Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 33 of 79
Found at i:11295764 original size:19 final size:19
Alignment explanation
Indices: 11295740--11295777 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11295730 NNNNNNNNNT
11295740 ATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATC
*
11295759 ATATCTAAGATTGTATATC
1 ATATCTAAGATTGCATATC
11295778 CTCGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
ATATCTAAGATTGCATATC
Found at i:11298446 original size:38 final size:38
Alignment explanation
Indices: 11298339--11298455 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 38
11298329 ATCCAACCCA
11298339 ACCCAATTACCTAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACC-AACCCAATAAAACTAAAACTAAAGTCT
11298378 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTA-CCAACCCAATAAAACTAAAACTAAAGTCT
* * *
11298417 ACCCAATTACCGACCTAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
11298455 A
1 A
11298456 ACTCTTAAGT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
38 27 0.36
39 45 0.61
40 2 0.03
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:11298499 original size:27 final size:27
Alignment explanation
Indices: 11298458--11298512 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
11298448 AAAGTCTAAC
*
11298458 TCTTAAGTATCTACCCAATTACACATT
1 TCTTAAGTATATACCCAATTACACATT
11298485 TCTTAAGTATATACCCAATTACACATT
1 TCTTAAGTATATACCCAATTACACATT
11298512 T
1 T
11298513 TTTTTTTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (27 bp):
TCTTAAGTATATACCCAATTACACATT
Found at i:11298715 original size:9 final size:9
Alignment explanation
Indices: 11298677--11298734 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
11298667 TTAGTGATTC
*
11298677 AATTCGGGT
1 AATTCGGTT
* *
11298686 AATTTGGGT
1 AATTCGGTT
* *
11298695 AATTTGGGT
1 AATTCGGTT
*
11298704 AATCCGGTT
1 AATTCGGTT
*
11298713 AATTCGATT
1 AATTCGGTT
11298722 AATTCGGTT
1 AATTCGGTT
11298731 AATT
1 AATT
11298735 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11308742 original size:30 final size:29
Alignment explanation
Indices: 11308708--11308769 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
11308698 TAAAAGACGT
11308708 TTTTTTTAAAAATTTATCGAAATGGGCCGA
1 TTTTTTTAAAAATTTATCGAAATGGGCC-A
* ** *
11308738 -TTTTTTGATTATTTATCGGAATGGGCCA
1 TTTTTTTAAAAATTTATCGAAATGGGCCA
11308766 TTTT
1 TTTT
11308770 CCGCAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.47
Consensus pattern (29 bp):
TTTTTTTAAAAATTTATCGAAATGGGCCA
Found at i:11313458 original size:15 final size:15
Alignment explanation
Indices: 11313438--11313494 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
11313428 TTCACATATT
11313438 AATATTTTAATAATA
1 AATATTTTAATAATA
*
11313453 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
11313472 AATATATTAATAATA
1 AATATTTTAATAATA
*
11313487 AATGTTTT
1 AATATTTT
11313495 GCAGCATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:11313467 original size:19 final size:19
Alignment explanation
Indices: 11313440--11313476 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11313430 CACATATTAA
*
11313440 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
11313459 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
11313477 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:11316593 original size:18 final size:19
Alignment explanation
Indices: 11316558--11316594 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11316548 TTCTGTAGAA
11316558 GAGAAAGTAAATAATTTAG
1 GAGAAAGTAAATAATTTAG
*
11316577 GAGAAATTAAA-AATTTAG
1 GAGAAAGTAAATAATTTAG
11316595 ACTTAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (19 bp):
GAGAAAGTAAATAATTTAG
Found at i:11324357 original size:19 final size:19
Alignment explanation
Indices: 11324333--11324376 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11324323 TAAAAGCAAC
*
11324333 ACAACATCAGTCTAAATAA
1 ACAACATCAGTCCAAATAA
* *
11324352 ACAACATGAGTCCAAGTAA
1 ACAACATCAGTCCAAATAA
11324371 ACAACA
1 ACAACA
11324377 ACAAAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.52, C:0.23, G:0.09, T:0.16
Consensus pattern (19 bp):
ACAACATCAGTCCAAATAA
Found at i:11324427 original size:74 final size:72
Alignment explanation
Indices: 11324349--11324493 Score: 202
Period size: 74 Copynumber: 2.0 Consensus size: 72
11324339 TCAGTCTAAA
* * *
11324349 TAAACAACATGAGTCCAAGTAAACAACAACAAAACAACAAGATTAT-AATAAAATAACATAATCA
1 TAAACAACATGAGTCCAAGTAAACAACAAC---ACAACAAGATTATAAAAAAAAAAACATAAGCA
11324413 AAAGTCCAAG
63 AAAGTCCAAG
** *
11324423 TAAACAACATGAGTTGAAGTAAACAACAACATAACAAGATTATAAAAAAAAAAACATAAGCAAAA
1 TAAACAACATGAGTCCAAGTAAACAACAACACAACAAGATTATAAAAAAAAAAACATAAGCAAAA
11324488 GTCCAA
66 GTCCAA
11324494 AATACGACAG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
71 12 0.19
72 24 0.38
74 28 0.44
ACGTcount: A:0.59, C:0.16, G:0.09, T:0.16
Consensus pattern (72 bp):
TAAACAACATGAGTCCAAGTAAACAACAACACAACAAGATTATAAAAAAAAAAACATAAGCAAAA
GTCCAAG
Found at i:11324589 original size:22 final size:22
Alignment explanation
Indices: 11324564--11324605 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11324554 AAAATCCAAT
11324564 AAACCAACAACAATAACACAAC
1 AAACCAACAACAATAACACAAC
* *
11324586 AAACTAATAACAATAACACA
1 AAACCAACAACAATAACACA
11324606 TCAGTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.26, G:0.00, T:0.10
Consensus pattern (22 bp):
AAACCAACAACAATAACACAAC
Found at i:11330760 original size:26 final size:26
Alignment explanation
Indices: 11330731--11330784 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
11330721 GTCTGGACAC
11330731 ATGGCCGTCTAACCTCTGTATTGAAA
1 ATGGCCGTCTAACCTCTGTATTGAAA
*
11330757 ATGGCCGTCTGACCTCTGTATTGAAA
1 ATGGCCGTCTAACCTCTGTATTGAAA
11330783 AT
1 AT
11330785 TTTTAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (26 bp):
ATGGCCGTCTAACCTCTGTATTGAAA
Found at i:11331711 original size:21 final size:22
Alignment explanation
Indices: 11331678--11331718 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
11331668 TAGTATATTA
11331678 AAATAATTAAAGAATTTGAATG
1 AAATAATTAAAGAATTTGAATG
11331700 AAATAA-TAAAGAATTTGAA
1 AAATAATTAAAGAATTTGAA
11331719 AGTGAAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (22 bp):
AAATAATTAAAGAATTTGAATG
Found at i:11338514 original size:79 final size:80
Alignment explanation
Indices: 11338413--11338573 Score: 290
Period size: 79 Copynumber: 2.0 Consensus size: 80
11338403 TCCCATGAAA
*
11338413 ATTGTTAGTTCTTTAAACTTGCTTAATAAAAGTACTCGTATCTCATTATT-GTCATTTTATGTTA
1 ATTGTAAGTTCTTTAAACTTGCTTAATAAAAGTACTCGTATCTCATT-TTAGTCATTTTATGTTA
11338477 TGTTAATATATAAAAT
65 TGTTAATATATAAAAT
11338493 ATTGTAAGTT-TTTAAACTTGCTTAATAAAAGTACTCGTATCTCATTTTAGTCATTTTATGTTAT
1 ATTGTAAGTTCTTTAAACTTGCTTAATAAAAGTACTCGTATCTCATTTTAGTCATTTTATGTTAT
11338557 GTTAATATATAAAAT
66 GTTAATATATAAAAT
11338572 AT
1 AT
11338574 ATATAATAAA
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
78 2 0.03
79 68 0.86
80 9 0.11
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (80 bp):
ATTGTAAGTTCTTTAAACTTGCTTAATAAAAGTACTCGTATCTCATTTTAGTCATTTTATGTTAT
GTTAATATATAAAAT
Found at i:11340174 original size:19 final size:18
Alignment explanation
Indices: 11340146--11340181 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11340136 GAATTCGCAC
11340146 ATTTGATTATCTAATTTA
1 ATTTGATTATCTAATTTA
*
11340164 ATTTCGATTATTTAATTT
1 ATTT-GATTATCTAATTT
11340182 TGCATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTGATTATCTAATTTA
Found at i:11342261 original size:144 final size:144
Alignment explanation
Indices: 11342088--11342375 Score: 560
Period size: 144 Copynumber: 2.0 Consensus size: 144
11342078 AATTTTACCA
11342088 TTCTTCATTTACATATCAAATATTTTATTAGATTTCGATTTTCTCATCCATCTAGATTATGCATG
1 TTCTTCATTTACATATCAAATATTTTATTAGATTTCGATTTTCTCATCCATCTAGATTATGCATG
11342153 TCAAGTTTGTAATAAATAATAAAATC-TTTAACTATTTTGTTTTAGGTGAAAAAATTTCAATCGT
66 TCAAGTTTGTAATAAATAATAAAATCTTTTAACTA-TTTGTTTTAGGTGAAAAAATTTCAATCGT
11342217 TAAATATATATATAT
130 TAAATATATATATAT
11342232 TTCTTCATTTACATATCAAATATTTTATTAGATTTCGATTTTCTCATCCATCTAGATTATGCATG
1 TTCTTCATTTACATATCAAATATTTTATTAGATTTCGATTTTCTCATCCATCTAGATTATGCATG
11342297 TCAAGTTTGTAATAAATAATAAAATCTTTTAACTATTTGTTTTAGGTGAAAAAATTTCAATCGTT
66 TCAAGTTTGTAATAAATAATAAAATCTTTTAACTATTTGTTTTAGGTGAAAAAATTTCAATCGTT
11342362 AAATATATATATAT
131 AAATATATATATAT
11342376 ATTAATATAA
Statistics
Matches: 143, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
144 135 0.94
145 8 0.06
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (144 bp):
TTCTTCATTTACATATCAAATATTTTATTAGATTTCGATTTTCTCATCCATCTAGATTATGCATG
TCAAGTTTGTAATAAATAATAAAATCTTTTAACTATTTGTTTTAGGTGAAAAAATTTCAATCGTT
AAATATATATATAT
Found at i:11344326 original size:12 final size:12
Alignment explanation
Indices: 11344288--11344318 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
11344278 TGACAATGTA
11344288 AATAAATAAATG
1 AATAAATAAATG
11344300 AATAAATAAAATG
1 AATAAAT-AAATG
11344313 AATAAA
1 AATAAA
11344319 AATATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (12 bp):
AATAAATAAATG
Found at i:11344357 original size:26 final size:25
Alignment explanation
Indices: 11344288--11344350 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
11344278 TGACAATGTA
*
11344288 AATAAATAA-ATGAATAA-ATAAAATG
1 AATAAA-AATATGAA-AATATAAAAAG
11344313 AATAAAAATATGAAAATATAAAAAG
1 AATAAAAATATGAAAATATAAAAAG
*
11344338 ATATATAAATATG
1 A-ATAAAAATATG
11344351 TACATATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 4 0.12
25 19 0.58
26 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (25 bp):
AATAAAAATATGAAAATATAAAAAG
Found at i:11344992 original size:21 final size:21
Alignment explanation
Indices: 11344929--11344997 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
11344919 TAAAAAAAAT
*
11344929 AATAGTGATAACAGTATTAAA
1 AATAATGATAACAGTATTAAA
* * * *
11344950 TATAATAATAATAGTAGTAAA
1 AATAATGATAACAGTATTAAA
*
11344971 AATAATGATAACATTATTAAA
1 AATAATGATAACAGTATTAAA
*
11344992 ATTAAT
1 AATAAT
11344998 TAATAGCAAC
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (21 bp):
AATAATGATAACAGTATTAAA
Found at i:11347435 original size:18 final size:19
Alignment explanation
Indices: 11347414--11347462 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
11347404 ACACAACTAC
*
11347414 ATAATATTAA-ATTCTAAA
1 ATAATATTAATATTATAAA
11347432 ATAATATTAATTATTATAAA
1 ATAATATTAA-TATTATAAA
11347452 AT-ATATTAATA
1 ATAATATTAATA
11347463 ATACTTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 12 0.43
19 7 0.25
20 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATATTAATATTATAAA
Found at i:11348585 original size:16 final size:17
Alignment explanation
Indices: 11348564--11348596 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11348554 TTTTGTCATA
11348564 TAAAG-ATAAATATTTT
1 TAAAGAATAAATATTTT
11348580 TAAAGAATAAATATTTT
1 TAAAGAATAAATATTTT
11348597 ATATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TAAAGAATAAATATTTT
Found at i:11350859 original size:69 final size:69
Alignment explanation
Indices: 11350790--11351074 Score: 277
Period size: 69 Copynumber: 4.1 Consensus size: 69
11350780 CTGACCCTCC
* *
11350790 TTATCGCCTTTTCCACCATCTGCCTTTCC-CCTGGCTTCAAACTGCGAATCTTCCTTACCCTTTT
1 TTATCACCTTTTCCACCATCTGCCTTTCCTCC-GGCTTCAAACTGCGATTCTTCCTTACCCTTTT
*
11350854 GCTCC
65 GCTCA
** ** ** * * * *
11350859 TTATCACCTTTTGTACTGTCCACTTTTCCTCCGGCTTCAAACCGCGATTCGTCCTTACCCTTGTG
1 TTATCACCTTTTCCACCATCTGCCTTTCCTCCGGCTTCAAACTGCGATTCTTCCTTACCCTTTTG
11350924 CTCA
66 CTCA
* * * * * *
11350928 TTATCACCTTTTCCACCATCTGCCTTTCCTACGGCATCAAAATGTGATTCTTGCTTAGCCTTTTG
1 TTATCACCTTTTCCACCATCTGCCTTTCCTCCGGCTTCAAACTGCGATTCTTCCTTACCCTTTTG
*
11350993 CACA
66 CTCA
* * * * * ** *
11350997 TTATCACCTTCTCCACTATCGGTCTTTCCTCCGGCTTC-AACATGTGATTCTTCCCGACCCTTGT
1 TTATCACCTTTTCCACCATCTGCCTTTCCTCCGGCTTCAAAC-TGCGATTCTTCCTTACCCTTTT
11351061 GCTCA
65 GCTCA
*
11351066 ATATCACCT
1 TTATCACCT
11351075 CGTTGTTCAT
Statistics
Matches: 170, Mismatches: 44, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
68 2 0.01
69 166 0.98
70 2 0.01
ACGTcount: A:0.16, C:0.35, G:0.12, T:0.37
Consensus pattern (69 bp):
TTATCACCTTTTCCACCATCTGCCTTTCCTCCGGCTTCAAACTGCGATTCTTCCTTACCCTTTTG
CTCA
Found at i:11351046 original size:138 final size:138
Alignment explanation
Indices: 11350790--11351074 Score: 324
Period size: 138 Copynumber: 2.1 Consensus size: 138
11350780 CTGACCCTCC
* * * *
11350790 TTATCGCCTTTTCCACCATCTGCCTTTCCCCTGGCTTCAAACTGCGAATCTTCCTTACCCTTTTG
1 TTATCACCTTTTCCACCATCTGCCTTTCCACTGGCATCAAAATGCGAATCTTCCTTACCCTTTTG
* * * ** * **
11350855 CTCCTTATCACCTTTTGTACTGTCCACTTTTCCTCCGGCTTCAAACCGCGATTCGTCCTTACCCT
66 CACATTATCACCTTCTCCACTATCCACTTTTCCTCCGGCTTCAAACCGCGATTCGTCCCGACCCT
11350920 TGTGCTCA
131 TGTGCTCA
* * * *
11350928 TTATCACCTTTTCCACCATCTGCCTTTCCTAC-GGCATCAAAATGTGATTCTTGCTTAGCCTTTT
1 TTATCACCTTTTCCACCATCTGCCTTTCC-ACTGGCATCAAAATGCGAATCTTCCTTACCCTTTT
** * * *
11350992 GCACATTATCACCTTCTCCACTAT-CGGTCTTTCCTCCGGCTTC-AACATGTGATTCTTCCCGAC
65 GCACATTATCACCTTCTCCACTATCCACT-TTTCCTCCGGCTTCAAAC-CGCGATTCGTCCCGAC
11351055 CCTTGTGCTCA
128 CCTTGTGCTCA
*
11351066 ATATCACCT
1 TTATCACCT
11351075 CGTTGTTCAT
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
137 5 0.04
138 116 0.95
139 1 0.01
ACGTcount: A:0.16, C:0.35, G:0.12, T:0.37
Consensus pattern (138 bp):
TTATCACCTTTTCCACCATCTGCCTTTCCACTGGCATCAAAATGCGAATCTTCCTTACCCTTTTG
CACATTATCACCTTCTCCACTATCCACTTTTCCTCCGGCTTCAAACCGCGATTCGTCCCGACCCT
TGTGCTCA
Found at i:11352368 original size:15 final size:15
Alignment explanation
Indices: 11352345--11352374 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11352335 AATATAATAT
*
11352345 GAAATTAAAAAAAAA
1 GAAAATAAAAAAAAA
11352360 GAAAATAAAAAAAAA
1 GAAAATAAAAAAAAA
11352375 TAGGGTGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
GAAAATAAAAAAAAA
Found at i:11353052 original size:24 final size:24
Alignment explanation
Indices: 11353020--11353067 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11353010 GATCTACAGG
11353020 AAGGAATCAAGTCGGAGGTACGTA
1 AAGGAATCAAGTCGGAGGTACGTA
11353044 AAGGAATCAAGTCGGAGGTACGTA
1 AAGGAATCAAGTCGGAGGTACGTA
11353068 CAAAACTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.33, T:0.17
Consensus pattern (24 bp):
AAGGAATCAAGTCGGAGGTACGTA
Found at i:11356678 original size:31 final size:31
Alignment explanation
Indices: 11356642--11356701 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
11356632 AGGGTATAAA
*
11356642 AAAAGGATTAG-GGGATTTTGTTTAAGGTTGG
1 AAAAGGATTAGAGAG-TTTTGTTTAAGGTTGG
*
11356673 AAAAGGATTAGAGAGTTTTGTTTAGGGTT
1 AAAAGGATTAGAGAGTTTTGTTTAAGGTT
11356702 TAAAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (31 bp):
AAAAGGATTAGAGAGTTTTGTTTAAGGTTGG
Found at i:11357246 original size:16 final size:17
Alignment explanation
Indices: 11357214--11357247 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11357204 TGTAATGATA
*
11357214 TTGTTATACTATATTTG
1 TTGTAATACTATATTTG
11357231 TTGTAATACT-TATTTG
1 TTGTAATACTATATTTG
11357247 T
1 T
11357248 ATTACATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (17 bp):
TTGTAATACTATATTTG
Found at i:11361306 original size:24 final size:24
Alignment explanation
Indices: 11361259--11361304 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11361249 TCGTTCTGTG
*
11361259 GCAAAGGATGAATTGACAGTAAAT
1 GCAAAGGATGAATTGACAGAAAAT
11361283 GCAAAGGATGAATTGAC-GAAAA
1 GCAAAGGATGAATTGACAGAAAA
11361305 ATTACCCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.48, C:0.09, G:0.26, T:0.17
Consensus pattern (24 bp):
GCAAAGGATGAATTGACAGAAAAT
Found at i:11366962 original size:96 final size:96
Alignment explanation
Indices: 11366814--11367022 Score: 251
Period size: 96 Copynumber: 2.2 Consensus size: 96
11366804 GTGTCCTAGG
** * * *
11366814 GTTTGGCTATGGCATTGGGCAGTCTGCCCAAGGGTGTGGTGACTTCCGGTTTGACCATGGCATTT
1 GTTTGGCTATGGCATTGAACAATCTGCCCAAGGGCGTGGAGACTTCCGGTTTGACCATGGCA-TT
* * * *
11366879 G-GCAGTCTGCCCATGAGTGTGGTGGGTTCCC
65 GAACAGTCTGCCCATGAGTGTGATGGCTTCCA
** * *
11366910 GTTTGGCTATGGCATTGAACAATCTGCCCATA-GGCGTGGAGGGTTCCTGTTTGGCCATGGCATT
1 GTTTGGCTATGGCATTGAACAATCTGCCCA-AGGGCGTGGAGACTTCCGGTTTGACCATGGCATT
*
11366974 GAACAGTCTGCCCATGGGTGTGATGGCTTCCA
65 GAACAGTCTGCCCATGAGTGTGATGGCTTCCA
*
11367006 GTTTGGCTGTGGCATTG
1 GTTTGGCTATGGCATTG
11367023 GGTAGTCTGG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
95 3 0.03
96 92 0.96
97 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.34, T:0.31
Consensus pattern (96 bp):
GTTTGGCTATGGCATTGAACAATCTGCCCAAGGGCGTGGAGACTTCCGGTTTGACCATGGCATTG
AACAGTCTGCCCATGAGTGTGATGGCTTCCA
Found at i:11367030 original size:48 final size:48
Alignment explanation
Indices: 11366814--11367037 Score: 218
Period size: 48 Copynumber: 4.7 Consensus size: 48
11366804 GTGTCCTAGG
* * * *
11366814 GTTTGGCTATGGCATTGGGCAGTCTGCCCAAGGGTGTGGTGACTTCCG
1 GTTTGGCTATGGCATTGGGCAGTCTGCCCATGGGTGTGATGGCTTCCA
* * * * * * *
11366862 GTTTGACCATGGCATTTGGCAGTCTGCCCATGAGTGTGGTGGGTTCCC
1 GTTTGGCTATGGCATTGGGCAGTCTGCCCATGGGTGTGATGGCTTCCA
** * * *
11366910 GTTTGGCTATGGCATTGAACAATCTGCCCATAGGCGTG-GA-GGGTTCCT
1 GTTTGGCTATGGCATTGGGCAGTCTGCCCAT-GG-GTGTGATGGCTTCCA
* **
11366958 GTTTGGCCATGGCATTGAACAGTCTGCCCATGGGTGTGATGGCTTCCA
1 GTTTGGCTATGGCATTGGGCAGTCTGCCCATGGGTGTGATGGCTTCCA
* * *
11367006 GTTTGGCTGTGGCATTGGGTAGTCTGGCCATG
1 GTTTGGCTATGGCATTGGGCAGTCTGCCCATG
11367038 ACCTTTAAAG
Statistics
Matches: 145, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
46 3 0.02
47 4 0.03
48 133 0.92
49 2 0.01
50 3 0.02
ACGTcount: A:0.14, C:0.21, G:0.34, T:0.30
Consensus pattern (48 bp):
GTTTGGCTATGGCATTGGGCAGTCTGCCCATGGGTGTGATGGCTTCCA
Found at i:11367901 original size:15 final size:15
Alignment explanation
Indices: 11367883--11367934 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
11367873 TACTAAAAAA
11367883 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
11367898 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
11367917 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
11367932 ATT
1 ATT
11367935 GATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:11369358 original size:21 final size:21
Alignment explanation
Indices: 11369333--11369410 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
11369323 ATATTCAAGG
11369333 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
11369354 ATATGCAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
11369373 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
11369397 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
11369411 GATTGTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 12 0.25
20 3 0.06
21 18 0.38
22 6 0.12
23 9 0.19
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:11369394 original size:17 final size:19
Alignment explanation
Indices: 11369332--11369387 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
11369322 AATATTCAAG
*
11369332 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
11369351 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
11369372 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
11369388 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
21 18 0.53
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:11376057 original size:44 final size:44
Alignment explanation
Indices: 11376009--11376151 Score: 137
Period size: 44 Copynumber: 3.2 Consensus size: 44
11375999 ATCACAAAGC
*
11376009 CTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAAATAACAGAT
1 CTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAGATAACAGAT
* * * * * * *
11376053 CTTGCCTTCCT-GTACTGACGGCGAAGCAGATCGAAGATACCAG-C
1 CTTGCCTTCCTGGT-TTG-CAGCGGAGCAGGTTGAAGATAACAGAT
* * * * *
11376097 CTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAGATAACAGAT
11376141 CTTGCCTTCCT
1 CTTGCCTTCCT
11376152 ACATCNNNNN
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
43 20 0.27
44 35 0.47
45 20 0.27
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (44 bp):
CTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAGATAACAGAT
Found at i:11376513 original size:42 final size:42
Alignment explanation
Indices: 11376458--11376605 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 42
11376448 CCCATACTGG
*
11376458 TGGCGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTAT
1 TGGCGAAATAGATCGAAAAAAGTAGATCTTGTCTTCATGTAT
* *
11376500 TGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
1 TGGCGAAATAGATCGAAAAAAGTAGATCTTGTCTTCATGTAT
* ** * *
11376542 CGGCATGAAATAGATC-AAAGGTAGTAGATATTGTCTTCCCATAT-T
1 TGGC--GAAATAGATCGAAA-AAAGTAGATCTTGTCTT--CATGTAT
11376587 GGTGGCGAAATAGATCGAA
1 --TGGCGAAATAGATCGAA
11376606 TATACAAGTC
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
42 42 0.48
43 2 0.02
44 23 0.26
45 11 0.13
46 6 0.07
47 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (42 bp):
TGGCGAAATAGATCGAAAAAAGTAGATCTTGTCTTCATGTAT
Found at i:11376998 original size:19 final size:19
Alignment explanation
Indices: 11376952--11377007 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
11376942 AATATTCAAG
*
11376952 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
11376971 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
11376992 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
11377008 AGATAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
21 18 0.53
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:11377224 original size:15 final size:15
Alignment explanation
Indices: 11377204--11377233 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11377194 CTTACTGTCT
*
11377204 TTTTTTATTTTTTTA
1 TTTTTTATTTATTTA
11377219 TTTTTTATTTATTTA
1 TTTTTTATTTATTTA
11377234 CGATTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTATTTA
Found at i:11378457 original size:29 final size:29
Alignment explanation
Indices: 11378401--11378458 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
11378391 GGCGACTCCC
* *
11378401 AATTTTTGTTTTTTTTTAAAGTCGAAAACT
1 AATTTTTGTTTTTTTTCAAAATC-AAAACT
*
11378431 AATTTTTGTTTTTTTTCCAAAATAAAAA
1 AATTTTTGTTTTTTTT-CAAAATCAAAA
11378459 ATGGTTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (29 bp):
AATTTTTGTTTTTTTTCAAAATCAAAACT
Found at i:11387362 original size:50 final size:50
Alignment explanation
Indices: 11387267--11387860 Score: 338
Period size: 50 Copynumber: 11.9 Consensus size: 50
11387257 GTGATGTATA
* * * * * *
11387267 GCTTCAATATTTTTAAACTCCAATGT-TGGGAAAGTAAGATTCGCCGTTGCG
1 GCTTCAAT-CTTTTCAACTGCAATGTCAGGG-AAGCAAGATTCGCCGTTGTG
* * * *
11387318 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTA
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
* ** * ** * * * ** *
11387368 GCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCATCGTTGCG
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
* * * * *
11387418 GCTTCAATCTTTTTAATTACAATGTCAGGGAA-CAAGATTCTCCGTTGTA
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
** * * * * * **
11387467 GCTTCAATCTAATCCACTGCATTGCCAGGAAAGTAAGATTCGCCGTTACG
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
* * * * * * * *
11387517 ACTTCAATATTTTAAATTGCAATATCAGGGAAGCAAGATTTGCCGTCGTA
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
* ** * * * * ** *
11387567 GCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCGCCATTGTG
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
* * * *
11387617 GCTTCAATCATTTT-AATTGCAATGTCGGGGAA-CAAGATTCGCTGTTGTA
1 GCTTCAATC-TTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
** * ** * * *
11387666 GCTTCAATCTGATCCACTGCACCG-CTAGGAAAGTAAGATTCGCCGTTGCG
1 GCTTCAATCTTTTCAACTGCAATGTC-AGGGAAGCAAGATTCGCCGTTGTG
* * * * *
11387716 GCTTCAATCTTTTAAATTGCAATGCCAGGGAAGCAAGATT-GACCGTCGTA
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCG-CCGTTGTG
* ** * * * * *
11387766 GCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGCG
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
* * * * *
11387816 GCTTTAATCTTTTAAATTGCAATGTCGGGGAA-CAAGATTCCCCGT
1 GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGT
11387861 CTTCGATCTG
Statistics
Matches: 386, Mismatches: 148, Indels: 20
0.70 0.27 0.04
Matches are distributed among these distances:
48 3 0.01
49 78 0.20
50 290 0.75
51 15 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTTTTCAACTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG
Found at i:11387415 original size:100 final size:99
Alignment explanation
Indices: 11387295--11387860 Score: 758
Period size: 100 Copynumber: 5.7 Consensus size: 99
11387285 TCCAATGTTG
* *
11387295 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAA-CAAGATTCG
*
11387360 CCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCA
65 CCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCA
** * * *
11387395 GGAAAGTAAGATTCATCGTTGCGGCTTCAATCTTTTTAATTACAATGTCAGGGAACAAGATTCTC
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAACAAGATTCGC
* ** *
11387460 CGTTGTAGCTTCAATCTAATCCACTGCATTGCCA
66 CGTTGTAGCTTTAATCTGCTCCACTGCACTGCCA
* * * * *
11387494 GGAAAGTAAGATTCGCCGTTACGACTTCAATATTTTAAATTGCAATATCAGGGAAGCAAGATTTG
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAA-CAAGATTCG
* *
11387559 CCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCA
65 CCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCA
* * * * *
11387594 GGGAAGTGAGATTCGCCATTGTGGCTTCAATCATTTT-AATTGCAATGTCGGGGAACAAGATTCG
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATC-TTTTAAATTGCAATGTCAGGGAACAAGATTCG
* * * * *
11387658 CTGTTGTAGCTTCAATCTGATCCACTGCACCGCTA
65 CCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCA
*
11387693 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGCCAGGGAAGCAAGATT-G
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAA-CAAGATTCG
*
11387757 ACCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCA
65 -CCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCA
* * * *
11387793 GGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTTTTAAATTGCAATGTCGGGGAACAAGATTCCC
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAACAAGATTCGC
11387858 CGT
66 CGT
11387861 CTTCGATCTG
Statistics
Matches: 400, Mismatches: 60, Indels: 13
0.85 0.13 0.03
Matches are distributed among these distances:
98 4 0.01
99 177 0.44
100 215 0.54
101 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (99 bp):
GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAACAAGATTCGC
CGTTGTAGCTTTAATCTGCTCCACTGCACTGCCA
Found at i:11387642 original size:199 final size:198
Alignment explanation
Indices: 11387295--11387860 Score: 846
Period size: 199 Copynumber: 2.8 Consensus size: 198
11387285 TCCAATGTTG
* * *
11387295 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATTTG
* * * **
11387360 CCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGAAAGTAAGATTCATCGTTGCGGCTTCAA
66 CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAA
* * * **
11387425 TCTTTTTAATTACAATGTCAGGGAACAAGATTCTCCGTTGTAGCTTCAATCTAATCCACTGCATT
131 TC-TTTTAATTGCAATGTCGGGGAACAAGATTCCCCGTTGTAGCTTCAATCTAATCCACTGCACC
11387490 GCCA
195 GCCA
* * * *
11387494 GGAAAGTAAGATTCGCCGTTACGACTTCAATATTTTAAATTGCAATATCAGGGAAGCAAGATTTG
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATTTG
* * * *
11387559 CCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCGCCATTGTGGCTTCAA
66 CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAA
* * *
11387624 TCATTTTAATTGCAATGTCGGGGAACAAGATTCGCTGTTGTAGCTTCAATCTGATCCACTGCACC
131 TC-TTTTAATTGCAATGTCGGGGAACAAGATTCCCCGTTGTAGCTTCAATCTAATCCACTGCACC
*
11387689 GCTA
195 GCCA
*
11387693 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGCCAGGGAAGCAAGA-TTG
1 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATTTG
*
11387757 ACCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTTA
66 -CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCA
11387822 ATCTTTTAAATTGCAATGTCGGGGAACAAGATTCCCCGT
130 ATCTTTT-AATTGCAATGTCGGGGAACAAGATTCCCCGT
11387861 CTTCGATCTG
Statistics
Matches: 328, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
198 7 0.02
199 321 0.98
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (198 bp):
GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCAAGATTTG
CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAA
TCTTTTAATTGCAATGTCGGGGAACAAGATTCCCCGTTGTAGCTTCAATCTAATCCACTGCACCG
CCA
Found at i:11389305 original size:21 final size:21
Alignment explanation
Indices: 11389279--11389321 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11389269 CTTTACTTTT
11389279 ATTTTTCGTTTGTTTTTTTCA
1 ATTTTTCGTTTGTTTTTTTCA
11389300 ATTTTTCGTTTGTTTTTTTCA
1 ATTTTTCGTTTGTTTTTTTCA
11389321 A
1 A
11389322 GTGAAGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (21 bp):
ATTTTTCGTTTGTTTTTTTCA
Found at i:11389786 original size:8 final size:8
Alignment explanation
Indices: 11389751--11389800 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
11389741 CCCGGTAGAG
11389751 GTTTTTTT
1 GTTTTTTT
11389759 GTTTCTTTT
1 GTTT-TTTT
*
11389768 GTCTCTTTT
1 GT-TTTTTT
11389777 GTTTTTTT
1 GTTTTTTT
**
11389785 GTTTTTGG
1 GTTTTTTT
11389793 GTTTTTTT
1 GTTTTTTT
11389801 TGCCTACGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 21 0.62
9 12 0.35
10 1 0.03
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.78
Consensus pattern (8 bp):
GTTTTTTT
Found at i:11390381 original size:17 final size:16
Alignment explanation
Indices: 11390359--11390394 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11390349 TTCAGAAAAG
11390359 AAATATATATATTTTAA
1 AAATAT-TATATTTTAA
*
11390376 AAATATTGTATTTTAA
1 AAATATTATATTTTAA
11390392 AAA
1 AAA
11390395 ATTTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATATTATATTTTAA
Found at i:11390777 original size:14 final size:15
Alignment explanation
Indices: 11390760--11390789 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11390750 AACATGGAAT
11390760 TTATTTTT-AAATTA
1 TTATTTTTGAAATTA
11390774 TTATTTTTGAAATTA
1 TTATTTTTGAAATTA
11390789 T
1 T
11390790 ACAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TTATTTTTGAAATTA
Found at i:11390945 original size:15 final size:15
Alignment explanation
Indices: 11390925--11390959 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11390915 AATTCAAGAA
* *
11390925 AAAATATAAAAATAT
1 AAAATAGAAAAATAG
11390940 AAAATAGAAAAATAG
1 AAAATAGAAAAATAG
11390955 AAAAT
1 AAAAT
11390960 TTCATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (15 bp):
AAAATAGAAAAATAG
Found at i:11398536 original size:16 final size:16
Alignment explanation
Indices: 11398515--11398566 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
11398505 TTTGGTTCGC
11398515 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11398531 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11398547 TGTATTTGATTAGAGG
1 TGTATTGGATTAGAGG
11398563 TGTA
1 TGTA
11398567 ATAGCAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11407547 original size:28 final size:28
Alignment explanation
Indices: 11407497--11407550 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
11407487 AAAATTGAAC
*
11407497 GTCAATTTCTGTTTCTCTTTTTTTTTCT
1 GTCAAATTCTGTTTCTCTTTTTTTTTCT
*
11407525 GTCAAATTCT-TTTTTCTTGTTTTTTT
1 GTCAAATTCTGTTTCTCTT-TTTTTTT
11407551 TTTATTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.09, C:0.15, G:0.07, T:0.69
Consensus pattern (28 bp):
GTCAAATTCTGTTTCTCTTTTTTTTTCT
Found at i:11412494 original size:116 final size:116
Alignment explanation
Indices: 11412350--11412593 Score: 472
Period size: 116 Copynumber: 2.1 Consensus size: 116
11412340 TTGATAGAGT
11412350 TAAAAAAATTATAGTCAATCACAAAGCGCCACGTGATGGCTTTATCTACAAAAACAAATATATTC
1 TAAAAAAATTA-AGTCAATCACAAAGCGCCACGTGATGGCTTTATCTACAAAAACAAATATATTC
11412415 TTTTATTAAATGCATATACATATTAAAAAATATGAAAATAGAAATAAGTATA
65 TTTTATTAAATGCATATACATATTAAAAAATATGAAAATAGAAATAAGTATA
11412467 TAAAAAAATTAAGTCAATCACAAAGCGCCACGTGATGGCTTTATCTACAAAAACAAATATATTCT
1 TAAAAAAATTAAGTCAATCACAAAGCGCCACGTGATGGCTTTATCTACAAAAACAAATATATTCT
11412532 TTTATTAAATGCATATACATATTAAAAAATATGAAAATAGAAATAAGTATA
66 TTTATTAAATGCATATACATATTAAAAAATATGAAAATAGAAATAAGTATA
11412583 T-AAAAAATTAA
1 TAAAAAAATTAA
11412594 AAATATATAT
Statistics
Matches: 127, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
115 10 0.08
116 106 0.83
117 11 0.09
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (116 bp):
TAAAAAAATTAAGTCAATCACAAAGCGCCACGTGATGGCTTTATCTACAAAAACAAATATATTCT
TTTATTAAATGCATATACATATTAAAAAATATGAAAATAGAAATAAGTATA
Found at i:11412602 original size:18 final size:18
Alignment explanation
Indices: 11412579--11412635 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
11412569 TAGAAATAAG
*
11412579 TATATAAAAAATTAAAAA
1 TATATATAAAATTAAAAA
* * *
11412597 TATATATAATACTGAAAA
1 TATATATAAAATTAAAAA
*
11412615 TATATATAAATTATAAAAA
1 TATATATAAAAT-TAAAAA
11412634 TA
1 TA
11412636 AAATTTACAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TATATATAAAATTAAAAA
Found at i:11412888 original size:13 final size:13
Alignment explanation
Indices: 11412872--11412922 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
11412862 AAATATTTAA
*
11412872 TATTATAATTTTT
1 TATTTTAATTTTT
*
11412885 TATTTTAAATTTT
1 TATTTTAATTTTT
* **
11412898 AATTTTAATTTAA
1 TATTTTAATTTTT
11412911 TATTTTAATTTT
1 TATTTTAATTTT
11412923 AAATAAATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTTAATTTTT
Found at i:11412901 original size:6 final size:6
Alignment explanation
Indices: 11412867--11412924 Score: 53
Period size: 6 Copynumber: 8.8 Consensus size: 6
11412857 TATTTAAATA
* *
11412867 TTTAAT ATTATAATT TTTTAT TTTAAAT TTTAAT TTTAAT TTAATAT TTTAAT
1 TTTAAT -TT-TAA-T TTTAAT TTT-AAT TTTAAT TTTAAT TTTA-AT TTTAAT
11412920 TTTAA
1 TTTAA
11412925 ATAAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
6 23 0.53
7 14 0.33
8 5 0.12
9 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:11416068 original size:18 final size:18
Alignment explanation
Indices: 11416045--11416079 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11416035 AATTACATAC
*
11416045 ATTTTTTAATTTAAAAAT
1 ATTTTTAAATTTAAAAAT
11416063 ATTTTTAAATTTAAAAA
1 ATTTTTAAATTTAAAAA
11416080 AAATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTAAATTTAAAAAT
Found at i:11416112 original size:36 final size:38
Alignment explanation
Indices: 11416060--11416154 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
11416050 TTAATTTAAA
* *
11416060 AATA-TTTTTAAATTTAAAAAAA-ATTA-AATA-TTTTT
1 AATATTTTTTAATTTTAAAAAAATATTATAA-ACATTTT
*
11416095 AATATTTTTTAATTTTAAAATAAATTTTATAAACATTTT
1 AATATTTTTTAATTTTAAAA-AAATATTATAAACATTTT
*
11416134 GA-ATTTTTTAATTTTAAAAAA
1 AATATTTTTTAATTTTAAAAAA
11416155 TTAATTGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
35 4 0.08
36 14 0.27
37 5 0.10
38 21 0.41
39 7 0.14
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (38 bp):
AATATTTTTTAATTTTAAAAAAATATTATAAACATTTT
Found at i:11431350 original size:22 final size:23
Alignment explanation
Indices: 11431322--11431380 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
11431312 AATTAGTTGC
**
11431322 TTTGTTGTTATTTCGT-TATTGT
1 TTTGTTGTTATTTCGTCTATTAA
*
11431344 TTTGTTGTCATTTC-TCTATTAA
1 TTTGTTGTTATTTCGTCTATTAA
*
11431366 TTTATTGTTATTTCG
1 TTTGTTGTTATTTCG
11431381 CTGTTATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.64
Consensus pattern (23 bp):
TTTGTTGTTATTTCGTCTATTAA
Found at i:11437133 original size:6 final size:6
Alignment explanation
Indices: 11437122--11437178 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
11437112 ATAATGTTGC
11437122 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
11437170 TCTGAT TCT
1 TCTGAT TCT
11437179 TCACCTTTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.51
Consensus pattern (6 bp):
TCTGAT
Found at i:11444098 original size:42 final size:42
Alignment explanation
Indices: 11444053--11444207 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
11444043 CCGAAGGCTG
* * *
11444053 AACAGAAGCTCATGAGAGCTAAACGGAAACCCGTAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
* * * *
11444095 AACAAAAGCTCGTAAGAGCTGAACGAAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
11444137 AACAGAAGCTCAAAAGAGCTGAACGGAAACCCAT-AGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
* * * * *
11444178 AACGGAAACTCATATGAGTTAAACAGAAAC
1 AACAGAAGCTCATAAGAGCTAAACGGAAAC
11444208 TTGTGAAAGC
Statistics
Matches: 95, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 30 0.32
42 65 0.68
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:11444110 original size:21 final size:21
Alignment explanation
Indices: 11444084--11444147 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
11444074 AACGGAAACC
11444084 CGTAAGGGTTGAACAAAAGCT
1 CGTAAGGGTTGAACAAAAGCT
* * *
11444105 CGTAAGAGCTGAACGAAAA-CC
1 CGTAAGGGTTGAAC-AAAAGCT
* * *
11444126 CATAAGGGTTAAACAGAAGCT
1 CGTAAGGGTTGAACAAAAGCT
11444147 C
1 C
11444148 AAAAGAGCTG
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
20 3 0.09
21 25 0.78
22 4 0.12
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.16
Consensus pattern (21 bp):
CGTAAGGGTTGAACAAAAGCT
Found at i:11444183 original size:20 final size:21
Alignment explanation
Indices: 11444158--11444207 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
11444148 AAAAGAGCTG
*
11444158 AACGGAAACCCATA-GGGTTA
1 AACGGAAACCCATATGAGTTA
*
11444178 AACGGAAACTCATATGAGTTA
1 AACGGAAACCCATATGAGTTA
*
11444199 AACAGAAAC
1 AACGGAAAC
11444208 TTGTGAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (21 bp):
AACGGAAACCCATATGAGTTA
Found at i:11444200 original size:21 final size:20
Alignment explanation
Indices: 11444158--11444208 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
11444148 AAAAGAGCTG
* *
11444158 AACGGAAACCCATAGGGTTA
1 AACGGAAACTCATAGAGTTA
11444178 AACGGAAACTCATATGAGTTA
1 AACGGAAACTCATA-GAGTTA
*
11444199 AACAGAAACT
1 AACGGAAACT
11444209 TGTGAAAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (20 bp):
AACGGAAACTCATAGAGTTA
Found at i:11446674 original size:23 final size:23
Alignment explanation
Indices: 11446644--11446694 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
11446634 TAACAGACAG
*
11446644 TGGTTGGTTAATTTCTATGAGGT
1 TGGTTGGTTAATTTCCATGAGGT
*
11446667 TGGTTGGTTGATTTCCATGAGGT
1 TGGTTGGTTAATTTCCATGAGGT
11446690 TGGTT
1 TGGTT
11446695 AACCTTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.14, C:0.06, G:0.33, T:0.47
Consensus pattern (23 bp):
TGGTTGGTTAATTTCCATGAGGT
Found at i:11449140 original size:13 final size:13
Alignment explanation
Indices: 11449124--11449171 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
11449114 ACGGTGTTGC
11449124 AGAACGAATGAAT
1 AGAACGAATGAAT
11449137 AGAACGATCATGAAT
1 AGAACGA--ATGAAT
*
11449152 AGAATGAATGAAT
1 AGAACGAATGAAT
11449165 AGAACGA
1 AGAACGA
11449172 TCATGAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 19 0.61
15 12 0.39
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17
Consensus pattern (13 bp):
AGAACGAATGAAT
Found at i:11449151 original size:15 final size:15
Alignment explanation
Indices: 11449131--11449178 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
11449121 TGCAGAACGA
11449131 ATGAATAGAACGATC
1 ATGAATAGAACGATC
*
11449146 ATGAATAGAATGA--
1 ATGAATAGAACGATC
11449159 ATGAATAGAACGATC
1 ATGAATAGAACGATC
11449174 ATGAA
1 ATGAA
11449179 GAAGGTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.41
15 17 0.59
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (15 bp):
ATGAATAGAACGATC
Found at i:11449160 original size:28 final size:28
Alignment explanation
Indices: 11449124--11449178 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
11449114 ACGGTGTTGC
11449124 AGAACGAATGAATAGAACGATCATGAAT
1 AGAACGAATGAATAGAACGATCATGAAT
*
11449152 AGAATGAATGAATAGAACGATCATGAA
1 AGAACGAATGAATAGAACGATCATGAA
11449179 GAAGGTTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.22, T:0.18
Consensus pattern (28 bp):
AGAACGAATGAATAGAACGATCATGAAT
Found at i:11466692 original size:3 final size:3
Alignment explanation
Indices: 11466684--11466712 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11466674 AATAAGTAGG
11466684 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11466713 GGACTGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11467324 original size:19 final size:19
Alignment explanation
Indices: 11467273--11467324 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
11467263 CAAATAACTC
11467273 GAAAAAGAAAA-AAAAATA
1 GAAAAAGAAAATAAAAATA
* *
11467291 GAGAAAA-AAATTAAAATTA
1 GA-AAAAGAAAATAAAAATA
11467310 GAAAAAGAAAATAAA
1 GAAAAAGAAAATAAA
11467325 TATACCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
GAAAAAGAAAATAAAAATA
Found at i:11478576 original size:3 final size:3
Alignment explanation
Indices: 11478568--11478619 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
11478558 TTTAGACAGT
11478568 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
11478616 AGA A
1 AGA A
11478620 ATAGAGATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11479709 original size:21 final size:21
Alignment explanation
Indices: 11479660--11479730 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
11479650 ATCTTATTGG
*
11479660 TGAGTTGGGGTAGTTTGTTGA
1 TGAGTTGGGGTAGTCTGTTGA
* * * *
11479681 AGATTTGGGGTAGTCTCTTGT
1 TGAGTTGGGGTAGTCTGTTGA
* * *
11479702 TGAGTTGGGTTAGCCTGTTGC
1 TGAGTTGGGGTAGTCTGTTGA
11479723 TGAGTTGG
1 TGAGTTGG
11479731 AACAACCACT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.13, C:0.07, G:0.39, T:0.41
Consensus pattern (21 bp):
TGAGTTGGGGTAGTCTGTTGA
Found at i:11481919 original size:20 final size:19
Alignment explanation
Indices: 11481859--11481919 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
11481849 CTTTGAAACA
11481859 ATTTTAAAATCAAGTGCAAATG
1 ATTTT-AAA-CAAGT-CAAATG
* *
11481881 ATTTTAACCAAGTTAAAATG
1 ATTTTAAACAAG-TCAAATG
11481901 ATTTTCAAACAAGTCAAAT
1 ATTTT-AAACAAGTCAAAT
11481920 TTGCTCCAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 19 0.58
21 9 0.27
22 5 0.15
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTTTAAACAAGTCAAATG
Found at i:11484813 original size:2 final size:2
Alignment explanation
Indices: 11484806--11484837 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11484796 ATAGGATAGA
*
11484806 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11484838 GGTGCATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11486103 original size:3 final size:3
Alignment explanation
Indices: 11486091--11486140 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
11486081 AATGAAAACT
* *
11486091 ATA A-A ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11486138 ATA
1 ATA
11486141 TTAACGAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:11487470 original size:22 final size:23
Alignment explanation
Indices: 11487442--11487487 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
11487432 GGGCTTTATT
11487442 TATTTGGTTT-TTATATTT-TTTG
1 TATTTGGTTTATTAT-TTTCTTTG
11487464 TATTTGGTTTATTATTTTCTTTG
1 TATTTGGTTTATTATTTTCTTTG
11487487 T
1 T
11487488 GTATGCGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.13, C:0.02, G:0.13, T:0.72
Consensus pattern (23 bp):
TATTTGGTTTATTATTTTCTTTG
Found at i:11487938 original size:45 final size:44
Alignment explanation
Indices: 11487719--11488354 Score: 335
Period size: 44 Copynumber: 14.4 Consensus size: 44
11487709 CTTTCTTCTG
*
11487719 TCTGCTCCACTGCAACTTCAGGG-GTATAAGATCTGCTTGC-TTAG
1 TCTGCTCCACTGCAACTTCAGGGAG-ATAAGAT-TGCTTGCTTTAA
* ** * * * * *
11487763 TTTGCTCTGCTACAACTTTAGGGAGATAAGACTAG-ATGC---GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTTGCTTTAA
* * * **
11487804 TTTGCT-CTCTGCAACTTCAGAGAGATAAGATCTG-TCACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTTGCTTTAA
* * * * *
11487847 TCTGCTCCGCTACAACTTCAGGGAAATATGATT-ATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTT-GCTTTAA
* * *
11487891 TCTGATCCACTGCAACTTCAGGAAGCTAAGATTCGCTTGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTTGCTTTAA
* * ** * *
11487936 TCTGCCCCACTGTAACTTCAGCGG-GATAAGATT-CGTTTATTCAG
1 TCTGCTCCACTGCAACTTCAG-GGAGATAAGATTGC-TTGCTTTAA
* * * * *
11487980 TTTGCTCCGCTACAACTTCAGGGAGATAGGATT-ATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTT-GCTTTAA
* * * *
11488024 TCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTTAC-TCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTTGCTTTAA
* ** *
11488068 TCTACTCTGCTGCAACATCAGGGAGATAAGACTTGCTAT-CTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCT-TGCTTTAA
* * *
11488113 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTTGCTAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCT-TGCTTTAA
* * * * *
11488158 TCTGCTCCGCTGCAACTTCAGAGAGATAAGACTTACTAT-ATTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCT-TGCTTTAA
* * * *
11488203 TCTGCTCCACTGAAACTTCAGGGAGATAGGATTTG-TAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCT-TGCTTTAA
* * * * * * *
11488247 CCAGCCCCACTACAACTTCAGGTG-GATAAGGTTTGCTAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGG-GAGATAA-GATTGCT-TGCTTTAA
* *
11488292 TCTGCTCCACTGCAACCTT-AGGGAGATAAGACTTGCTAT-CCTCAA
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGA-TTGCT-TGCTTTAA
*
11488337 TCCGCTCCACTGCAACTT
1 TCTGCTCCACTGCAACTT
11488355 TAAAGAGATA
Statistics
Matches: 459, Mismatches: 108, Indels: 50
0.74 0.18 0.08
Matches are distributed among these distances:
39 1 0.00
40 21 0.05
41 6 0.01
43 16 0.03
44 207 0.45
45 200 0.44
46 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTTGCTTTAA
Found at i:11487996 original size:89 final size:88
Alignment explanation
Indices: 11487699--11488322 Score: 409
Period size: 89 Copynumber: 7.1 Consensus size: 88
11487689 CCACTGTGAC
* * * * *
11487699 GATAGGATTTCTTTCTTCTGTCTGCTCCACTGCAACTTCAGGG-GTATAAGATCTGCTTGC-TTA
1 GATAAGATTTGTTTATTCAGTCTGCTCCGCTGCAACTTCAGGGAG-ATAAGAT-TGCTTGCTTTA
* * ** * *
11487762 GTTTGCTCTGCTACAACTTTAGGGA
64 ATCTGCTCCACTGCAACTTCAGGGA
* * * * * * **
11487787 GATAAGACTAG---ATGC-GATTTGCT-CTCTGCAACTTCAGAGAGATAAGATCTG-TCACTTTA
1 GATAAGATTTGTTTATTCAG-TCTGCTCCGCTGCAACTTCAGGGAGATAAGAT-TGCTTGCTTTA
* *
11487846 ATCTGCTCCGCTACAACTTCAGGGA
64 ATCTGCTCCACTGCAACTTCAGGGA
* * ** * * * * *
11487871 AATATGATTATTGGCT-TT-AATCTGATCCACTGCAACTTCAGGAAGCTAAGATTCGCTTGCTTT
1 GATAAGA-T-TTGTTTATTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGATT-GCTTGCTTT
* *
11487934 AATCTGCCCCACTGTAACTTCAGCGG-
63 AATCTGCTCCACTGCAACTTCAG-GGA
* * * * *
11487960 GATAAGATTCGTTTATTCAGTTTGCTCCGCTACAACTTCAGGGAGATAGGATT-ATTGGCTTTAA
1 GATAAGATTTGTTTATTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGCTT-GCTTTAA
*
11488024 TCTACTCCACTGCAACTTCAGGGA
65 TCTGCTCCACTGCAACTTCAGGGA
* * * * *
11488048 GATAAGATTTGCTTACTCAGTCTACTCTGCTGCAACATCAGGGAGATAAGACTTGCTAT-CTTTA
1 GATAAGATTTGTTTATTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGA-TTGCT-TGCTTTA
11488112 ATCTGCTCCACTGCAACTTCAGGGA
64 ATCTGCTCCACTGCAACTTCAGGGA
* * * * * * *
11488137 GATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGACTTACTAT-ATTC
1 GATAAGATTTG-TTTATTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGA-TTGCT-TGCTTT
*
11488201 AATCTGCTCCACTGAAACTTCAGGGA
63 AATCTGCTCCACTGCAACTTCAGGGA
* * * * * * * * * *
11488227 GATAGGATTTGTATCTTCAGCCAGCCCCACTACAACTTCAGGTG-GATAAGGTTTGCTAT-CTTC
1 GATAAGATTTGTTTATTCAGTCTGCTCCGCTGCAACTTCAGG-GAGATAA-GATTGCT-TGCTTT
*
11488290 AGTCTGCTCCACTGCAACCTT-AGGGA
63 AATCTGCTCCACTGCAA-CTTCAGGGA
11488316 GATAAGA
1 GATAAGA
11488323 CTTGCTATCC
Statistics
Matches: 426, Mismatches: 86, Indels: 47
0.76 0.15 0.08
Matches are distributed among these distances:
83 2 0.00
84 54 0.13
85 8 0.02
86 2 0.00
87 12 0.03
88 100 0.23
89 162 0.38
90 85 0.20
91 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (88 bp):
GATAAGATTTGTTTATTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGCTTGCTTTAAT
CTGCTCCACTGCAACTTCAGGGA
Found at i:11488119 original size:133 final size:132
Alignment explanation
Indices: 11487808--11488145 Score: 373
Period size: 133 Copynumber: 2.5 Consensus size: 132
11487798 ATGCGATTTG
*
11487808 CTCTCTGCAACTTCAGAGAGATAAGATCTG-TCA-CTTTAATCTGCTCCGCTACAACTTCAGGGA
1 CTCTCTGCAACTTCAGGGAGATAAGAT-TGCT-ATCTTTAATCTGCTCCGCTACAACTTCAGGGA
* * * * *
11487871 AATATGATTATTGGCTTTAATCTGATCCACTGCAACTTCAGGAAGCTAAGATTCGCTTGCTTTAA
64 GATAGGATTATTGGCTTTAATCTGATCCACTGCAACTTCAGGAAGATAAGATTCGCTTACTTCAA
*
11487936 TCTGC
129 TCT-A
* * * * * * * *
11487941 CCCACTGTAACTTCAGCGG-GATAAGATT-CGTTTATTCAGTTTGCTCCGCTACAACTTCAGGGA
1 CTCTCTGCAACTTCAG-GGAGATAAGATTGC-TATCTTTAATCTGCTCCGCTACAACTTCAGGGA
* *
11488004 GATAGGATTATTGGCTTTAATCT-ACTCCACTGCAACTTCAGGGAGATAAGATTTGCTTAC-TCA
64 GATAGGATTATTGGCTTTAATCTGA-TCCACTGCAACTTCAGGAAGATAAGATTCGCTTACTTCA
*
11488067 GTCTA
128 ATCTA
* * *
11488072 CTCTGCTGCAACATCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCT-CTGCAACTTCAGGGAGATAAGA-TTGCTATCTTTAATCTGCTCCGCTACAACTTCAGGGA
11488137 GATAGGATT
64 GATAGGATT
11488146 TGCTATCTTC
Statistics
Matches: 167, Mismatches: 29, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
131 4 0.02
132 24 0.14
133 137 0.82
134 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
CTCTCTGCAACTTCAGGGAGATAAGATTGCTATCTTTAATCTGCTCCGCTACAACTTCAGGGAGA
TAGGATTATTGGCTTTAATCTGATCCACTGCAACTTCAGGAAGATAAGATTCGCTTACTTCAATC
TA
Found at i:11488243 original size:134 final size:134
Alignment explanation
Indices: 11487812--11488372 Score: 444
Period size: 134 Copynumber: 4.2 Consensus size: 134
11487802 GATTTGCTCT
* * * * * * * *
11487812 CTGCAACTTCAGAGAGATAAGATCTGTCA-CTTTAATCTGCTCCGCTACAACTTCAGGGAAATAT
1 CTGCAACTTCAGGGAGATAGGATTTGT-ATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAG
** * * * * * * *
11487876 GATTAT--TGGCTTTAATCTGATCCACTGCAACTTCAGGAAGCTAAGA-TTCGCT-TGCTTTAAT
65 GATT-TGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATAC-TCAAT
*
11487937 CTGCCCCA
127 CTGCTCCA
* * * * * *** *
11487945 CTGTAACTTCAGCGG-GATAAGATTCGTTTATTCAGTTTGCTCCGCTACAACTTCAGGGAGATAG
1 CTGCAACTTCAG-GGAGATAGGATTTGTATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAG
** * * * * *
11488009 GATTAT--TGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCT-TACTCAGTCT
65 GATT-TGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATACTCAATCT
* **
11488071 ACTCTG
129 GCTCCA
* * * * * *
11488077 CTGCAACATCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAG
1 CTGCAACTTCAGGGAGATAGGATTTG-TATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAG
* * * *
11488142 GATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGACTTACTATATTCAATCTG
65 GATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATACTCAATCTG
11488207 CTCCA
130 CTCCA
* * * *
11488212 CTGAAACTTCAGGGAGATAGGATTTGTATCTTCAGCCAGCCCCACTACAACTTCAGGTG-GATAA
1 CTGCAACTTCAGGGAGATAGGATTTGTATCTTCAACCTGCTCCACTACAACTTCAGG-GAGAT-A
*
11488276 GG-TTTGCTATCTTCAGTCTGCTCCACTGCAACCTT-AGGGAGATAAGACTTGCTATCCTCAATC
64 GGATTTGCTATCTTCAGTCTGCTCCACTGCAA-CTTCAGGGAGATAAGACTTGCTATACTCAATC
*
11488339 CGCTCCA
128 TGCTCCA
* **
11488346 CTGCAACTTTAAAGAGATAGGATTTGT
1 CTGCAACTTCAGGGAGATAGGATTTGT
11488373 GGTTTCACCG
Statistics
Matches: 350, Mismatches: 67, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
131 2 0.01
132 27 0.08
133 132 0.38
134 149 0.43
135 40 0.11
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (134 bp):
CTGCAACTTCAGGGAGATAGGATTTGTATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAGG
ATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATACTCAATCTGC
TCCA
Found at i:11488285 original size:179 final size:178
Alignment explanation
Indices: 11487930--11488369 Score: 444
Period size: 179 Copynumber: 2.5 Consensus size: 178
11487920 GATTCGCTTG
* * * * * * *
11487930 CTTTAATCTGCCCCACTGTAACTTCAGCGG-GATAAGATTCG-TTTATTCAGTTTGCTCCGCTAC
1 CTTTAATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTTGCTATCTTCAGTCTGCTCCGCTGC
* * * * * * *
11487993 AACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
65 AACTTCAGAGAGATAAGATTACTAGATTCAATCTACTCCACTGAAACTTCAGGGAGATAAGATTT
* * ** *
11488058 GCTTACTCAGTCTACTCTGCTGCAACATCAGGGAGATAAGACTTGCTAT
130 GCTTACTCAGTCCACCCCACTACAACATCAGGGAGATAAGACTTGCTAT
*
11488107 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCA
* * *
11488172 ACTTCAGAGAGATAAGACTTACTATATTCAATCTGCTCCACTGAAACTTCAGGGAGATAGGATTT
66 ACTTCAGAGAGATAAGA-TTACTAGATTCAATCTACTCCACTGAAACTTCAGGGAGATAAGATTT
* **
11488237 G--TATCTTCAG-CCAGCCCCACTACAACTTCAGGTG-GATAAGGTTTGCTAT
130 GCTTA-C-TCAGTCCA-CCCCACTACAACATCAGG-GAGATAAGACTTGCTAT
* * * * * * *
11488286 CTTCAGTCTGCTCCACTGCAACCTT-AGGGAGATAAGACTTGCTATCCTCAATCCGCTCCACTGC
1 CTTTAATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCGCTGC
* * *
11488350 AACTTTAAAGAGATAGGATT
65 AACTTCAGAGAGATAAGATT
11488370 TGTGGTTTCA
Statistics
Matches: 218, Mismatches: 37, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
176 2 0.01
177 36 0.17
178 39 0.18
179 137 0.63
180 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (178 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCA
ACTTCAGAGAGATAAGATTACTAGATTCAATCTACTCCACTGAAACTTCAGGGAGATAAGATTTG
CTTACTCAGTCCACCCCACTACAACATCAGGGAGATAAGACTTGCTAT
Found at i:11488364 original size:45 final size:45
Alignment explanation
Indices: 11487812--11488354 Score: 387
Period size: 45 Copynumber: 12.2 Consensus size: 45
11487802 GATTTGCTCT
* * *
11487812 CTGCAACTTCAGAGAGATAAGA-TCTG-TCA-CTTTAATCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGACT-TGCT-ATCTTCAATCTGCTCCA
* * * ** ** * *
11487856 CTACAACTTCAGGGAAATATGA-TTATTGGCTTTAATCTGATCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * *
11487900 CTGCAACTTCAGGAAGCTAAGA-TTCGCT-TGCTTTAATCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGACTT-GCTAT-CTTCAATCTGCTCCA
* * * * * *
11487945 CTGTAACTTCAGCGG-GATAAGA-TT-CGTTTATTCAGTTTGCTCCG
1 CTGCAACTTCAG-GGAGATAAGACTTGC-TATCTTCAATCTGCTCCA
* * ** ** * *
11487989 CTACAACTTCAGGGAGATAGGA-TTATTGGCTTTAATCTACTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * **
11488033 CTGCAACTTCAGGGAGATAAGATTTGCT-TAC-TCAGTCTACTCTG
1 CTGCAACTTCAGGGAGATAAGACTTGCTAT-CTTCAATCTGCTCCA
* *
11488077 CTGCAACATCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * *
11488122 CTGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * *
11488167 CTGCAACTTCAGAGAGATAAGACTTACTATATTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * ** * *
11488212 CTGAAACTTCAGGGAGATAGGATTTG-TATCTTCAGCCAGCCCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
* ** *
11488256 CTACAACTTCAGGTG-GATAAGGTTTGCTATCTTCAGTCTGCTCCA
1 CTGCAACTTCAGG-GAGATAAGACTTGCTATCTTCAATCTGCTCCA
* *
11488301 CTGCAACCTT-AGGGAGATAAGACTTGCTATCCTCAATCCGCTCCA
1 CTGCAA-CTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
11488346 CTGCAACTT
1 CTGCAACTT
11488355 TAAAGAGATA
Statistics
Matches: 391, Mismatches: 91, Indels: 34
0.76 0.18 0.07
Matches are distributed among these distances:
43 4 0.01
44 183 0.47
45 200 0.51
46 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCA
Found at i:11497228 original size:10 final size:10
Alignment explanation
Indices: 11497213--11497239 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11497203 TCTCTTCAAT
11497213 CTTGCTTAAA
1 CTTGCTTAAA
11497223 CTTGCTTAAA
1 CTTGCTTAAA
11497233 CTTGCTT
1 CTTGCTT
11497240 TCAACTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (10 bp):
CTTGCTTAAA
Found at i:11498419 original size:13 final size:13
Alignment explanation
Indices: 11498401--11498440 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
11498391 TGGGCTTATT
11498401 TATTTGGTTTTTA
1 TATTTGGTTTTTA
*
11498414 TATTT-GTTTTTG
1 TATTTGGTTTTTA
11498426 TATTTGGTTTATTA
1 TATTTGGTTT-TTA
11498440 T
1 T
11498441 TTTCTTTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.48
13 9 0.39
14 3 0.13
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (13 bp):
TATTTGGTTTTTA
Found at i:11498430 original size:25 final size:25
Alignment explanation
Indices: 11498401--11498453 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
11498391 TGGGCTTATT
* *
11498401 TATTTGGTTT-TTATATTTGTTTTTG
1 TATTTGGTTTATTAT-TTTCTTTGTG
11498426 TATTTGGTTTATTATTTTCTTTGTG
1 TATTTGGTTTATTATTTTCTTTGTG
11498451 TAT
1 TAT
11498454 GCAGGCCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.13, C:0.02, G:0.15, T:0.70
Consensus pattern (25 bp):
TATTTGGTTTATTATTTTCTTTGTG
Found at i:11502697 original size:9 final size:9
Alignment explanation
Indices: 11502683--11502717 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
11502673 AAAATCAATC
11502683 AAAAAATTA
1 AAAAAATTA
11502692 AAAAAATTA
1 AAAAAATTA
11502701 AAAAAATTCA
1 AAAAAATT-A
11502711 AAAAAAT
1 AAAAAAT
11502718 CAAGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTA
Found at i:11502720 original size:9 final size:9
Alignment explanation
Indices: 11502679--11502726 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
11502669 AAAAAAAATC
11502679 AATC-AAAA
1 AATCAAAAA
*
11502687 AATTAAAAA
1 AATCAAAAA
*
11502696 AATTAAAAA
1 AATCAAAAA
11502705 AATTCAAAAA
1 AA-TCAAAAA
11502715 AATCAAGAAA
1 AATCAA-AAA
11502725 AA
1 AA
11502727 AAGGAAGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 3 0.09
9 19 0.54
10 13 0.37
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (9 bp):
AATCAAAAA
Found at i:11502747 original size:6 final size:6
Alignment explanation
Indices: 11502736--11502770 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
11502726 AAAGGAAGGG
*
11502736 AAATCA AAATCA AAATCA AAATAAA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAAT-CA AAATCA AAAT
11502771 AACAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:11502765 original size:13 final size:13
Alignment explanation
Indices: 11502736--11502777 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
11502726 AAAGGAAGGG
*
11502736 AAATCAAAAT-CA
1 AAATCAAAATAAA
11502748 AAATCAAAATAAA
1 AAATCAAAATAAA
*
11502761 AAATCAAAATAAC
1 AAATCAAAATAAA
11502774 AAAT
1 AAAT
11502778 GAAATGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATCAAAATAAA
Found at i:11503663 original size:15 final size:15
Alignment explanation
Indices: 11503636--11503673 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11503626 TTGAGTCAGA
11503636 AAAAATATGAAAAA-T
1 AAAAA-ATGAAAAAGT
*
11503651 GAAAAATGAAAAAGT
1 AAAAAATGAAAAAGT
11503666 AAAAAATG
1 AAAAAATG
11503674 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (15 bp):
AAAAAATGAAAAAGT
Found at i:11504732 original size:19 final size:19
Alignment explanation
Indices: 11504710--11504750 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
11504700 ATTCTGTATT
11504710 CATGCAAACATCATTTATA
1 CATGCAAACATCATTTATA
11504729 CATGCAAACATCATTTATA
1 CATGCAAACATCATTTATA
11504748 CAT
1 CAT
11504751 ACCTAGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (19 bp):
CATGCAAACATCATTTATA
Found at i:11504928 original size:44 final size:44
Alignment explanation
Indices: 11504865--11505095 Score: 261
Period size: 44 Copynumber: 5.2 Consensus size: 44
11504855 CCGGTGAAAC
* *
11504865 TATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAATAT
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGAT
* *
11504909 TATAAATCCTAGCTCCCTG-ACTAGTAGTGGAATAGGTGGAAGACT
1 TATAAATCCTAGCTCCCTGAAC-AGCAGTGGAATAGGCGGAAGA-T
* * *
11504954 GA-AAGTCCTAGCTCCCTAAACAGCAGTGGAATAGGCGGAAGAT
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGAT
* * * * *
11504997 TGTAAATCCTAGCTCCTTGACCAACAGTGGAATAGGTGGAAGACT
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGA-T
* * * *
11505042 GA-AAGTCCTAGCTCCCTGAACAGTAGTGGAATAGGCAGAAGAT
1 TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGAT
*
11505085 TGTAAATCCTA
1 TATAAATCCTA
11505096 TGTAACAACC
Statistics
Matches: 152, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
43 4 0.03
44 143 0.94
45 5 0.03
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (44 bp):
TATAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGAT
Found at i:11505026 original size:88 final size:88
Alignment explanation
Indices: 11504868--11505095 Score: 375
Period size: 88 Copynumber: 2.6 Consensus size: 88
11504858 GTGAAACTAT
* * * *
11504868 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAATATTATAAATCCTAGCTCCCTGACTAG
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCCCTGACCAA
*
11504933 TAGTGGAATAGGTGGAAGACTGA
66 CAGTGGAATAGGTGGAAGACTGA
* *
11504956 AAGTCCTAGCTCCCTAAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCCTTGACCAA
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCCCTGACCAA
11505021 CAGTGGAATAGGTGGAAGACTGA
66 CAGTGGAATAGGTGGAAGACTGA
* *
11505044 AAGTCCTAGCTCCCTGAACAGTAGTGGAATAGGCAGAAGATTGTAAATCCTA
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTA
11505096 TGTAACAACC
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 130 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (88 bp):
AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCCCTGACCAA
CAGTGGAATAGGTGGAAGACTGA
Found at i:11517375 original size:88 final size:88
Alignment explanation
Indices: 11517074--11517352 Score: 468
Period size: 88 Copynumber: 3.2 Consensus size: 88
11517064 GGGGTGTTAC
* *
11517074 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGAAAGTCCTAGCTCCCTGAACAGCA
1 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTCCCTGAACAGCA
* *
11517139 GTGGAATAGGCGGATGATTGTAA
66 GTGGAATAGGCAGAAGATTGTAA
* * *
11517162 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAAACTATAAGTCCTAGCTCCCTGAATAGCA
1 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTCCCTGAACAGCA
11517227 GTGGAATAGGCAGAAGATTGTAA
66 GTGGAATAGGCAGAAGATTGTAA
*
11517250 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGACTGTAAGTCCTAGCTCCCTGAACAGCA
1 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTCCCTGAACAGCA
*
11517315 GTGGAATAAGCAGAAGATTGTAA
66 GTGGAATAGGCAGAAGATTGTAA
*
11517338 GTCCTAGCTCCCTGA
1 ATCCTAGCTCCCTGA
11517353 GCAACAATGG
Statistics
Matches: 178, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 178 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (88 bp):
ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTCCCTGAACAGCA
GTGGAATAGGCAGAAGATTGTAA
Found at i:11517376 original size:44 final size:44
Alignment explanation
Indices: 11517075--11517352 Score: 385
Period size: 44 Copynumber: 6.3 Consensus size: 44
11517065 GGGTGTTACA
* * *
11517075 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGAAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
** * *
11517119 TCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGATGATTGTAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
* * * * *
11517163 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAAACTATAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
* * *
11517207 TCCTAGCTCCCTGAATAGCAGTGGAATAGGCAGAAGATTGTAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
* *
11517251 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGACTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
* *
11517295 TCCTAGCTCCCTGAACAGCAGTGGAATAAGCAGAAGATTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
11517339 TCCTAGCTCCCTGA
1 TCCTAGCTCCCTGA
11517353 GCAACAATGG
Statistics
Matches: 205, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 205 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (44 bp):
TCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTGTAAG
Found at i:11517437 original size:88 final size:88
Alignment explanation
Indices: 11517345--11517507 Score: 220
Period size: 88 Copynumber: 1.9 Consensus size: 88
11517335 TAAGTCCTAG
*
11517345 CTCCCT-GAGCAACAATGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGCGAA
1 CTCCCTCG-GCAACAATGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAA
11517409 GCAGATCGAAGACACAAGCCTTGC
65 GCAGATCGAAGACACAAGCCTTGC
**** * * * * *
11517433 CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTGCCTTCTTGCATCGATAGTGAAG
1 CTCCCTCGGCAACAATGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAG
11517498 CAGATCGAAG
66 CAGATCGAAG
11517508 CCAATGGTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
88 63 0.98
89 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (88 bp):
CTCCCTCGGCAACAATGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAG
CAGATCGAAGACACAAGCCTTGC
Found at i:11517500 original size:45 final size:45
Alignment explanation
Indices: 11517363--11517500 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 45
11517353 GCAACAATGG
* ** *
11517363 AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGCGA
1 AGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGATAGTGA
* * * * * * * * *
11517408 AGCAGATCGAAGACA-CAAGCCTTGCCTCCCT-CGGTTG-TAGTGG
1 AGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGC-ATCGATAGTGA
*
11517451 AGCAGGTTGAAGATAGCAGGTCTTGCCTTCTTGCATCGATAGTGA
1 AGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGATAGTGA
11517496 AGCAG
1 AGCAG
11517501 ATCGAAGCCA
Statistics
Matches: 66, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 15 0.23
44 28 0.42
45 23 0.35
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGATAGTGA
Found at i:11528308 original size:21 final size:22
Alignment explanation
Indices: 11528282--11528322 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11528272 GTTGATAATG
11528282 AAAGAAAATGAG-AGAAAAATA
1 AAAGAAAATGAGAAGAAAAATA
**
11528303 AAAGAATTTGAGAAGAAAAA
1 AAAGAAAATGAGAAGAAAAA
11528323 AGAAATAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (22 bp):
AAAGAAAATGAGAAGAAAAATA
Found at i:11542396 original size:19 final size:21
Alignment explanation
Indices: 11542346--11542402 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
11542336 GTGGATTAGA
* *
11542346 TCTTATGAGCTTCTTTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
11542367 TCTTACGAGCTTCTGTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
11542388 T-TT-CGAGCTTCTGTT
1 TCTTACGAGCTTCTGTT
11542403 GGTGTATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.35
20 2 0.06
21 20 0.59
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.46
Consensus pattern (21 bp):
TCTTACGAGCTTCTGTTCAGC
Found at i:11543379 original size:42 final size:42
Alignment explanation
Indices: 11543322--11543415 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
11543312 TTCAAATGCC
* * * *
11543322 CACACGGCCTGAGACACGGGCGTGTCTCCTGACCCTGTGAGT
1 CACACGGCCTAAGACACAGACGTGTCTCCTGACCATGTGAGT
*
11543364 CACACGGCCTAAGACACAGACTTGTCTCCTGACCATGTGAGT
1 CACACGGCCTAAGACACAGACGTGTCTCCTGACCATGTGAGT
11543406 CACACGGCCT
1 CACACGGCCT
11543416 GGCCACATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (42 bp):
CACACGGCCTAAGACACAGACGTGTCTCCTGACCATGTGAGT
Found at i:11543609 original size:11 final size:12
Alignment explanation
Indices: 11543593--11543626 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
11543583 AATTTCACGA
11543593 AAAAATTTCG-T
1 AAAAATTTCGTT
11543604 AAAAATTTCGTT
1 AAAAATTTCGTT
11543616 AGAAAATTTCG
1 A-AAAATTTCG
11543627 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 2 0.10
13 9 0.43
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (12 bp):
AAAAATTTCGTT
Found at i:11544576 original size:33 final size:33
Alignment explanation
Indices: 11544534--11544817 Score: 172
Period size: 33 Copynumber: 7.8 Consensus size: 33
11544524 TCCCCCAAGG
*
11544534 GGTTGCTAAGTGCTGATTCCTCGATTCATTAGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTAGT
* * *
11544567 GGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTC-CCCG-A--TT-CAT-T---AGT
*
11544609 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTAGT
* * *
11544642 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---AGT
*
11544684 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTAGT
* * *
11544717 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---AGT
* * *
11544759 GGTTGCTAAGTGTTGATTCCTCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTAGT
*
11544792 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
11544818 AACGGATAAC
Statistics
Matches: 196, Mismatches: 27, Indels: 55
0.71 0.10 0.20
Matches are distributed among these distances:
33 78 0.40
34 12 0.06
35 3 0.02
36 3 0.02
37 12 0.06
38 12 0.06
39 3 0.02
40 3 0.02
41 8 0.04
42 62 0.32
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTAGT
Found at i:11544614 original size:42 final size:41
Alignment explanation
Indices: 11544567--11544777 Score: 202
Period size: 42 Copynumber: 5.5 Consensus size: 41
11544557 ATTCATTAGT
11544567 GGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTC-ACCGTATCTTAAATGTGAAAGG
* * *
11544609 GGTTGCTAAGTGCTGATTCCCCG-A--TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCACCGTATCTTAAATGTGAAAGG
*
11544642 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATT-CACCGTATCTTAAATGTGAAAGG
* * *
11544684 GGTTGCTAAGTGCTGATTCCCCG-A--TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCACCGTATCTTAAATGTGAAAGG
*
11544717 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATT-CACCGTATCTTAAATGTGAAAGG
*
11544759 GGTTGCTAAGTGTTGATTC
1 GGTTGCTAAGTGCTGATTC
11544778 CTCGATTCAT
Statistics
Matches: 136, Mismatches: 15, Indels: 37
0.72 0.08 0.20
Matches are distributed among these distances:
33 36 0.26
34 8 0.06
35 2 0.01
36 4 0.03
37 8 0.06
38 8 0.06
39 4 0.03
40 2 0.01
41 8 0.06
42 56 0.41
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCACCGTATCTTAAATGTGAAAGG
Found at i:11544653 original size:75 final size:75
Alignment explanation
Indices: 11544530--11544815 Score: 500
Period size: 75 Copynumber: 3.8 Consensus size: 75
11544520 TGGTTCCCCC
* * *
11544530 AAGGGGTTGCTAAGTGCTGATTCCTCGATTCATTAGTGGTTGCTAAGTGCTGATTCTACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
11544595 TTAAATGTGA
66 TTAAATGTGA
*
11544605 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
11544670 TTAAATGTGA
66 TTAAATGTGA
*
11544680 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
11544745 TTAAATGTGA
66 TTAAATGTGA
* * *
11544755 AAGGGGTTGCTAAGTGTTGATTCCTCGATTCATTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
11544816 ATAACGGATA
Statistics
Matches: 203, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 203 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:11552514 original size:21 final size:21
Alignment explanation
Indices: 11552468--11552525 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
11552458 ATTGGGTGGG
* *
11552468 TCAGCTCTTATGAGCTT-CTT
1 TCAGCTCTTACGAGCTTCCGT
11552488 TCCAGCTCTTACGAGCTTCCGT
1 T-CAGCTCTTACGAGCTTCCGT
11552510 TCAGCT-TT-CGAGCTTC
1 TCAGCTCTTACGAGCTTC
11552526 TGTTAGTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 8 0.24
20 3 0.09
21 20 0.59
22 3 0.09
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCCGT
Found at i:11555062 original size:15 final size:15
Alignment explanation
Indices: 11555042--11555071 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11555032 AGGCATTCCA
11555042 CCTATTTTTAAGTTG
1 CCTATTTTTAAGTTG
11555057 CCTATTTTTAAGTTG
1 CCTATTTTTAAGTTG
11555072 TCTTTGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
CCTATTTTTAAGTTG
Found at i:11559804 original size:20 final size:21
Alignment explanation
Indices: 11559763--11559806 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
11559753 GTACTTTTTT
*
11559763 ACCCTAAATCTCAAACCCCAA
1 ACCCTAAATCTCAAACACCAA
*
11559784 ACCCTAAA-CTCAAACATCAA
1 ACCCTAAATCTCAAACACCAA
11559804 ACC
1 ACC
11559807 TATAACCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (21 bp):
ACCCTAAATCTCAAACACCAA
Found at i:11565562 original size:45 final size:45
Alignment explanation
Indices: 11565498--11565607 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
11565488 AGTATACAGT
** *
11565498 AATCAGTAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCCG
1 AATCAGTAACAATAACAGTAACAGTATTCAACACACAAAGTGCCG
* * *
11565543 AGTCGGTAACAATAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAATAACAGTAACAGTATTCAACACACAAAGTGCCG
*
11565588 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAATAACAGTA
11565608 GTCGGCACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (45 bp):
AATCAGTAACAATAACAGTAACAGTATTCAACACACAAAGTGCCG
Found at i:11565631 original size:38 final size:39
Alignment explanation
Indices: 11565555--11565634 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
11565545 TCGGTAACAA
*
11565555 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAG
1 TAACAGTAACAGTAGTCGACACACAAAGTGCCGAATCAG
* * *
11565594 TAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATCAG
1 TAACAGTAACAGTAGTCGACACACAAAGTGCCGAATCAG
11565632 TAA
1 TAA
11565635 GCCGGCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 16 0.43
39 21 0.57
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (39 bp):
TAACAGTAACAGTAGTCGACACACAAAGTGCCGAATCAG
Found at i:11567546 original size:21 final size:21
Alignment explanation
Indices: 11567521--11567565 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
11567511 GTCCTTTTTG
11567521 TAAAATTTCTTGACGAAACTT
1 TAAAATTTCTTGACGAAACTT
11567542 TAAAATTTCTTGACGAAACTT
1 TAAAATTTCTTGACGAAACTT
11567563 TAA
1 TAA
11567566 TACCAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (21 bp):
TAAAATTTCTTGACGAAACTT
Found at i:11570105 original size:50 final size:50
Alignment explanation
Indices: 11570041--11570180 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 50
11570031 TTAATAAAGT
*
11570041 CATGCATTATGTAACTTTCATGTTAGTTAAGTATGCATCATAAATAATGA
1 CATGCATTATGTAACTCTCATGTTAGTTAAGTATGCATCATAAATAATGA
* * *
11570091 CATGCATTATGTAACTCTCATGTTAGTTAAG-ATTGGATCATAAATTATGT
1 CATGCATTATGTAACTCTCATGTTAGTTAAGTA-TGCATCATAAATAATGA
* * *
11570141 CATGCATTATGTAACTCCCATATTAGTTAAAGTTTGCATC
1 CATGCATTATGTAACTCTCATGTTAGTT-AAGTATGCATC
11570181 TTTTAATGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 70 0.89
51 8 0.10
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (50 bp):
CATGCATTATGTAACTCTCATGTTAGTTAAGTATGCATCATAAATAATGA
Found at i:11579668 original size:21 final size:23
Alignment explanation
Indices: 11579637--11579678 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11579627 TTCTAAATTT
11579637 TTTACTTTTTAAAT-ATAAAAGA
1 TTTACTTTTTAAATCATAAAAGA
*
11579659 TTTA-TTTTTACATCATAAAA
1 TTTACTTTTTAAATCATAAAA
11579679 TAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTACTTTTTAAATCATAAAAGA
Found at i:11582881 original size:10 final size:10
Alignment explanation
Indices: 11582854--11582896 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
11582844 CCTCTTTAAA
11582854 AAATAAAAAT
1 AAATAAAAAT
*
11582864 -AATTAAAAT
1 AAATAAAAAT
11582873 AAATAAAAAT
1 AAATAAAAAT
11582883 AAATGAATAAAT
1 AAAT-AA-AAAT
11582895 AA
1 AA
11582897 GTATTTAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
10 12 0.43
11 2 0.07
12 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:11593569 original size:40 final size:40
Alignment explanation
Indices: 11593514--11593639 Score: 198
Period size: 40 Copynumber: 3.1 Consensus size: 40
11593504 TGTGTGAATT
* *
11593514 TACTTCGGTACCCCTGAATGCACATACGTGCCCTTGTTTG
1 TACTTCGGTACCCCTGAATGTACATACGTGCCCCTGTTTG
11593554 TACTTCGGTACCCCTGAATGTACATACGTGCCCCTGTTTG
1 TACTTCGGTACCCCTGAATGTACATACGTGCCCCTGTTTG
** * *
11593594 TACTTTAGTACCCCTGAGTGTATATACGTGCCCCTGTTTG
1 TACTTCGGTACCCCTGAATGTACATACGTGCCCCTGTTTG
11593634 TACTTC
1 TACTTC
11593640 AGTAATCCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (40 bp):
TACTTCGGTACCCCTGAATGTACATACGTGCCCCTGTTTG
Found at i:11593587 original size:20 final size:20
Alignment explanation
Indices: 11593524--11593629 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
11593514 TACTTCGGTA
*
11593524 CCCCTGAATGCACATACGTG
1 CCCCTGAATGTACATACGTG
* ** * *
11593544 CCCTTGTTTGTAC-TTCGGTA
1 CCCCTGAATGTACATAC-GTG
11593564 CCCCTGAATGTACATACGTG
1 CCCCTGAATGTACATACGTG
** * *
11593584 CCCCTGTTTGTACTTTA-GTA
1 CCCCTGAATGTAC-ATACGTG
* *
11593604 CCCCTGAGTGTATATACGTG
1 CCCCTGAATGTACATACGTG
11593624 CCCCTG
1 CCCCTG
11593630 TTTGTACTTC
Statistics
Matches: 62, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
19 4 0.06
20 54 0.87
21 4 0.06
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (20 bp):
CCCCTGAATGTACATACGTG
Found at i:11593635 original size:20 final size:21
Alignment explanation
Indices: 11593537--11593637 Score: 86
Period size: 20 Copynumber: 5.0 Consensus size: 21
11593527 CTGAATGCAC
*
11593537 ATACGTGCCCTTGTTTGTACT
1 ATACGTGCCCCTGTTTGTACT
* **
11593558 -T-CGGTACCCCTGAATGTAC-
1 ATAC-GTGCCCCTGTTTGTACT
11593577 ATACGTGCCCCTGTTTGTACT
1 ATACGTGCCCCTGTTTGTACT
* * **
11593598 TTA-GTACCCCTGAGTGTA-T
1 ATACGTGCCCCTGTTTGTACT
11593617 ATACGTGCCCCTGTTTGTACT
1 ATACGTGCCCCTGTTTGTACT
11593638 TCAGTAATCC
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
19 4 0.07
20 51 0.86
21 4 0.07
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (21 bp):
ATACGTGCCCCTGTTTGTACT
Found at i:11595810 original size:31 final size:31
Alignment explanation
Indices: 11595775--11595833 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11595765 CAAAATGATC
* *
11595775 ACTAAATTATTTGAAAGTTTTCATTTAAGTT
1 ACTAAACTATTCGAAAGTTTTCATTTAAGTT
*
11595806 ACTAAACTATTCGAAAGTTTTTATTTAA
1 ACTAAACTATTCGAAAGTTTTCATTTAA
11595834 AATTTTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (31 bp):
ACTAAACTATTCGAAAGTTTTCATTTAAGTT
Found at i:11600138 original size:207 final size:207
Alignment explanation
Indices: 11599783--11600646 Score: 1728
Period size: 207 Copynumber: 4.2 Consensus size: 207
11599773 TTGCAAAGAA
11599783 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
1 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
11599848 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
66 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
11599913 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
131 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
11599978 ATTAATCGCTTG
196 ATTAATCGCTTG
11599990 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
1 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
11600055 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
66 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
11600120 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
131 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
11600185 ATTAATCGCTTG
196 ATTAATCGCTTG
11600197 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
1 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
11600262 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
66 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
11600327 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
131 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
11600392 ATTAATCGCTTG
196 ATTAATCGCTTG
11600404 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
1 GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
11600469 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
66 GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
11600534 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
131 TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
11600599 ATTAATCGCTTG
196 ATTAATCGCTTG
11600611 GATTGACATTGAAAAATGTTCAAGAGATTGATTAAT
1 GATTGACATTGAAAAATGTTCAAGAGATTGATTAAT
11600647 TTAATATGTA
Statistics
Matches: 657, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 657 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (207 bp):
GATTGACATTGAAAAATGTTCAAGAGATTGATTAATCAGTGCATGTTTATTCTTCTAAAGTAGCT
GAAGTTAATTTAGCATTGTATTTGGCGATACATATCCCTTGCATAACTTACAAGATTATTGTGAT
TAAACTGTTTCAAGGTAGAAATACTCTGTTACCTCACTTGATGTTTTATATGCTTGTGAAGATTG
ATTAATCGCTTG
Found at i:11600852 original size:14 final size:14
Alignment explanation
Indices: 11600835--11600861 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11600825 ATTTTTTTTA
11600835 CTTAGTTTTTAACC
1 CTTAGTTTTTAACC
11600849 CTTAGTTTTTAAC
1 CTTAGTTTTTAAC
11600862 TTTGAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CTTAGTTTTTAACC
Found at i:11606978 original size:123 final size:124
Alignment explanation
Indices: 11606825--11607064 Score: 356
Period size: 123 Copynumber: 1.9 Consensus size: 124
11606815 TAAGCCATTG
* *
11606825 ACATTCAATACAGCATAAATAAATGAAGCTTATTTAATTGCTTCATTAACACGAACATTAAACAT
1 ACATTCAATACAACATAAATAAATGAAGCTTATTTAACTGCTTCATTAACACGAACATTAAACAT
* *
11606890 CTTTAATAACGAATGGG-GGATTCAACTCATTACTTTTATAAATGTTTAAAGGTTATAA
66 CTTTAATAACGAATGGGAAGATTCAACTCATTACTTTCATAAATGTTTAAAGGTTATAA
* * * * *
11606948 ACATTCAATGCAACATTAATAAATGAAGCTTATTTAACTGCTTCATTAACACGTATATTAAGCAT
1 ACATTCAATACAACATAAATAAATGAAGCTTATTTAACTGCTTCATTAACACGAACATTAAACAT
* * * *
11607013 CTTTAATAACGAATGGGAAGTTTTAACTCATTGCTTTCATAAATTTTTAAAG
66 CTTTAATAACGAATGGGAAGATTCAACTCATTACTTTCATAAATGTTTAAAG
11607065 ATGATAGAGA
Statistics
Matches: 103, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
123 75 0.73
124 28 0.27
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.35
Consensus pattern (124 bp):
ACATTCAATACAACATAAATAAATGAAGCTTATTTAACTGCTTCATTAACACGAACATTAAACAT
CTTTAATAACGAATGGGAAGATTCAACTCATTACTTTCATAAATGTTTAAAGGTTATAA
Found at i:11608940 original size:19 final size:19
Alignment explanation
Indices: 11608897--11608941 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11608887 AAAAAAAATC
* *
11608897 TATTATTTTGTTGTTCTTT
1 TATTATTATGTTGTTCTAT
11608916 TATTATTATGTTGTTACTAT
1 TATTATTATGTTGTT-CTAT
11608936 T-TTATT
1 TATTATT
11608942 GTTATTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.18, C:0.04, G:0.09, T:0.69
Consensus pattern (19 bp):
TATTATTATGTTGTTCTAT
Found at i:11612836 original size:2 final size:2
Alignment explanation
Indices: 11612829--11612853 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11612819 CTTGGACCAC
11612829 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11612854 CTAATTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11613207 original size:22 final size:22
Alignment explanation
Indices: 11613165--11613208 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11613155 TGAATAAACC
* * *
11613165 AAATAAACTTTATTTCTGTAAA
1 AAATAAACTTAATATCCGTAAA
11613187 AAATAAACTTAATATCCGTAAA
1 AAATAAACTTAATATCCGTAAA
11613209 CTGAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATAAACTTAATATCCGTAAA
Found at i:11628724 original size:27 final size:26
Alignment explanation
Indices: 11628693--11628770 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
11628683 AACATGTCAA
11628693 GAAAGAAAAGCCTTTGTGGCGTAACAT
1 GAAAGAAAAGCCTTTGTGGCG-AACAT
* *
11628720 GAAAGAAAAGCCTTTATGGCAGAATAT
1 GAAAGAAAAGCCTTTGTGGC-GAACAT
* * *
11628747 GAAAGGAATGCCTTTGCGGCGAAC
1 GAAAGAAAAGCCTTTGTGGCGAAC
11628771 TCCGTAAGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (26 bp):
GAAAGAAAAGCCTTTGTGGCGAACAT
Done.