Copynumber: 1.8 Consensus size: 129
23111471 GGGCATGGGA
*
23111481 ATGGGGATGAACATGGGTATGAACCCAGGCATGGGGATGAACAACATGGGCATGAATCCAGGCAT
1 ATGGGGATGAACATGGGCATGAACCCAGGCATGGGGATGAACAACATGGGCATGAATCCAGGCAT
* * * *
23111546 GGGGATGAGCAATATGGGCATGAATC-CAGGCATGGGGATGAGCAATATGGGCATGAATCAAGGC
66 GGAGATGAACAATATAGGCATG-AGCGCAGGCATGGGGATGAGCAATATGGGCATGAATCAAGGC
* *
23111610 ATGGGGATGAACATGGGCATGAATCCAGGCATGGGGATGAACAACATGGGCATGAATCGAGGCAT
1 ATGGGGATGAACATGGGCATGAACCCAGGCATGGGGATGAACAACATGGGCATGAATCCAGGCAT
23111675 GGAGATGAACAATATAGGCATGAGCGCAGGCATGGGGATGA
66 GGAGATGAACAATATAGGCATGAGCGCAGGCATGGGGATGA
23111716 ACATGGGAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 2 0.02
129 96 0.98
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.17
Consensus pattern (129 bp):
ATGGGGATGAACATGGGCATGAACCCAGGCATGGGGATGAACAACATGGGCATGAATCCAGGCAT
GGAGATGAACAATATAGGCATGAGCGCAGGCATGGGGATGAGCAATATGGGCATGAATCAAGGC
Found at i:23111719 original size:96 final size:96
Alignment explanation
Indices: 23111499--23111722 Score: 324
Period size: 96 Copynumber: 2.3 Consensus size: 96
23111489 GAACATGGGT
* * *
23111499 ATGAACCCAGGCATGGGGATGAACAACATGGGCATGAATCCAGGCATGGGGATGAGCAATATGGG
1 ATGAAGCCAGGCATGGGGATG---AACATGGGCATGAATCCAGGCATGGGGATGAACAACATGGG
* * *
23111564 CATGAATCCAGGCATGGGGATGAGCAATATGGGC
63 CATGAATCCAGGCATGGAGATGAACAATATAGGC
* *
23111598 ATGAATCAAGGCATGGGGATGAACATGGGCATGAATCCAGGCATGGGGATGAACAACATGGGCAT
1 ATGAAGCCAGGCATGGGGATGAACATGGGCATGAATCCAGGCATGGGGATGAACAACATGGGCAT
*
23111663 GAATCGAGGCATGGAGATGAACAATATAGGC
66 GAATCCAGGCATGGAGATGAACAATATAGGC
23111694 ATG-AGCGCAGGCATGGGGATGAACATGGG
1 ATGAAGC-CAGGCATGGGGATGAACATGGG
23111723 AATGGGGCAG
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
95 2 0.02
96 93 0.82
99 19 0.17
ACGTcount: A:0.33, C:0.16, G:0.36, T:0.16
Consensus pattern (96 bp):
ATGAAGCCAGGCATGGGGATGAACATGGGCATGAATCCAGGCATGGGGATGAACAACATGGGCAT
GAATCCAGGCATGGAGATGAACAATATAGGC
Found at i:23119909 original size:11 final size:11
Alignment explanation
Indices: 23119893--23119951 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
23119883 TATGCAACTT
23119893 TTTTTTTGCGG
1 TTTTTTTGCGG
23119904 TTTTTTTTGC-G
1 -TTTTTTTGCGG
* **
23119915 -CTTTTTGCTT
1 TTTTTTTGCGG
23119925 TTTTTTTGCGG
1 TTTTTTTGCGG
*
23119936 TTTTTTTGCGC
1 TTTTTTTGCGG
23119947 TTTTT
1 TTTTT
23119952 ACTTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 7 0.18
11 23 0.59
12 9 0.23
ACGTcount: A:0.00, C:0.12, G:0.19, T:0.69
Consensus pattern (11 bp):
TTTTTTTGCGG
Found at i:23119931 original size:32 final size:31
Alignment explanation
Indices: 23119889--23119962 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
23119879 AAGGTATGCA
23119889 ACTTTTTTTTTGCGGTTTTTTTTGCGCTTTTT
1 ACTTTTTTTTTGCGG-TTTTTTTGCGCTTTTT
*
23119921 GCTTTTTTTTTGCGGTTTTTTTGCGCTTTTT
1 ACTTTTTTTTTGCGGTTTTTTTGCGCTTTTT
23119952 ACTTTTTTTTT
1 ACTTTTTTTTT
23119963 AAAGAATAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.03, C:0.12, G:0.15, T:0.70
Consensus pattern (31 bp):
ACTTTTTTTTTGCGGTTTTTTTGCGCTTTTT
Found at i:23121053 original size:19 final size:19
Alignment explanation
Indices: 23121029--23121066 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23121019 AGTTATTGAA
23121029 TAAGTTTGAAGCATTATGG
1 TAAGTTTGAAGCATTATGG
23121048 TAAGTTTGAAGCATTATGG
1 TAAGTTTGAAGCATTATGG
23121067 GTTAAAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (19 bp):
TAAGTTTGAAGCATTATGG
Found at i:23126659 original size:46 final size:46
Alignment explanation
Indices: 23126609--23126716 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
23126599 GTGTTTCTAT
* * * * *
23126609 TATTGATTTGGCGAGTATTATACTTGAGGGGTAGTAGTGTTTTTGC
1 TATTGACTTGGCGAGTAGTATACTCGAAGGGTACTAGTGTTTTTGC
* * * *
23126655 TATTGACTTGGTGAGTAGTATCCTCGAAGGGTACTAGTTTTTTTTC
1 TATTGACTTGGCGAGTAGTATACTCGAAGGGTACTAGTGTTTTTGC
*
23126701 TATTGACTTAGCGAGT
1 TATTGACTTGGCGAGT
23126717 TTGAAAGGCA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (46 bp):
TATTGACTTGGCGAGTAGTATACTCGAAGGGTACTAGTGTTTTTGC
Found at i:23126762 original size:20 final size:20
Alignment explanation
Indices: 23126720--23126762 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
23126710 AGCGAGTTTG
*
23126720 AAAGGCAATGTCGAACTTGA
1 AAAGGCAATGTCGAACTTAA
* *
23126740 AAAGGCAGTGTCGAGCTTAA
1 AAAGGCAATGTCGAACTTAA
23126760 AAA
1 AAA
23126763 ATCTAGAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.19
Consensus pattern (20 bp):
AAAGGCAATGTCGAACTTAA
Found at i:23127126 original size:132 final size:131
Alignment explanation
Indices: 23126918--23127217 Score: 332
Period size: 132 Copynumber: 2.3 Consensus size: 131
23126908 ACACATGAAT
* *** * * *
23126918 AATAATTTTTTTACAATAATA-ATTTTTACCTCTCATTGGAGTATTCCTAAAAAGGCTAGAAGGT
1 AATAA-TTTTTTACAATAATATATTTTTACCTTTCATCAAAGTATGCCTAAAAAGACTAGAAGAT
* * * * * *
23126982 GCTCGCTGATTTATCAACGAGGTATATATGGCACGACATTTATCCCTGCGCAACACAGAGAAATA
65 GCTCGCTCATTTATCAACGAGGTATACATGGCACCACATTTATCCATGCACAACACAGAAAAATA
23127047 TC
130 TC
* * * *
23127049 AATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGTGTGCCTGAAAAGACTAGTAGAT
1 AATAATTTTTTACAATAATATA-TTTTTACCTTTCATCAAAGTATGCCTAAAAAGACTAGAAGAT
* * * * ** * ** *
23127114 GCTTGCTCATTTATCGATGAGTTATACATGGTGCCACATTTATCTATGCATGACTCAGAAAAATA
65 GCTCGCTCATTTATCAACGAGGTATACATGGCACCACATTTATCCATGCACAACACAGAAAAATA
23127179 TC
130 TC
23127181 AATAATTTTTTACAATAATATATTTTTACCTTTCATC
1 AATAATTTTTTACAATAATATATTTTTACCTTTCATC
23127218 GGAGCGTGCC
Statistics
Matches: 139, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
130 14 0.10
131 21 0.15
132 104 0.75
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (131 bp):
AATAATTTTTTACAATAATATATTTTTACCTTTCATCAAAGTATGCCTAAAAAGACTAGAAGATG
CTCGCTCATTTATCAACGAGGTATACATGGCACCACATTTATCCATGCACAACACAGAAAAATAT
C
Found at i:23127300 original size:131 final size:132
Alignment explanation
Indices: 23127037--23127287 Score: 326
Period size: 131 Copynumber: 1.9 Consensus size: 132
23127027 CTGCGCAACA
* * *
23127037 CAGAGAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGTGTGCCTGAAA
1 CAGAAAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGCGTGCCTAAAA
* ** * * *
23127102 AGACTAGTAGATGCTTGCTCATTTATCGATGAGTTATACATGGTGCCACATTTATCTATGCATGA
66 AGACTAGAAGATGCTCACTCATTAATCGATGAGTTACACATGGTGCAACATTTATCTATGCATGA
23127167 CT
131 CT
* **
23127169 CAGAAAAATATCAATAATTTTTTACAATAATATA-TTTTTACCTTTCATCGGAGCGTGCCTAAAA
1 CAGAAAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGCGTGCCTAAAA
** * * *
23127233 AGGTTAGAAGGTTCTCACTCATTAATCGGTGAAG-TACACATGGTGCAACATTTAT
66 AGACTAGAAGATGCTCACTCATTAATCGATG-AGTTACACATGGTGCAACATTTAT
23127288 ACTTGTGTGA
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
131 67 0.66
132 34 0.34
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (132 bp):
CAGAAAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGCGTGCCTAAAA
AGACTAGAAGATGCTCACTCATTAATCGATGAGTTACACATGGTGCAACATTTATCTATGCATGA
CT
Found at i:23128139 original size:51 final size:51
Alignment explanation
Indices: 23128025--23128139 Score: 122
Period size: 51 Copynumber: 2.3 Consensus size: 51
23128015 AGGGTTCCTT
** * *
23128025 GTCGCGACGCCACATACTGACTTGGCCTCATCACAATGAGAAATGCTCGAC
1 GTCGCGACGTGACATACTGACTTGGCCTCATCACAACGACAAATGCTCGAC
* * * * ** * *
23128076 GTCACAATGTGACATACTTACTTGGCCTCATTGCGACGACAAATGGTCGAC
1 GTCGCGACGTGACATACTGACTTGGCCTCATCACAACGACAAATGCTCGAC
23128127 GTCGCGACGTGAC
1 GTCGCGACGTGAC
23128140 TGTCTATTTC
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (51 bp):
GTCGCGACGTGACATACTGACTTGGCCTCATCACAACGACAAATGCTCGAC
Found at i:23131688 original size:50 final size:50
Alignment explanation
Indices: 23131588--23131738 Score: 194
Period size: 50 Copynumber: 2.9 Consensus size: 50
23131578 AAAGAGATCT
23131588 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATGAGAGGTCC
*
23131644 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
** * * *
23131694 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGA
23131739 ACNNNNNNNN
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
50 50 0.57
53 4 0.05
55 1 0.01
56 33 0.38
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
Found at i:23132932 original size:241 final size:241
Alignment explanation
Indices: 23132498--23132983 Score: 873
Period size: 241 Copynumber: 2.0 Consensus size: 241
23132488 GTATAGAAAG
*
23132498 AATTAAAAGTTATAATTTATATTTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAGT
1 AATTAAAAGTCATAATTTATATTTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAGT
23132563 AGGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGAA
66 AGGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGAA
* *
23132628 ACGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCATCCCAAAAATTTTGACAATTTTATG
131 ACGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCAACCCAAAAATTTTGAAAATTTTATG
23132693 GTAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACAGATCTA
196 GTAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACAGATCTA
* *
23132739 AATTAGAAGTCATAATTTATATTTTTTTTGATTCCTTATTGAGTCTATTTTTAGTGGAAATAAGT
1 AATTAAAAGTCATAATTTATATTTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAGT
* * *
23132804 ATGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAGGACTGTCGAACAGTGAA
66 AGGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGAA
23132869 ACGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCAACCCAAAAATTTTGAAAATTTTATG
131 ACGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCAACCCAAAAATTTTGAAAATTTTATG
* * *
23132934 GTAAGAAGGTATATGAGTCTAGTTTTGGAGAAAATTTACGGATCTA
196 GTAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACAGATCTA
23132980 AATT
1 AATT
23132984 TCGAGTTTTG
Statistics
Matches: 234, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
241 234 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (241 bp):
AATTAAAAGTCATAATTTATATTTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAGT
AGGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGAA
ACGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCAACCCAAAAATTTTGAAAATTTTATG
GTAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACAGATCTA
Found at i:23141393 original size:26 final size:25
Alignment explanation
Indices: 23141356--23141415 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
23141346 TTTTCTCGAG
* *
23141356 GTAAAATCGTCAAAATTTTACTAGG-
1 GTAAAATTGTCAAAACTTTACT-GGA
23141381 GATAAAATTGTCAAAACTTTACTGGA
1 G-TAAAATTGTCAAAACTTTACTGGA
23141407 GTAAAATTG
1 GTAAAATTG
23141416 GGATGAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (25 bp):
GTAAAATTGTCAAAACTTTACTGGA
Found at i:23145436 original size:49 final size:50
Alignment explanation
Indices: 23145305--23145437 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
23145295 ATAACACACC
**
23145305 AATAATGTGGACAAGCCACCAGATAATGCAG-TCGAGCTACCAGAAACAA
1 AATAATGTGGACAAGCCACCAGATAATGCAGATTTAGCTACCAGAAACAA
* * * * *
23145354 AATAATGTGGTCAAACCACCAGATATTGCAGATTTA-CTGCCAGATACAA
1 AATAATGTGGACAAGCCACCAGATAATGCAGATTTAGCTACCAGAAACAA
* * *
23145403 AATATTGTGGACAAGCCGCCAGATAATGTAGATTT
1 AATAATGTGGACAAGCCACCAGATAATGCAGATTT
23145438 GTTGTCAAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 68 0.97
50 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (50 bp):
AATAATGTGGACAAGCCACCAGATAATGCAGATTTAGCTACCAGAAACAA
Found at i:23145784 original size:26 final size:26
Alignment explanation
Indices: 23145731--23145784 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
23145721 GTCATGAGTA
* *
23145731 ATAGAAATCACAAAATTACATATTTT
1 ATAGAAATCACAAAATCACATATATT
*
23145757 ATAGAAATCACCAAATCACA-ATCATT
1 ATAGAAATCACAAAATCACATAT-ATT
23145783 AT
1 AT
23145785 CACAGATCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.30
Consensus pattern (26 bp):
ATAGAAATCACAAAATCACATATATT
Found at i:23149416 original size:342 final size:342
Alignment explanation
Indices: 23148791--23149479 Score: 1164
Period size: 342 Copynumber: 2.0 Consensus size: 342
23148781 TACAGGCCAT
* * * *
23148791 TGTTAGAATGAAACATTATGCGCTTGTTGTTTTTCTGGGTAGCCAGATGGAATTACGGGGAGTTT
1 TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTACGGGGAGTTT
* *
23148856 CACATAATGCTTATTCTTTCACCATCTTGATTAATTGCTTTTGTCATTTAGGTAAAGTTGATTTT
66 CACATAATGCTTATTCTTTCAACATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTTT
*
23148921 GGGTTTTCTGTTTTGGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCAC
131 GGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCAC
* ** *
23148986 CTTGATTAATGGACTTTGTAATCAAAGCAGGGTTTCTCAGGCTGTGGATTTGTTTTATGAAATGA
196 CTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTGAAGATTTGTTTGATGAAATGA
* * * *
23149051 TCGAAAAAGGGTATCGACCTGATTCATTTGCTTGCAATACAGTACTTAATGGGTTGTGCAAGTCT
261 TCAAAAAAGGGTATCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGCAAGACT
*
23149116 GGTAACACTGGTCGAGC
326 GGGAACACTGGTCGAGC
*
23149133 TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTATGGGGAGTTT
1 TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTACGGGGAGTTT
*
23149198 CACATGATGCTTATTCTTTCAACATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTTT
66 CACATAATGCTTATTCTTTCAACATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTTT
*
23149263 GGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTGATGTTGTAACTTTGTCCAC
131 GGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCAC
*
23149328 TTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTGCAAG-TTTGTTTGATGAAATG
196 CTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTG-AAGATTTGTTTGATGAAATG
* *
23149392 ATCAAAAAAGGGTGTCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGTAAGAC
260 ATCAAAAAAGGGTATCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGCAAGAC
23149457 TGGGAACACTGGTCGAGC
325 TGGGAACACTGGTCGAGC
23149475 TGTTA
1 TGTTA
23149480 AGTTTCTAAG
Statistics
Matches: 324, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
342 323 1.00
343 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (342 bp):
TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTACGGGGAGTTT
CACATAATGCTTATTCTTTCAACATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTTT
GGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCAC
CTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTGAAGATTTGTTTGATGAAATGA
TCAAAAAAGGGTATCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGCAAGACT
GGGAACACTGGTCGAGC
Found at i:23149918 original size:105 final size:104
Alignment explanation
Indices: 23149725--23150263 Score: 413
Period size: 105 Copynumber: 5.1 Consensus size: 104
23149715 CAATGTTTCT
* * * * * * * * *
23149725 CCTGATATTTTCACGTATAACATATTGATTGATGCACATTGCAAGGAGGGGACAATTTCGGAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * * ** * ** **
23149790 TGTAAATATCTTTAATGCGATGAGAAAGCAAGGTGTCAAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* ** * *
23149830 CCTGATGTTGTCACCTATAATATAGTGGTTGATGCATGGTGCAAGGAGAGGCTAATTTCTGAATC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGAT-ATTTCTGAAGC
* * *
23149895 TTTGGATATGGTTCACACAATGAGAAAGCAAGGCATTGAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* * * * * * **
23149935 CCTGATGTTGTCACGTATAGTACATTAGTTGATGCACATTGCAAGGAGGGGAGGGTTTCTGAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * * * *
23150000 CGAAGATATTGTTGACACAATGAGAAAGGAAGGCATTGAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* * * *
23150040 CCTGATGTTGTGACGTATAATATATTGGTTGATGCGTATTGCAAGGAGAGGAGTATTTCTAAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * ** *
23150105 TGTAGATACCATTGC-CACAATGAGAAAGCAAGGTGTGGAG
65 TGTAGATATCGTT-CACACAATGAGAAAGCAAGGCATTGAG
* ** * *
23150145 CCTGATGTTGTCACCTATAACATATTTATTGATGCACT-TTGCAAGAATG-GGATGGTTTCTGAA
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCA-TATTGCAAGGA-GAGGAT-ATTTCTGAA
* * * *
23150208 GCTGAATG-TATTG-TCGACACAATGAGAAAACAATGCATTGAG
63 GCTGTA-GATATCGTTC-ACACAATGAGAAAGCAAGGCATTGAG
* *
23150250 CCTAATTTTGTCAC
1 CCTGATGTTGTCAC
23150264 ATACAGAACT
Statistics
Matches: 338, Mismatches: 87, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
103 1 0.00
104 2 0.01
105 332 0.98
106 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (104 bp):
CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGATATTTCTGAAGCT
GTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
Found at i:23150126 original size:210 final size:210
Alignment explanation
Indices: 23149828--23150263 Score: 520
Period size: 210 Copynumber: 2.1 Consensus size: 210
23149818 CAAGGTGTCA
* *
23149828 AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATGGTGCAAGGAGAGGCTAATTTCTGAA
1 AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATAGTGCAAGGAGAGGCTAATTTCTAAA
* * * *** * * **
23149893 TCTTTGGATATGGTTCACACAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCACGTATAGTAC
66 GCTGTAGATACCATTCACACAATGAGAAAGCAAGGCATGGAGCCTGATGTTGTCACCTATAACAC
* *
23149958 A-TTAGTTGATGCACATTGCAAGGAGGGGAGGGTTTCTGAAGCCGAA-GATATTGTTGACACAAT
131 ATTTA-TTGATGCACATTGCAAGAAGGGGAGGGTTTCTGAAGCCGAATG-TATTGTCGACACAAT
**
23150021 GAGAAAGGAAGGCATTG
194 GAGAAAACAAGGCATTG
* * * * * *
23150038 AGCCTGATGTTGTGACGTATAATATATTGGTTGATGCGTATTGCAAGGAGAGGAGT-ATTTCTAA
1 AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATAGTGCAAGGAGAGG-CTAATTTCTAA
**
23150102 AGCTGTAGATACCATTGC-CACAATGAGAAAGCAAGGTGTGGAGCCTGATGTTGTCACCTATAAC
65 AGCTGTAGATACCATT-CACACAATGAGAAAGCAAGGCATGGAGCCTGATGTTGTCACCTATAAC
* * * * *
23150166 ATATTTATTGATGCACTTTGCAAGAATGGGATGGTTTCTGAAGCTGAATGTATTGTCGACACAAT
129 ACATTTATTGATGCACATTGCAAGAAGGGGAGGGTTTCTGAAGCCGAATGTATTGTCGACACAAT
*
23150231 GAGAAAACAATGCATTG
194 GAGAAAACAAGGCATTG
* *
23150248 AGCCTAATTTTGTCAC
1 AGCCTGATGTTGTCAC
23150264 ATACAGAACT
Statistics
Matches: 189, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
210 183 0.97
211 6 0.03
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (210 bp):
AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATAGTGCAAGGAGAGGCTAATTTCTAAA
GCTGTAGATACCATTCACACAATGAGAAAGCAAGGCATGGAGCCTGATGTTGTCACCTATAACAC
ATTTATTGATGCACATTGCAAGAAGGGGAGGGTTTCTGAAGCCGAATGTATTGTCGACACAATGA
GAAAACAAGGCATTG
Found at i:23151208 original size:22 final size:21
Alignment explanation
Indices: 23151166--23151209 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
23151156 ATCCTCAACA
23151166 CTTCATTGCAAAAGCTCGAAG
1 CTTCATTGCAAAAGCTCGAAG
23151187 CTTCACTTGCTAAAAGCT-GAAG
1 CTTCA-TTGC-AAAAGCTCGAAG
23151209 C
1 C
23151210 AATCGGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (21 bp):
CTTCATTGCAAAAGCTCGAAG
Found at i:23153329 original size:33 final size:32
Alignment explanation
Indices: 23153277--23153445 Score: 142
Period size: 33 Copynumber: 5.2 Consensus size: 32
23153267 GTCCATACAG
* *
23153277 AACCTGCACGACCAAATGCTAATCCATAAGACC
1 AACCTGCAC-AGCAAATGCTAATCCATAAGGCC
23153310 AACCTGCACAGCAACATGCTAATCCAT-AGGCTC
1 AACCTGCACAGCAA-ATGCTAATCCATAAGGC-C
* * * *
23153343 AAACTGCACGGCCAAATGCTAATCCACACGGCC
1 AACCTGCACAG-CAAATGCTAATCCATAAGGCC
* * * * * *
23153376 AAACTGCTCAGCCAGTGCTAATGCATATGGCC
1 AACCTGCACAGCAAATGCTAATCCATAAGGCC
* * * *
23153408 AACCTGTACAGCTAAGTGCTAATCCATATGCCC
1 AACCTGCACAGC-AAATGCTAATCCATAAGGCC
23153441 AACCT
1 AACCT
23153446 ACATAGTCAA
Statistics
Matches: 112, Mismatches: 19, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
32 32 0.29
33 74 0.66
34 6 0.05
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.18
Consensus pattern (32 bp):
AACCTGCACAGCAAATGCTAATCCATAAGGCC
Found at i:23155133 original size:3 final size:3
Alignment explanation
Indices: 23155125--23155149 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23155115 TATAAAAATA
23155125 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
23155150 TTGAAAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23157138 original size:17 final size:18
Alignment explanation
Indices: 23157102--23157139 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
23157092 TTATTGCTCG
*
23157102 TGTATTTTATTGCTTATT
1 TGTATTTTATTGATTATT
*
23157120 TGTA-TTTATTGATTCTT
1 TGTATTTTATTGATTATT
23157137 TGT
1 TGT
23157140 CGCTCATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (18 bp):
TGTATTTTATTGATTATT
Found at i:23162783 original size:105 final size:105
Alignment explanation
Indices: 23162630--23162949 Score: 433
Period size: 105 Copynumber: 3.0 Consensus size: 105
23162620 ATATTTTCAT
* * * * ** * **
23162630 GTATAATATGTTGATTGATGCACATTGCAAGGAGGGGACAATTTCTGAAGCTGTAGATACCATTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
23162695 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
* * * *
23162735 GTATAGTATATTGGTTGATGCACATTGTAAGGAAGGGATGATTCCTGAAGCTAAAGATATTTTTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
* * *
23162800 AGACAATGATAAAGCAAGGCATTGAGCCTAATGTTGTCAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
* * * *
23162840 GTATAGTATATTGGTCGATGCACTTTGTAAGGAGGGGATGGTTTCTGAAGCTGAAGATATTGTTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
* *
23162905 ACACAATGAGAAATCAAGGCATTGAGCCTGATGTTGTTAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
*
23162945 CTATA
1 GTATA
23162950 ATGCATTGAT
Statistics
Matches: 186, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 186 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (105 bp):
GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
Found at i:23169025 original size:25 final size:25
Alignment explanation
Indices: 23168991--23169041 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
23168981 AGAAGAAAGA
23168991 TATAAAACGGCATTTACTGTACCAT
1 TATAAAACGGCATTTACTGTACCAT
23169016 TATAAAACGGCATTTACTGTACCAT
1 TATAAAACGGCATTTACTGTACCAT
23169041 T
1 T
23169042 TGGACAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (25 bp):
TATAAAACGGCATTTACTGTACCAT
Found at i:23171748 original size:18 final size:19
Alignment explanation
Indices: 23171699--23171750 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
23171689 TCGTTTCTTT
23171699 AAAGTTTTAAAGTTTCTCC
1 AAAGTTTTAAAGTTTCTCC
23171718 AAAGTTTTAAAGTTTCTCC
1 AAAGTTTTAAAGTTTCTCC
*
23171737 AAA-TTTTTAAGTTT
1 AAAGTTTTAAAGTTT
23171751 TAAAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 10 0.31
19 22 0.69
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (19 bp):
AAAGTTTTAAAGTTTCTCC
Found at i:23172477 original size:13 final size:13
Alignment explanation
Indices: 23172425--23172477 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
23172415 AGTTCTTCAT
23172425 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
23172438 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
23172451 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
23172464 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
23172477 T
1 T
23172478 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:23173800 original size:9 final size:9
Alignment explanation
Indices: 23173786--23173816 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23173776 GTTAAACGAA
23173786 TCGAGTTAT
1 TCGAGTTAT
*
23173795 TCGAGTTAA
1 TCGAGTTAT
23173804 TCGAGTTAT
1 TCGAGTTAT
23173813 TCGA
1 TCGA
23173817 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23173886 original size:9 final size:9
Alignment explanation
Indices: 23173869--23173905 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23173859 TGAGTTTTCG
23173869 AATTCGAAT
1 AATTCGAAT
*
23173878 AACTCGAAT
1 AATTCGAAT
*
23173887 AATTCGAAA
1 AATTCGAAT
23173896 AATTCGAAT
1 AATTCGAAT
23173905 A
1 A
23173906 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23183665 original size:21 final size:21
Alignment explanation
Indices: 23183632--23183671 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
23183622 GATTCCTAAG
23183632 ATAAACATAAAAGT-AGAGCA
1 ATAAACATAAAAGTGAGAGCA
*
23183652 ATAAATATCAAAAGTGAGAG
1 ATAAACAT-AAAAGTGAGAG
23183672 ATCACTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
ATAAACATAAAAGTGAGAGCA
Found at i:23185533 original size:49 final size:49
Alignment explanation
Indices: 23185401--23185542 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 49
23185391 GCATTGCAAT
* * **
23185401 TCAGGCTCCCAGTTCATGGTGGTTATACAGTCACAAGTTGAAGTATAAC
1 TCAGGCTCCCAGTTGATGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
* *
23185450 T-AGGGCTCCAAGTTGACGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
1 TCA-GGCTCCCAGTTGATGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
* * *
23185499 TCAGGCCCCCAGTTGATAGTGGTTATGC-GATCACGGGTTCAAGT
1 TCAGGCTCCCAGTTGATGGTGGTTATGCAG-TCACGGGTTGAAGT
23185543 TTCATGATAC
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
48 2 0.03
49 76 0.96
50 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (49 bp):
TCAGGCTCCCAGTTGATGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
Found at i:23193723 original size:49 final size:49
Alignment explanation
Indices: 23193594--23193726 Score: 131
Period size: 49 Copynumber: 2.7 Consensus size: 49
23193584 ATGTAACGCG
* * * * *
23193594 AACCCGTGACTACATAACCACCGCCAATTGGGGGCTCGAGTTATACTTC
1 AACCCATGACTGCATAACCACCGTCAATTGGGAGCTCGAATTATACTTC
*** * * *
23193643 AACCCATGACTGCATAACTGTCGTCAGTTGGGAGCTCTAATTATACTTG
1 AACCCATGACTGCATAACCACCGTCAATTGGGAGCTCGAATTATACTTC
* * * *
23193692 AACCTATGATTGTATAACCACCGTAAATTGGGAGC
1 AACCCATGACTGCATAACCACCGTCAATTGGGAGC
23193727 CCAAGTTGCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (49 bp):
AACCCATGACTGCATAACCACCGTCAATTGGGAGCTCGAATTATACTTC
Found at i:23194203 original size:43 final size:43
Alignment explanation
Indices: 23194156--23194333 Score: 241
Period size: 43 Copynumber: 4.1 Consensus size: 43
23194146 AAGAAACGTT
* *
23194156 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
* *
23194199 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAAAAAATGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
* *
23194242 GCTAAAGAACATGACCTTTAGCGGTGCTTTACCAACAAACGCT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
** * * *
23194285 GCTAAAGAACATGATTTTTAGCGGTGCTTTTATC-ACAAACGTC
1 GCTAAAGAACATGACCTTTAGCGGCGC-TTTACCAACAAACGCC
23194328 GCTAAA
1 GCTAAA
23194334 AGTACGGTTC
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 116 0.96
44 5 0.04
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
Found at i:23194347 original size:86 final size:86
Alignment explanation
Indices: 23194156--23194357 Score: 230
Period size: 86 Copynumber: 2.4 Consensus size: 86
23194146 AAGAAACGTT
* *
23194156 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACCTTTAGC
1 GCTAAAGAACAGGATCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGACCTTTAGC
*
23194221 GGCGCTTTACCAAAAAATGCC
66 GGCGCTTTACCAAAAAACGCC
* * * * **
23194242 GCTAAAGAACATGACCTTTAGCGGTGCTTTACCAACAAACGCTGCTAAAGAACATGATTTTTAGC
1 GCTAAAGAACAGGATCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGACCTTTAGC
* * * *
23194307 GGTGCTTTTATC-ACAAACGTC
66 GGCGC-TTTACCAAAAAACGCC
* *
23194328 GCTAAAAGTAC-GGTTCTTTAGCGGCG-TTTA
1 GCT-AAAGAACAGGATCTTTAGCGGCGCTTTA
23194358 TAAAAAAACG
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
85 4 0.04
86 83 0.85
87 11 0.11
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (86 bp):
GCTAAAGAACAGGATCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGACCTTTAGC
GGCGCTTTACCAAAAAACGCC
Found at i:23198797 original size:21 final size:21
Alignment explanation
Indices: 23198741--23198807 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 21
23198731 ATATTCAATT
23198741 ACCCTTAAACCTTAAATCCCA
1 ACCCTTAAACCTTAAATCCCA
23198762 ACCCTAGCCCCTAAACCTTAAATCCCA
1 ACCCT------TAAACCTTAAATCCCA
*
23198789 ACCCTTAAACCAT-AATCCC
1 ACCCTTAAACCTTAAATCCC
23198808 TAAATCCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
20 6 0.15
21 12 0.31
27 21 0.54
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (21 bp):
ACCCTTAAACCTTAAATCCCA
Found at i:23198816 original size:15 final size:14
Alignment explanation
Indices: 23198794--23198828 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
23198784 TCCCAACCCT
23198794 TAAACCATAATCCC
1 TAAACCATAATCCC
*
23198808 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
23198823 TAAACC
1 TAAACC
23198829 TTACACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:23199268 original size:41 final size:41
Alignment explanation
Indices: 23199211--23199487 Score: 360
Period size: 41 Copynumber: 6.8 Consensus size: 41
23199201 AAATGTTTTT
*
23199211 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* * * **
23199252 GCGGCACTTTTCCAAAAACACCGCTAAAGCCCCGGGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* * * *
23199293 GCGGCACTTTTCCGAAAACGCCGCTAAAG-CCCAGAGAATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCA-AGCATTA
* *
23199334 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
* *
23199375 GCGGCGCTTTTTCAAAAACACCGCTAAAG-CCCAGAGAATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCA-AGCATTA
* * *
23199416 GCGGTGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
*
23199457 GCGGCGCTTTTTCAAAAACACCGCTAAAGCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
23199488 AAGAAAGGTC
Statistics
Matches: 205, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
40 6 0.03
41 193 0.94
42 6 0.03
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
Found at i:23199350 original size:82 final size:82
Alignment explanation
Indices: 23199211--23199487 Score: 421
Period size: 82 Copynumber: 3.4 Consensus size: 82
23199201 AAATGTTTTT
* * * * *
23199211 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCA-AGCATTAGCGGCACTTTTCCAAAAACACCG
1 GCGGCGCTTTTCCAAAAACACCGCTAAAG-CCCAGAGAATTAGCGGCGCTTTTTCAAAAACGCCG
* *
23199275 CTAAAGCCCCGGGCATTA
65 CTAAAACCCCGAGCATTA
* * *
23199293 GCGGCACTTTTCCGAAAACGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTTTCAAAAACGCCGC
1 GCGGCGCTTTTCCAAAAACACCGCTAAAGCCCAGAGAATTAGCGGCGCTTTTTCAAAAACGCCGC
23199358 TAAAACCCCGAGCATTA
66 TAAAACCCCGAGCATTA
* *
23199375 GCGGCGCTTTTTCAAAAACACCGCTAAAGCCCAGAGAATTAGCGGTGCTTTTTCAAAAACGCCGC
1 GCGGCGCTTTTCCAAAAACACCGCTAAAGCCCAGAGAATTAGCGGCGCTTTTTCAAAAACGCCGC
23199440 TAAAACCCCGAGCATTA
66 TAAAACCCCGAGCATTA
*
23199457 GCGGCGCTTTTTCAAAAACACCGCTAAAGCC
1 GCGGCGCTTTTCCAAAAACACCGCTAAAGCC
23199488 AAGAAAGGTC
Statistics
Matches: 181, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 4 0.02
82 177 0.98
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (82 bp):
GCGGCGCTTTTCCAAAAACACCGCTAAAGCCCAGAGAATTAGCGGCGCTTTTTCAAAAACGCCGC
TAAAACCCCGAGCATTA
Found at i:23199434 original size:123 final size:123
Alignment explanation
Indices: 23199211--23199484 Score: 404
Period size: 123 Copynumber: 2.2 Consensus size: 123
23199201 AAATGTTTTT
* *
23199211 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCACTTTTCCAAAAACACCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCACTTTTCCAAAAACACCGC
* * * * *
23199276 TAAAGCCCCGGGCATTAGCGGCACTTTTCCGAAAACGCCGCTAAAGCCCAGAGAATTA
66 TAAAGCCCAGAGAATTAGCGGCACTTTTCCAAAAACGCCGCTAAAACCCAGAGAATTA
* * *
23199334 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTTTTCAAAAACACCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCACTTTTCCAAAAACACCGC
** * * *
23199399 TAAAGCCCAGAGAATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
66 TAAAGCCCAGAGAATTAGCGGCACTTTTCCAAAAACGCCGCTAAAACCCAGAGAATTA
*
23199457 GCGGCGCTTTTTCAAAAACACCGCTAAA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAA
23199485 GCCAAGAAAG
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
123 135 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (123 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCACTTTTCCAAAAACACCGC
TAAAGCCCAGAGAATTAGCGGCACTTTTCCAAAAACGCCGCTAAAACCCAGAGAATTA
Found at i:23200889 original size:29 final size:29
Alignment explanation
Indices: 23200855--23200931 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
23200845 TCTTTAAAAT
*
23200855 CAAGAGTCTGGCATTGACTATCCACCAAA
1 CAAGAGTCTGGCAGTGACTATCCACCAAA
* * ***
23200884 CAAGAGTTTGGCAGTAACTATTTGCCAAA
1 CAAGAGTCTGGCAGTGACTATCCACCAAA
*
23200913 CAAGAGTCTAGCAGTGACT
1 CAAGAGTCTGGCAGTGACT
23200932 CTCGTTTAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (29 bp):
CAAGAGTCTGGCAGTGACTATCCACCAAA
Found at i:23207181 original size:15 final size:15
Alignment explanation
Indices: 23207161--23207198 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
23207151 TCTTAGGTCG
*
23207161 CCAACTCGCCACATT-
1 CCAACTCACCAC-TTC
23207176 CCAACTCACCACTTC
1 CCAACTCACCACTTC
23207191 CCAACTCA
1 CCAACTCA
23207199 TTTGTCCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.29, C:0.50, G:0.03, T:0.18
Consensus pattern (15 bp):
CCAACTCACCACTTC
Found at i:23210842 original size:29 final size:30
Alignment explanation
Indices: 23210788--23210848 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
23210778 ATAATTTGCA
* *
23210788 AAAATTGAATTAAATTAATATTTCATGTAT
1 AAAATTGAATAAAATTAATAGTTCATGTAT
*
23210818 AAAATTGCATAAAATTAA-AGTTCATGTAT
1 AAAATTGAATAAAATTAATAGTTCATGTAT
23210847 AA
1 AA
23210849 GATCGTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAATTGAATAAAATTAATAGTTCATGTAT
Found at i:23212437 original size:127 final size:129
Alignment explanation
Indices: 23212211--23212464 Score: 397
Period size: 127 Copynumber: 2.0 Consensus size: 129
23212201 AAGTTGATGG
** ** *
23212211 TGTTAGGATCGTCCCGATTAAGCAACAAACAAGTAAAAATAGCAGAAGAAATTGAGATGATGAAC
1 TGTTAGGATCGAACCGATTAAGCAACAAACAACAAAAAATAGCAGAAGAAATTGAGATAATGAAC
23212276 ACACAAATTTAACGTGGAAAAACCCCTCTAAAGAGGATAAAAAACCAC-GG-AAAGATAATTCT
66 ACACAAATTTAACGTGGAAAAACCCCTCTAAAGAGGATAAAAAACCACGGGCAAAGATAATTCT
* ** *
23212338 TGTTAGGATCGAACCGATTAAGCAATAAGTAACAAAAAATAGCAGAATAAATTGAGA-AATTGAA
1 TGTTAGGATCGAACCGATTAAGCAACAAACAACAAAAAATAGCAGAAGAAATTGAGATAA-TGAA
23212402 CACACAAATTTAACGTGGAAAAACCCCTCTAAAGAGGATAAAAAACCACGGGCAAAGATAATT
65 CACACAAATTTAACGTGGAAAAACCCCTCTAAAGAGGATAAAAAACCACGGGCAAAGATAATT
23212465 TTACTATAAT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
126 1 0.01
127 102 0.89
128 2 0.02
129 10 0.09
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.19
Consensus pattern (129 bp):
TGTTAGGATCGAACCGATTAAGCAACAAACAACAAAAAATAGCAGAAGAAATTGAGATAATGAAC
ACACAAATTTAACGTGGAAAAACCCCTCTAAAGAGGATAAAAAACCACGGGCAAAGATAATTCT
Found at i:23212680 original size:24 final size:24
Alignment explanation
Indices: 23212653--23212704 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23212643 TTAGTAAGTC
*
23212653 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
23212677 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
23212701 AAAT
1 AAAT
23212705 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:23214499 original size:24 final size:24
Alignment explanation
Indices: 23214472--23214523 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23214462 TTAGTAAGTC
*
23214472 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
23214496 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
23214520 AAAT
1 AAAT
23214524 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:23215210 original size:11 final size:10
Alignment explanation
Indices: 23215185--23215234 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
23215175 TGCTTTACTG
*
23215185 TTGTTTTCCA
1 TTGTTTTCTA
23215195 TTGTTTTGCTA
1 TTGTTTT-CTA
23215206 TTGTTTTTCTA
1 TTG-TTTTCTA
23215217 TTGTTTTCTCA
1 TTGTTTTCT-A
23215228 TTGTTTT
1 TTGTTTT
23215235 GCTACCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 13 0.36
11 19 0.53
12 4 0.11
ACGTcount: A:0.08, C:0.12, G:0.12, T:0.68
Consensus pattern (10 bp):
TTGTTTTCTA
Found at i:23215251 original size:33 final size:32
Alignment explanation
Indices: 23215185--23215251 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
23215175 TGCTTTACTG
*** **
23215185 TTGTTTTCCATTGTTTTGCTATTGTTTTTCTA
1 TTGTTTTCCATTGTTTTGCTACCATTTCACTA
23215217 TTGTTTTCTCATTGTTTTGCTACCATTTCACTA
1 TTGTTTTC-CATTGTTTTGCTACCATTTCACTA
23215250 TT
1 TT
23215252 ATATTGCTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.12, C:0.16, G:0.10, T:0.61
Consensus pattern (32 bp):
TTGTTTTCCATTGTTTTGCTACCATTTCACTA
Found at i:23216700 original size:20 final size:19
Alignment explanation
Indices: 23216677--23216718 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
23216667 GCATATTTTC
23216677 TTTCTATATTATTAATATTA
1 TTTCTATATTATTAATA-TA
23216697 TTTCTATATTATTAATATA
1 TTTCTATATTATTAATATA
23216716 TTT
1 TTT
23216719 TTATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCTATATTATTAATATA
Found at i:23216728 original size:20 final size:19
Alignment explanation
Indices: 23216681--23216747 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
23216671 ATTTTCTTTC
*
23216681 TATATTATTAATATTATTTC
1 TATATTATTAATA-TATTTT
23216701 TATATTATTAATATATTTT
1 TATATTATTAATATATTTT
* * *
23216720 TATTTTTATTTATATATATT
1 TA-TATTATTAATATATTTT
*
23216740 TAAATTAT
1 TATATTAT
23216748 ATATTTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.28
20 29 0.73
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTATTAATATATTTT
Found at i:23216750 original size:13 final size:13
Alignment explanation
Indices: 23216732--23216757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23216722 TTTTTATTTA
23216732 TATATATTTAAAT
1 TATATATTTAAAT
23216745 TATATATTTAAAT
1 TATATATTTAAAT
23216758 GATAAATAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:23216783 original size:15 final size:15
Alignment explanation
Indices: 23216759--23216796 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
23216749 TATTTAAATG
*
23216759 ATAAATAATAATAAA
1 ATAAACAATAATAAA
23216774 ATAAACAATAATAAA
1 ATAAACAATAATAAA
23216789 ATAAACAA
1 ATAAACAA
23216797 ACCAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAACAATAATAAA
Found at i:23216950 original size:21 final size:21
Alignment explanation
Indices: 23216910--23216948 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23216900 AAATCATAGA
*
23216910 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCAACTCTTTCT
23216931 TAAATCCAAGCAA-TCTTT
1 TAAATCCAAGCAACTCTTT
23216949 TCGTAGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCAACTCTTTCT
Found at i:23217654 original size:93 final size:93
Alignment explanation
Indices: 23217555--23217728 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
23217545 GATAGCTATT
* *
23217555 TGTGCAAGTATTTTGCGATTCAGAAGCAACTGTTTCTTGTACAGATTATGTATTAATCTACTATA
1 TGTGCAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGATTATGTATTAATCTACTATA
23217620 ACTATAGGATACCCCCACTCCGCGAATC
66 ACTATAGGATACCCCCACTCCGCGAATC
* *
23217648 TGTGCAAGTATTTTGTGATTCAAAAGCAACTGTGTCTTGTACAGATTGTGTATTAATCTACTATA
1 TGTGCAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGATTATGTATTAATCTACTATA
23217713 ACTATAGGATACCCCC
66 ACTATAGGATACCCCC
23217729 CACACTACGA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (93 bp):
TGTGCAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGATTATGTATTAATCTACTATA
ACTATAGGATACCCCCACTCCGCGAATC
Found at i:23219993 original size:18 final size:18
Alignment explanation
Indices: 23219959--23219996 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23219949 TCTCAAATTA
*
23219959 TTATCATAAATTCTATTT
1 TTATCATAAATTATATTT
23219977 TTATC-TAAATTAATATTT
1 TTATCATAAATT-ATATTT
23219995 TT
1 TT
23219997 TTAGTAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATCATAAATTATATTT
Found at i:23220154 original size:9 final size:8
Alignment explanation
Indices: 23220125--23220153 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
23220115 TAAGAATAAT
23220125 TTTTTAAA
1 TTTTTAAA
23220133 TTTTTAAA
1 TTTTTAAA
23220141 TTTTTAAA
1 TTTTTAAA
23220149 TTTTT
1 TTTTT
23220154 TTTATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTTAAA
Found at i:23227428 original size:16 final size:17
Alignment explanation
Indices: 23227390--23227428 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
23227380 CTTCAACCCC
23227390 AACTTCTATTCTTCTGA
1 AACTTCTATTCTTCTGA
23227407 AA-TTCTATTCTTCT-A
1 AACTTCTATTCTTCTGA
23227422 AACTTCT
1 AACTTCT
23227429 TCAATTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 16 0.76
17 2 0.10
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (17 bp):
AACTTCTATTCTTCTGA
Found at i:23230820 original size:46 final size:46
Alignment explanation
Indices: 23230751--23231039 Score: 283
Period size: 46 Copynumber: 6.3 Consensus size: 46
23230741 AATCTTCACA
* * * * * * * *
23230751 AATCAGATAATACCACTTGGTCACCCGTTAGGTTTGAACCTATGCG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* * *
23230797 AATCAGATAATAGCGTCTAGTCACCCGTTAGGGTTGAACCTATGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* * ** * *
23230843 AATTAGATAATAGGGTTTGGTCACCCATTAGGGTTTAACCTACGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* ** *
23230889 AATCAAATAATATTGCCTAGTCACCCATTAGGGTTGAACTTACGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* * * * * *
23230935 AATTAGATAATAGCGCC-AGGTCATCCATTATGGTTTAACATACGGG
1 AATCAGATAATAGCGCCTA-GTCACCCATTAGGGTTGAACCTACGTG
* * *
23230981 AACCAGATAATAGAGCCTGGTCACCCATTAGGGTTGAACCTACGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
*
23231027 AATCACATAATAG
1 AATCAGATAATAG
23231040 TGGTTGGTCA
Statistics
Matches: 198, Mismatches: 43, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
45 1 0.01
46 197 0.99
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (46 bp):
AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
Found at i:23230912 original size:92 final size:91
Alignment explanation
Indices: 23230767--23231068 Score: 338
Period size: 92 Copynumber: 3.3 Consensus size: 91
23230757 ATAATACCAC
* * * * *
23230767 TTGGTCACCCGTTA-GGTTTGAACCTATGCGAATCAGATAATAGCGTCTAGTCACCCGTTAGGGT
1 TTGGTCACCCATTAGGGTTT-AACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGT
*
23230831 TGAACCTATGTGAATTAGATAATAGGG
65 TGAACCTACGTGAATTAGATAATAGGG
* * **
23230858 TTTGGTCACCCATTAGGGTTTAACCTACGTGAATCAAATAATATTGCCTAGTCACCCATTAGGGT
1 -TTGGTCACCCATTAGGGTTTAACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGT
* *
23230923 TGAACTTACGTGAATTAGATAATAGCGC
65 TGAACCTACGTGAATTAGATAATAG-GG
** * * * * * *
23230951 CAGGTCATCCATTATGGTTTAACATACGGGAACCAGATAATAGAGCCTGGTCACCCATTAGGGTT
1 TTGGTCACCCATTAGGGTTTAACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGTT
* *
23231016 GAACCTACGTGAATCACATAATAGTGG
66 GAACCTACGTGAATTAGATAATAG-GG
* *
23231043 TTGGTCACCCTTTCGGG-TTAACCTAC
1 TTGGTCACCCATTAGGGTTTAACCTAC
23231069 ATGAGAAATA
Statistics
Matches: 174, Mismatches: 34, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
91 8 0.05
92 160 0.92
93 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (91 bp):
TTGGTCACCCATTAGGGTTTAACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGTT
GAACCTACGTGAATTAGATAATAGGG
Done.