Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 80 of 143
Found at i:25550629 original size:19 final size:18
Alignment explanation
Indices: 25550608--25550656 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
25550598 AAATATAGAA
25550608 AAAAATATAAAATATTAT
1 AAAAATATAAAATATTAT
25550626 -AAAATCATAAGAATATTAT
1 AAAAAT-ATAA-AATATTAT
*
25550645 AGAAAATGTAAA
1 A-AAAATATAAA
25550657 TAAATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 9 0.35
20 3 0.12
21 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAAATATAAAATATTAT
Found at i:25550629 original size:29 final size:29
Alignment explanation
Indices: 25550554--25550630 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
25550544 ATTAAATTTT
* **
25550554 AATAAAAAATATT-TAAAATTTATTAAAA
1 AATAAAAAATATTATAAAATATAGAAAAA
* *
25550582 AATAGAAAATA-TAGAAAAATATAGAAAAA
1 AATAAAAAATATTA-TAAAATATAGAAAAA
*
25550611 AATATAAAATATTATAAAAT
1 AATAAAAAATATTATAAAAT
25550631 CATAAGAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.03
28 10 0.26
29 26 0.67
30 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (29 bp):
AATAAAAAATATTATAAAATATAGAAAAA
Found at i:25550664 original size:19 final size:19
Alignment explanation
Indices: 25550642--25550688 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
25550632 ATAAGAATAT
*
25550642 TATAGAAAAT-GTAAATAAA
1 TATA-AAAATCGTAAAAAAA
*
25550661 TATAAAATTCGTAAAAAAA
1 TATAAAAATCGTAAAAAAA
25550680 TATAAAAAT
1 TATAAAAAT
25550689 TATTGTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
TATAAAAATCGTAAAAAAA
Found at i:25550886 original size:10 final size:10
Alignment explanation
Indices: 25550873--25550939 Score: 68
Period size: 10 Copynumber: 6.8 Consensus size: 10
25550863 TTTTAATGCA
25550873 TTTTATAATT
1 TTTTATAATT
*
25550883 TTTT-TATGTGT
1 TTTTATA-AT-T
*
25550894 TTTTATAAAT
1 TTTTATAATT
25550904 TTTTATAA-T
1 TTTTATAATT
25550913 TTTTATAATT
1 TTTTATAATT
*
25550923 TTTTACAA-T
1 TTTTATAATT
25550932 TTTTATAA
1 TTTTATAA
25550940 AAAAATTACA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 19 0.40
10 22 0.46
11 5 0.10
12 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:25550906 original size:9 final size:10
Alignment explanation
Indices: 25550893--25550940 Score: 66
Period size: 9 Copynumber: 5.0 Consensus size: 10
25550883 TTTTTATGTG
25550893 TTTTTATAAA
1 TTTTTATAAA
25550903 TTTTTAT-AA
1 TTTTTATAAA
25550912 TTTTTAT-AA
1 TTTTTATAAA
25550921 TTTTT-TACAA
1 TTTTTATA-AA
25550931 TTTTTATAAA
1 TTTTTATAAA
25550941 AAAATTACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.03
9 16 0.46
10 16 0.46
11 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:25550915 original size:19 final size:19
Alignment explanation
Indices: 25550893--25550940 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
25550883 TTTTTATGTG
*
25550893 TTTTTATAAATTTTTATAA
1 TTTTTATAAATTTTTACAA
*
25550912 TTTTTATAATTTTTTACAA
1 TTTTTATAAATTTTTACAA
25550931 TTTTTATAAA
1 TTTTTATAAA
25550941 AAAATTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATAAATTTTTACAA
Found at i:25551033 original size:20 final size:19
Alignment explanation
Indices: 25550986--25551033 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
25550976 AATTTCTTTC
*
25550986 TAATTTTTAATATTTTTAT
1 TAATTTTTAATAATTTTAT
**
25551005 TAAAATTTAATCAATTTTAT
1 TAATTTTTAAT-AATTTTAT
25551025 TAATTTTTA
1 TAATTTTTA
25551034 TTTTTTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATTTTTAATAATTTTAT
Found at i:25557624 original size:15 final size:16
Alignment explanation
Indices: 25557599--25557628 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25557589 ATAATCTTTT
25557599 TAGAGAATTTTCTCTC
1 TAGAGAATTTTCTCTC
25557615 TAGA-AATTTTCTCT
1 TAGAGAATTTTCTCT
25557629 TGAATTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (16 bp):
TAGAGAATTTTCTCTC
Found at i:25557991 original size:11 final size:11
Alignment explanation
Indices: 25557977--25558022 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 11
25557967 GATAATCACT
25557977 TTAATATTAAA
1 TTAATATTAAA
25557988 TTAATA--AAA
1 TTAATATTAAA
25557997 -TAATATTAAA
1 TTAATATTAAA
*
25558007 ATAAGTATTAAA
1 TTAA-TATTAAA
25558019 TTAA
1 TTAA
25558023 ATTTAATACT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
8 5 0.17
9 3 0.10
10 3 0.10
11 9 0.30
12 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:25558017 original size:12 final size:11
Alignment explanation
Indices: 25557992--25558052 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
25557982 ATTAAATTAA
25557992 TAAAATAATAT
1 TAAAATAATAT
25558003 TAAAATAAGTAT
1 TAAAATAA-TAT
*
25558015 TAAATTAA-ATT
1 TAAAATAATA-T
*
25558026 TAATACTAAACTAT
1 TAA-AAT-AA-TAT
25558040 TAAAATAATAT
1 TAAAATAATAT
25558051 TA
1 TA
25558053 TTTTTGGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
10 1 0.02
11 17 0.41
12 14 0.34
13 4 0.10
14 4 0.10
15 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:25567404 original size:18 final size:18
Alignment explanation
Indices: 25567383--25567430 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
25567373 TGCTCTTACG
25567383 AGCCAGTATGCTCAAACA
1 AGCCAGTATGCTCAAACA
* * *
25567401 AGCCAATATGCTCTAACG
1 AGCCAGTATGCTCAAACA
25567419 AGCCAGTATGCT
1 AGCCAGTATGCT
25567431 ATTCCTTCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (18 bp):
AGCCAGTATGCTCAAACA
Found at i:25574271 original size:18 final size:18
Alignment explanation
Indices: 25574252--25574351 Score: 121
Period size: 18 Copynumber: 5.6 Consensus size: 18
25574242 TCCTTGCGAT
*
25574252 CCAGTATGCTCTAACGAT
1 CCAGTATGCTCTAACGAG
25574270 CCAGTATGCTCTAACGAG
1 CCAGTATGCTCTAACGAG
*
25574288 CCAGTATGCT-GAACCGAG
1 CCAGTATGCTCTAA-CGAG
* *
25574306 CCAGTATGCTCAAATGAG
1 CCAGTATGCTCTAACGAG
* *
25574324 CTAGTATGCCCTAACGAG
1 CCAGTATGCTCTAACGAG
*
25574342 TCAGTATGCT
1 CCAGTATGCT
25574352 ATTCCTTCCA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
17 2 0.03
18 65 0.94
19 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (18 bp):
CCAGTATGCTCTAACGAG
Found at i:25586024 original size:19 final size:19
Alignment explanation
Indices: 25586000--25586049 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
25585990 ACAGAAGAAT
*
25586000 AGCATTACTAGTTCGTTTG
1 AGCATTACTAGCTCGTTTG
*
25586019 AGCATTACTGGCTCGTTTG
1 AGCATTACTAGCTCGTTTG
*
25586038 AGCAATACTAGC
1 AGCATTACTAGC
25586050 ACATTGAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (19 bp):
AGCATTACTAGCTCGTTTG
Found at i:25588753 original size:3 final size:3
Alignment explanation
Indices: 25588745--25588781 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
25588735 CCATTAAACT
* *
25588745 GTG GTG GTG GTG GTG GTG GTG ATG GTG GTA GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
25588782 AGAGAAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.05, C:0.00, G:0.62, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:25589926 original size:20 final size:21
Alignment explanation
Indices: 25589901--25589951 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
25589891 AATAAAAGTT
25589901 ATAAAAATTA-TTAAATTTTA
1 ATAAAAATTATTTAAATTTTA
*
25589921 ATAAAAAATATTTAAATTTTA
1 ATAAAAATTATTTAAATTTTA
*
25589942 TTAAAAATTA
1 ATAAAAATTA
25589952 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAAAATTATTTAAATTTTA
Found at i:25589969 original size:10 final size:10
Alignment explanation
Indices: 25589956--25590072 Score: 59
Period size: 10 Copynumber: 12.0 Consensus size: 10
25589946 AAATTAGAAA
25589956 AAAAAATTAT
1 AAAAAATTAT
*
25589966 AAAATA-TAT
1 AAAAAATTAT
*
25589975 -AGAAA-TAT
1 AAAAAATTAT
* *
25589983 AGAAAATTTT
1 AAAAAATTAT
* *
25589993 ATAAAATTTT
1 AAAAAATTAT
* *
25590003 ATAAAATCAT
1 AAAAAATTAT
25590013 AAGAAAATTAT
1 AA-AAAATTAT
*
25590024 AAAAAAATAT
1 AAAAAATTAT
25590034 AAAGAAA-TAT
1 AAA-AAATTAT
*
25590044 --AAAATTCGT
1 AAAAAATT-AT
25590053 AAAAGAATTAT
1 AAAA-AATTAT
25590064 -AAAAATTAT
1 AAAAAATTAT
25590073 CGTATTAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
7 3 0.04
8 8 0.10
9 13 0.15
10 41 0.49
11 15 0.18
12 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:25589995 original size:29 final size:30
Alignment explanation
Indices: 25589961--25590044 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
25589951 AGAAAAAAAA
25589961 ATTATAAAATATATAGAAATATAGAAAATT
1 ATTATAAAATATATAGAAATATAGAAAATT
*
25589991 -TTATAAAATTTTATA-AAATCATAAGAAAATT
1 ATTATAAAA-TATATAGAAAT-AT-AGAAAATT
* * *
25590022 ATAAAAAAATATAAAGAAATATA
1 ATTATAAAATATATAGAAATATA
25590045 AAATTCGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
29 12 0.27
30 8 0.18
31 14 0.32
32 10 0.23
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (30 bp):
ATTATAAAATATATAGAAATATAGAAAATT
Found at i:25590038 original size:22 final size:20
Alignment explanation
Indices: 25590005--25590047 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 20
25589995 AAAATTTTAT
25590005 AAAATCATAAGAAAATTATAAA
1 AAAATCATAAG-AAA-TATAAA
25590027 AAAAT-ATAAAGAAATATAAA
1 AAAATCAT-AAGAAATATAAA
25590047 A
1 A
25590048 TTCGTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATCATAAGAAATATAAA
Found at i:25590264 original size:11 final size:10
Alignment explanation
Indices: 25590250--25590305 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
25590240 TTTTGATGCA
25590250 TTTTATAATTT
1 TTTTATAA-TT
25590261 TTTTATAA-T
1 TTTTATAATT
**
25590270 TTTTATAAAA
1 TTTTATAATT
*
25590280 GTTTATAATT
1 TTTTATAATT
25590290 TTTTATAATT
1 TTTTATAATT
25590300 TTTTAT
1 TTTTAT
25590306 GATTCTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
9 9 0.23
10 22 0.56
11 8 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:25590273 original size:20 final size:19
Alignment explanation
Indices: 25590250--25590316 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
25590240 TTTTGATGCA
25590250 TTTTATAATTTTTTTATAAT
1 TTTTATAA-TTTTTTATAAT
***
25590270 TTTTATAAAAGTTTATAATT
1 TTTTATAATTTTTTATAA-T
*
25590290 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATAAT
*
25590309 TCTTATAA
1 TTTTATAA
25590317 AAAATTATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 15 0.39
20 23 0.61
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:25590315 original size:39 final size:40
Alignment explanation
Indices: 25590250--25590331 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 40
25590240 TTTTGATGCA
* **
25590250 TTTTATAATTTTTTTATAATTTTTATAAAAGTTTATAATT
1 TTTTATAATTTTTTTATAATTCTTATAAAAAATTATAATT
*
25590290 TTTTATAA-TTTTTTATGATTCTTATAAAAAATTATAATT
1 TTTTATAATTTTTTTATAATTCTTATAAAAAATTATAATT
25590329 TTT
1 TTT
25590332 AACAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
39 30 0.79
40 8 0.21
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (40 bp):
TTTTATAATTTTTTTATAATTCTTATAAAAAATTATAATT
Found at i:25590343 original size:19 final size:18
Alignment explanation
Indices: 25590261--25590343 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 18
25590251 TTTATAATTT
25590261 TTTTATAATTTTTATAAAA
1 TTTTATAATTTTTA-AAAA
* **
25590280 GTTTATAATTTTTTATAATT
1 TTTTATAA-TTTTTA-AAAA
*
25590300 TTTTATGATTCTTATAAAAA
1 TTTTATAATT-TT-TAAAAA
*
25590320 -ATTATAATTTTTAACAAA
1 TTTTATAATTTTTAA-AAA
25590338 TTTTAT
1 TTTTAT
25590344 TTTTTATTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
17 3 0.06
18 5 0.10
19 20 0.41
20 19 0.39
21 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTATAATTTTTAAAAA
Found at i:25590862 original size:19 final size:20
Alignment explanation
Indices: 25590817--25590862 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
25590807 AATTAATTTC
25590817 AAATCATATATTTTATTTATT
1 AAAT-ATATATTTTATTTATT
* *
25590838 -ATTATATATTTT-TTTTTT
1 AAATATATATTTTATTTATT
25590856 AAATATA
1 AAATATA
25590863 CTGGTGTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
AAATATATATTTTATTTATT
Found at i:25597717 original size:18 final size:18
Alignment explanation
Indices: 25597694--25597766 Score: 112
Period size: 18 Copynumber: 4.0 Consensus size: 18
25597684 GATTTCTAGA
25597694 TTTTTTGGTCACTCAAATT
1 TTTTTTGGTCACTCAAA-T
25597713 TTTTTTGGTCACTCAAAT
1 TTTTTTGGTCACTCAAAT
*
25597731 TTTTTTTGTCACTCAAA-
1 TTTTTTGGTCACTCAAAT
25597748 TTTTTTGGTCACTCTAAAT
1 TTTTTTGGTCACTC-AAAT
25597767 AGGGGTCGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.26
18 20 0.40
19 17 0.34
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (18 bp):
TTTTTTGGTCACTCAAAT
Found at i:25597718 original size:19 final size:19
Alignment explanation
Indices: 25597694--25597766 Score: 116
Period size: 19 Copynumber: 3.9 Consensus size: 19
25597684 GATTTCTAGA
25597694 TTTTTTGGTCACTCAAATT
1 TTTTTTGGTCACTCAAATT
25597713 TTTTTTGGTCACTCAAATT
1 TTTTTTGGTCACTCAAATT
25597732 TTTTTT-GTCACTCAAA--
1 TTTTTTGGTCACTCAAATT
25597748 TTTTTTGGTCACTCTAAAT
1 TTTTTTGGTCACTC-AAAT
25597767 AGGGGTCGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.12
17 7 0.14
18 13 0.25
19 25 0.49
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (19 bp):
TTTTTTGGTCACTCAAATT
Found at i:25597742 original size:37 final size:36
Alignment explanation
Indices: 25597694--25597766 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
25597684 GATTTCTAGA
25597694 TTTTTTGGTCACTCAAATTTTTTTTGGTCACTC-AAAT
1 TTTTTTGGTCACTCAAA--TTTTTTGGTCACTCTAAAT
*
25597731 TTTTTTTGTCACTCAAATTTTTTGGTCACTCTAAAT
1 TTTTTTGGTCACTCAAATTTTTTGGTCACTCTAAAT
25597767 AGGGGTCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 14 0.41
36 4 0.12
37 16 0.47
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (36 bp):
TTTTTTGGTCACTCAAATTTTTTGGTCACTCTAAAT
Found at i:25598135 original size:24 final size:24
Alignment explanation
Indices: 25598088--25598140 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
25598078 ATGTATTAAA
* * *
25598088 TAATTAAAATCTATAATTTTATTTT
1 TAATAAAAATCTATAATCTGA-TTT
25598113 TAATAAAAAT-TATAATCTGATTT
1 TAATAAAAATCTATAATCTGATTT
25598136 TAATA
1 TAATA
25598141 TAATATAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 8 0.32
25 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
TAATAAAAATCTATAATCTGATTT
Found at i:25598143 original size:25 final size:25
Alignment explanation
Indices: 25598093--25598143 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
25598083 TTAAATAATT
* * *
25598093 AAAATCTATAATTTTATTTTTAATA
1 AAAATCTATAATCTGATTTTAAATA
25598118 AAAAT-TATAATCTGATTTTAATATA
1 AAAATCTATAATCTGATTTTAA-ATA
25598143 A
1 A
25598144 TATAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
AAAATCTATAATCTGATTTTAAATA
Found at i:25598512 original size:17 final size:18
Alignment explanation
Indices: 25598485--25598518 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
25598475 TAATTATTTT
25598485 ATTAATAATATTAATGAA
1 ATTAATAATATTAATGAA
25598503 ATTAAT-ATATTAATGA
1 ATTAATAATATTAATGA
25598519 TTACTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
ATTAATAATATTAATGAA
Found at i:25603225 original size:19 final size:19
Alignment explanation
Indices: 25603203--25603247 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25603193 TTATATTAGG
25603203 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
25603222 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
25603241 ATTTAAT
1 ATTTAAT
25603248 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:25610001 original size:4 final size:4
Alignment explanation
Indices: 25609992--25610016 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
25609982 TTCTGCCTGT
25609992 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
25610017 AGGTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:25610727 original size:107 final size:104
Alignment explanation
Indices: 25610549--25610754 Score: 263
Period size: 107 Copynumber: 2.0 Consensus size: 104
25610539 ATTCAAAATG
* * * *
25610549 TGTTAGAGTGAGTAACCGGGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAAA
1 TGTTAGAGTGAGTAACCGGGATGGAGTGCTTGGGTATCATTTCACTTCGCGTCAAAAGGGCCAAA
25610614 GCATTC-TACAAAAAAAAAGAGAGAAGAAAAAAATTGAGAGCA
66 GCATTCTTA-AAAAAAAAA-A-AGAAG-AAAAAATTGAGAGCA
* * * *
25610656 TGTTAGATTGAGTAACTGGGATGGAGTGCTTGGGTATCATTTCATTTCGCGTCAAAAGGTCCAAT
1 TGTTAGAGTGAGTAACCGGGATGGAGTGCTTGGGTATCATTTCACTTCGCGTCAAAAGGGCCAA-
* *
25610721 A-TATTCTTAAAGAAAAAAAAGAAGAAAAAATTGA
65 AGCATTCTTAAAAAAAAAAAAGAAGAAAAAATTGA
25610755 CAAAATAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
104 10 0.11
105 5 0.06
106 1 0.01
107 68 0.78
108 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (104 bp):
TGTTAGAGTGAGTAACCGGGATGGAGTGCTTGGGTATCATTTCACTTCGCGTCAAAAGGGCCAAA
GCATTCTTAAAAAAAAAAAAGAAGAAAAAATTGAGAGCA
Found at i:25611336 original size:19 final size:19
Alignment explanation
Indices: 25611314--25611358 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25611304 TTATATTAGG
25611314 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATAT
* *
25611333 ATTTATTATTTAAATTTAT
1 ATTTAATATTTAAATATAT
25611352 ATTTAAT
1 ATTTAAT
25611359 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATAT
Found at i:25618834 original size:20 final size:22
Alignment explanation
Indices: 25618811--25618855 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
25618801 ATATTTTTTA
25618811 TTTCTA-TAAA-ATTTTGAAAT
1 TTTCTAGTAAATATTTTGAAAT
25618831 TTTCTAGTAAATATTTTGAAAT
1 TTTCTAGTAAATATTTTGAAAT
25618853 TTT
1 TTT
25618856 GAATATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 13 0.57
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTCTAGTAAATATTTTGAAAT
Found at i:25621699 original size:11 final size:11
Alignment explanation
Indices: 25621685--25621734 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
25621675 ATTTTTATAA
25621685 TTTAATTATTT
1 TTTAATTATTT
* *
25621696 TTTAA-TAATA
1 TTTAATTATTT
25621706 TTTAATTATTT
1 TTTAATTATTT
*
25621717 TAT-ATTATTT
1 TTTAATTATTT
25621727 TTATAATT
1 TT-TAATT
25621735 TAATAAAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
10 16 0.53
11 11 0.37
12 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTAATTATTT
Found at i:25621736 original size:18 final size:18
Alignment explanation
Indices: 25621667--25621736 Score: 64
Period size: 17 Copynumber: 4.3 Consensus size: 18
25621657 TATTTAAATT
25621667 ATTTAT-TTATTTTTATA
1 ATTTATATTATTTTTATA
25621684 ATTTA-ATTATTTTT-TA
1 ATTTATATTATTTTTATA
* **
25621700 A-TAATATT-TAATTAT-
1 ATTTATATTATTTTTATA
25621715 -TTTATATTATTTTTATA
1 ATTTATATTATTTTTATA
25621732 ATTTA
1 ATTTA
25621737 ATAAAATCGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
15 11 0.28
16 12 0.30
17 13 0.32
18 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTATATTATTTTTATA
Found at i:25625237 original size:29 final size:30
Alignment explanation
Indices: 25625191--25625276 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 30
25625181 AATAAAATTA
*
25625191 ATCT-CGTCAAAATAATTTTTTCAGAACAC
1 ATCTACGTCAAAATTATTTTTTCAGAACAC
* * *
25625220 ATC-ACGTCAAATTTA-TTTTTCAAAACCC
1 ATCTACGTCAAAATTATTTTTTCAGAACAC
*
25625248 ATCTTC-TCAAAATTATTTTTTCTAGAACA
1 ATCTACGTCAAAATTATTTTTTC-AGAACA
25625277 ATAATTGGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
28 22 0.49
29 19 0.42
30 4 0.09
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (30 bp):
ATCTACGTCAAAATTATTTTTTCAGAACAC
Found at i:25625640 original size:43 final size:43
Alignment explanation
Indices: 25625534--25625640 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
25625524 TTTCCAAAAT
* *
25625534 TAATTTAAAATACCTTAAACCCTTATTTAAAATACCTTAAATCC
1 TAATTTAAAAAACCCTAAACCCTTATTTAAAATACC-TAAATCC
* *
25625578 TAATTTAAAAAA-CCAAAACCCTTATTTAAATTACAC-AAATCC
1 TAATTTAAAAAACCCTAAACCCTTATTTAAAATAC-CTAAATCC
25625620 TAATTTAAAAAACCCTAAACC
1 TAATTTAAAAAACCCTAAACC
25625641 TAAATAAACC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 18 0.32
43 26 0.46
44 12 0.21
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (43 bp):
TAATTTAAAAAACCCTAAACCCTTATTTAAAATACCTAAATCC
Found at i:25625643 original size:21 final size:22
Alignment explanation
Indices: 25625534--25625640 Score: 101
Period size: 22 Copynumber: 5.0 Consensus size: 22
25625524 TTTCCAAAAT
*
25625534 TAATTTAAAATACCTTAAACCC
1 TAATTTAAAATACCCTAAACCC
* * *
25625556 TTATTTAAAATACCTTAAATCC
1 TAATTTAAAATACCCTAAACCC
* *
25625578 TAATTTAAAA-AACCAAAACCC
1 TAATTTAAAATACCCTAAACCC
* * * *
25625599 TTATTTAAATTACAC-AAATCC
1 TAATTTAAAATACCCTAAACCC
*
25625620 TAATTTAAAAAACCCTAAACC
1 TAATTTAAAATACCCTAAACC
25625641 TAAATAAACC
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
21 31 0.47
22 35 0.53
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (22 bp):
TAATTTAAAATACCCTAAACCC
Found at i:25634745 original size:18 final size:18
Alignment explanation
Indices: 25634722--25634764 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
25634712 AGAATATTCC
* **
25634722 TTGTTCTTCTTTTTCTTT
1 TTGTTCTTCGTTTTAGTT
*
25634740 TTGTTCGTCGTTTTAGTT
1 TTGTTCTTCGTTTTAGTT
25634758 TTGTTCT
1 TTGTTCT
25634765 CTGTGGGGTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.14, G:0.14, T:0.70
Consensus pattern (18 bp):
TTGTTCTTCGTTTTAGTT
Found at i:25637497 original size:31 final size:31
Alignment explanation
Indices: 25637423--25637497 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
25637413 GTTTGCCCTC
* ** * *
25637423 TAAAGTTGTCCAAAAATATTTTTTTGGTACT
1 TAAACTTGTCCAAAAATATTTAATTGGAACA
* *
25637454 TAAATTTATCCAAAAATATTTAATTGGAACA
1 TAAACTTGTCCAAAAATATTTAATTGGAACA
*
25637485 TGAACTTGTCCAA
1 TAAACTTGTCCAA
25637498 TATATATATA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (31 bp):
TAAACTTGTCCAAAAATATTTAATTGGAACA
Found at i:25637504 original size:2 final size:2
Alignment explanation
Indices: 25637497--25637544 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
25637487 AACTTGTCCA
25637497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25637539 AT AT AT
1 AT AT AT
25637545 TAAAAATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25638043 original size:17 final size:16
Alignment explanation
Indices: 25638023--25638126 Score: 55
Period size: 17 Copynumber: 5.9 Consensus size: 16
25638013 ACAAATATGG
25638023 ATAAAAAATTAAAATT
1 ATAAAAAATTAAAATT
25638039 AATAAAAAAATTTAGAAAATT
1 -AT-AAAAAA-TT--AAAATT
* *
25638060 AAATAAAAATTATAAAAGT
1 --ATAAAAAAT-TAAAATT
*
25638079 ACAAAAAATATAAACATT
1 ATAAAAAAT-TAAA-ATT
* *
25638097 ATAAAAAATAAAAAAT
1 ATAAAAAATTAAAATT
* *
25638113 CTAGAAAATTAAAA
1 ATAAAAAATTAAAA
25638127 AAAATATAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
16 13 0.19
17 17 0.25
18 16 0.23
19 7 0.10
20 1 0.01
21 12 0.17
22 3 0.04
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
ATAAAAAATTAAAATT
Found at i:25638074 original size:9 final size:9
Alignment explanation
Indices: 25638044--25638145 Score: 50
Period size: 9 Copynumber: 11.1 Consensus size: 9
25638034 AAATTAATAA
25638044 AAAAATT-T
1 AAAAATTAT
25638052 AGAAAATTAAAT
1 A-AAAATT--AT
25638064 AAAAATTAT
1 AAAAATTAT
* *
25638073 -AAAAGTAC
1 AAAAATTAT
*
25638081 AAAAAATAT
1 AAAAATTAT
*
25638090 AAACATTAT
1 AAAAATTAT
*
25638099 AAAAAATA-
1 AAAAATTAT
25638107 AAAAATCTA-
1 AAAAAT-TAT
* *
25638116 GAAAATTAA
1 AAAAATTAT
*
25638125 AAAAAATAT
1 AAAAATTAT
25638134 AACACAATTAT
1 AA-A-AATTAT
25638145 A
1 A
25638146 TTTTTTTTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
8 14 0.20
9 42 0.59
10 1 0.01
11 12 0.17
12 2 0.03
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (9 bp):
AAAAATTAT
Found at i:25638076 original size:19 final size:19
Alignment explanation
Indices: 25638023--25638097 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
25638013 ACAAATATGG
*
25638023 ATAAAAAAT-TAAAATTAA
1 ATAAAAATTATAAAATTAA
* *
25638041 TAAAAAAATTTAGAAAATTAA
1 -ATAAAAA-TTATAAAATTAA
* *
25638062 ATAAAAATTATAAAAGTAC
1 ATAAAAATTATAAAATTAA
25638081 A-AAAAA-TATAAACATTA
1 ATAAAAATTATAAA-ATTA
25638098 TAAAAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
17 6 0.13
18 8 0.18
19 16 0.36
20 7 0.16
21 8 0.18
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (19 bp):
ATAAAAATTATAAAATTAA
Found at i:25638106 original size:18 final size:18
Alignment explanation
Indices: 25638023--25638112 Score: 69
Period size: 18 Copynumber: 4.9 Consensus size: 18
25638013 ACAAATATGG
25638023 ATAAAAAAT-TAAAATTA
1 ATAAAAAATATAAAATTA
*
25638040 ATAAAAAAATTTAGAAAATTAA
1 AT-AAAAAA--TATAAAATT-A
* *
25638062 ATAAAAATTATAAAAGT-
1 ATAAAAAATATAAAATTA
*
25638079 ACAAAAAATATAAACATT-
1 ATAAAAAATATAAA-ATTA
*
25638097 ATAAAAAATAAAAAAT
1 ATAAAAAATATAAAAT
25638113 CTAGAAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
17 16 0.28
18 20 0.34
19 7 0.12
20 1 0.02
21 11 0.19
22 3 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAAAAAATATAAAATTA
Found at i:25638110 original size:26 final size:26
Alignment explanation
Indices: 25638062--25638129 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
25638052 AGAAAATTAA
*
25638062 ATAAAAATTATAAAAGTACAAAAAAT
1 ATAAAAATTATAAAAATACAAAAAAT
* *
25638088 ATAAACATTATAAAAA-ATAAAAAAT
1 ATAAAAATTATAAAAATACAAAAAAT
* *
25638113 CTAGAAAATTAAAAAAA
1 ATA-AAAATTATAAAAA
25638130 ATATAACACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 10 0.29
26 25 0.71
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (26 bp):
ATAAAAATTATAAAAATACAAAAAAT
Found at i:25638288 original size:18 final size:18
Alignment explanation
Indices: 25638214--25638288 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
25638204 AAATTAAAAT
* *
25638214 AAAATTATAAAAT-ATTA
1 AAAAATATAAAATGATAA
* *
25638231 TAAAATATAAAAAGTATAA
1 AAAAATATAAAATG-ATAA
* * *
25638250 AAATAATAAAAAATTACAA
1 AAA-AATATAAAATGATAA
25638269 AAAAATATAAAATGATAA
1 AAAAATATAAAATGATAA
25638287 AA
1 AA
25638289 GTACAATGGA
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
17 10 0.23
18 14 0.33
19 11 0.26
20 8 0.19
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAATGATAA
Found at i:25642538 original size:20 final size:20
Alignment explanation
Indices: 25642513--25642556 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
25642503 AATGCTATAC
* *
25642513 AGAGGCATCATAGTGCAAAT
1 AGAGGCACCAGAGTGCAAAT
25642533 AGAGGCACCAGAGTGCAAAT
1 AGAGGCACCAGAGTGCAAAT
25642553 AGAG
1 AGAG
25642557 ACATTGAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.30, T:0.14
Consensus pattern (20 bp):
AGAGGCACCAGAGTGCAAAT
Found at i:25642597 original size:20 final size:20
Alignment explanation
Indices: 25642524--25642600 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
25642514 GAGGCATCAT
*
25642524 AGTGCAAATAGAGGCAC-CA
1 AGTGCAAATAGAGGCACTGA
* *
25642543 GAGTGCAAATAGAGACATTGA
1 -AGTGCAAATAGAGGCACTGA
** **
25642564 AGTGTGACCAGAGGCACTGA
1 AGTGCAAATAGAGGCACTGA
25642584 AGTGCAAATAGAGGCAC
1 AGTGCAAATAGAGGCAC
25642601 GATTGTACAA
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.30, T:0.14
Consensus pattern (20 bp):
AGTGCAAATAGAGGCACTGA
Found at i:25642689 original size:80 final size:80
Alignment explanation
Indices: 25642535--25642692 Score: 183
Period size: 80 Copynumber: 2.0 Consensus size: 80
25642525 GTGCAAATAG
* * * * * * * * * *
25642535 AGGCACCAGAGTGCAAATAGAGACATTGAAGTGTGACCAGAGGCACTGAAGTGCAAATAGAGGCA
1 AGGCACCAGAGTGCAAACAGAAACACTGAAATCTGAACAGAGGCACCGAAGCGCAAACAAAGGCA
* **
25642600 CGATTGTACAATCAT
66 CCAAAGTACAATCAT
25642615 AGGCACCAGAGTGCAAACAGAAACACCT-AAATCTGAACAGAGGCACCGAAGCGCAAACAAAGGC
1 AGGCACCAGAGTGCAAACAGAAACA-CTGAAATCTGAACAGAGGCACCGAAGCGCAAACAAAGGC
25642679 ACCAAAGTACAATC
65 ACCAAAGTACAATC
25642693 CTGTACAGGC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 63 0.98
81 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (80 bp):
AGGCACCAGAGTGCAAACAGAAACACTGAAATCTGAACAGAGGCACCGAAGCGCAAACAAAGGCA
CCAAAGTACAATCAT
Found at i:25643381 original size:22 final size:23
Alignment explanation
Indices: 25643339--25643382 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
25643329 CCTTCAAATA
25643339 CTAAAATTTACAGAATTTTCATG
1 CTAAAATTTACAGAATTTTCATG
* *
25643362 CTAAACTTTACA-TATTTTCAT
1 CTAAAATTTACAGAATTTTCAT
25643383 ATTAATCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (23 bp):
CTAAAATTTACAGAATTTTCATG
Found at i:25646472 original size:31 final size:29
Alignment explanation
Indices: 25646421--25646484 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 29
25646411 TATTGATTTA
25646421 TAAAATATGAAAGACAAAAACATCCAAAT
1 TAAAATATGAAAGACAAAAACATCCAAAT
**
25646450 TAAAATATGAAAAAGATGAAAACATCCAAAT
1 TAAAATATG--AAAGACAAAAACATCCAAAT
25646481 TAAA
1 TAAA
25646485 CCAAAGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 9 0.29
31 22 0.71
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (29 bp):
TAAAATATGAAAGACAAAAACATCCAAAT
Found at i:25646763 original size:16 final size:14
Alignment explanation
Indices: 25646699--25646765 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 14
25646689 TTAAAAATAC
25646699 ATAAAAA-TTTAAA
1 ATAAAAATTTTAAA
*
25646712 ATTTATAAATTTTAAA
1 A--TAAAAATTTTAAA
* *
25646728 ATAAAAATATGAAA
1 ATAAAAATTTTAAA
25646742 AGTAAAAACTCTTTAAA
1 A-TAAAAA-T-TTTAAA
25646759 ATAAAAA
1 ATAAAAA
25646766 AATAAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
13 1 0.02
14 11 0.26
15 11 0.26
16 14 0.33
17 5 0.12
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (14 bp):
ATAAAAATTTTAAA
Found at i:25647023 original size:43 final size:43
Alignment explanation
Indices: 25646975--25647058 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
25646965 GGGTATGGGC
25646975 CAAATTGACAAAAAAAATTATTAATGTTGAGGGCTAAAAAAAT
1 CAAATTGACAAAAAAAATTATTAATGTTGAGGGCTAAAAAAAT
25647018 CAAATTGACAAAAAAAATTATTAATGTTGAGGGCTAAAAAA
1 CAAATTGACAAAAAAAATTATTAATGTTGAGGGCTAAAAAA
25647059 GTTTAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (43 bp):
CAAATTGACAAAAAAAATTATTAATGTTGAGGGCTAAAAAAAT
Found at i:25647354 original size:17 final size:17
Alignment explanation
Indices: 25647330--25647362 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25647320 TAACATTAAA
25647330 TTTTAAAAT-TTTTATT
1 TTTTAAAATATTTTATT
25647346 TTTTAAAAATATTTTAT
1 TTTT-AAAATATTTTAT
25647363 AGAACTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAAATATTTTATT
Found at i:25648983 original size:45 final size:45
Alignment explanation
Indices: 25648919--25649014 Score: 192
Period size: 45 Copynumber: 2.1 Consensus size: 45
25648909 TGTGTTCCTT
25648919 TAGATGAGTTCATTCTTTGTATTTATATAATGTGGTCACTGTCCA
1 TAGATGAGTTCATTCTTTGTATTTATATAATGTGGTCACTGTCCA
25648964 TAGATGAGTTCATTCTTTGTATTTATATAATGTGGTCACTGTCCA
1 TAGATGAGTTCATTCTTTGTATTTATATAATGTGGTCACTGTCCA
25649009 TAGATG
1 TAGATG
25649015 TGATATGTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (45 bp):
TAGATGAGTTCATTCTTTGTATTTATATAATGTGGTCACTGTCCA
Found at i:25655391 original size:9 final size:9
Alignment explanation
Indices: 25655377--25655474 Score: 50
Period size: 8 Copynumber: 11.3 Consensus size: 9
25655367 AATAATTCAA
25655377 AAAAATTAT
1 AAAAATTAT
25655386 AAAAA-TAT
1 AAAAATTAT
25655394 -AAAA-TAT
1 AAAAATTAT
*
25655401 ATAAA-TAT
1 AAAAATTAT
*
25655409 --AAATTTT
1 AAAAATTAT
25655416 AAAAATTCAT
1 AAAAATT-AT
* *
25655426 AATAGTATAT
1 AAAAAT-TAT
25655436 AAAAATTA-
1 AAAAATTAT
*
25655444 AAAATTTTAT
1 AAAA-ATTAT
*
25655454 AAAAATGA-
1 AAAAATTAT
25655462 AAAAATATAT
1 AAAAAT-TAT
25655472 AAA
1 AAA
25655475 TTTTAGAACT
Statistics
Matches: 68, Mismatches: 11, Indels: 19
0.69 0.11 0.19
Matches are distributed among these distances:
6 3 0.04
7 9 0.13
8 19 0.28
9 18 0.26
10 18 0.26
11 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:25655406 original size:15 final size:16
Alignment explanation
Indices: 25655378--25655421 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
25655368 ATAATTCAAA
25655378 AAAATTATAAAAATAT
1 AAAATTATAAAAATAT
*
25655394 AAAA-TATATAAATAT
1 AAAATTATAAAAATAT
*
25655409 -AAATTTTAAAAAT
1 AAAATTATAAAAAT
25655422 TCATAATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 17 0.71
16 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:25655472 original size:18 final size:18
Alignment explanation
Indices: 25655431--25655474 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
25655421 TTCATAATAG
* *
25655431 TATATAAAAATTAAAAAT
1 TATATAAAAATGAAAAAA
*
25655449 TTTATAAAAATGAAAAAA
1 TATATAAAAATGAAAAAA
25655467 TATATAAA
1 TATATAAA
25655475 TTTTAGAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TATATAAAAATGAAAAAA
Found at i:25655559 original size:17 final size:16
Alignment explanation
Indices: 25655534--25655593 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
25655524 AAATTTTTAT
*
25655534 TTTTCAAAAATTCTAAA
1 TTTTAAAAAATT-TAAA
*
25655551 TTCTAAAAAATTTGAAA
1 TTTTAAAAAATTT-AAA
* *
25655568 TTTTGAAAAATTTTAAC
1 TTTT-AAAAAATTTAAA
25655585 TTTTAAAAA
1 TTTTAAAAA
25655594 CTATAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.17
17 22 0.61
18 8 0.22
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (16 bp):
TTTTAAAAAATTTAAA
Found at i:25656880 original size:57 final size:59
Alignment explanation
Indices: 25656807--25656934 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 59
25656797 ACATAGGTTT
* * *
25656807 AAATTGTAAATGTTTTAT-TTTCTTAGCAAAAA-AAATTATTTACATTA-AAAATATAAA
1 AAATTGTAAATATTTTATATTTCTTAGCAAAAAGAAATTATTAAC-GTAGAAAATATAAA
* * * *
25656864 AAATTGTAAATATTTTATATTTTTTAGTAAAAAGGAAATTATTAACGTAGAGAATATGAA
1 AAATTGTAAATATTTTATATTTCTTAGCAAAAA-GAAATTATTAACGTAGAAAATATAAA
25656924 AAATTGTAAAT
1 AAATTGTAAAT
25656935 TGTTATAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 17 0.28
58 12 0.20
59 2 0.03
60 29 0.48
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (59 bp):
AAATTGTAAATATTTTATATTTCTTAGCAAAAAGAAATTATTAACGTAGAAAATATAAA
Found at i:25657138 original size:17 final size:17
Alignment explanation
Indices: 25657103--25657144 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
25657093 ATAAAAAGTA
*
25657103 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
25657121 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
25657138 GTTAAAG
1 GTTAAAG
25657145 GTCAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:25661995 original size:17 final size:17
Alignment explanation
Indices: 25661960--25662001 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
25661950 ATAAAAAGTA
*
25661960 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
25661978 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
25661995 GTTAAAG
1 GTTAAAG
25662002 GTCAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:25664241 original size:52 final size:53
Alignment explanation
Indices: 25664185--25664356 Score: 142
Period size: 52 Copynumber: 3.2 Consensus size: 53
25664175 GTAAAAATTT
*
25664185 GGGGAAAGTAAAAGGAAAAAAAGTTTTTGGGGTTTAGAGGAA-ATAAGTTTTG-
1 GGGGAAAGTAAAAGGAAAAAAAGTTTTTGGGG-TTAGAGGAAGAAAAGTTTTGA
** * *
25664237 GGGGAAAACAAAAGGAAAAAAA--TTTTGAGGGTTGGAGGAAGTAAAATTTTTGA
1 GGGGAAAGTAAAAGGAAAAAAAGTTTTTG-GGGTTAGAGGAAG-AAAAGTTTTGA
* * * *
25664290 GGGGCAAGTTAAAAGG-AAAAAAGTTTTGGGGGGTTTG-GGAAGTAAAATTTTTTG-
1 GGGGAAAG-TAAAAGGAAAAAAAGTTTT-TGGGGTTAGAGGAAG-AAAA-GTTTTGA
25664344 GGCGGAAAGTAAA
1 GG-GGAAAGTAAA
25664357 TGTTTGATAT
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
50 13 0.13
51 3 0.03
52 28 0.28
53 12 0.12
54 22 0.22
55 20 0.20
56 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.25
Consensus pattern (53 bp):
GGGGAAAGTAAAAGGAAAAAAAGTTTTTGGGGTTAGAGGAAGAAAAGTTTTGA
Found at i:25665721 original size:24 final size:25
Alignment explanation
Indices: 25665685--25665799 Score: 90
Period size: 27 Copynumber: 4.4 Consensus size: 25
25665675 CAAACCAACC
*
25665685 ATAACTATAATTATTAAATAAAATATA
1 ATAATTATAA-TA-TAAATAAAATATA
* * *
25665712 ATAACTATTATAATGAAAAAAAATATA
1 ATAATTATAAT-AT-AAATAAAATATA
*
25665739 TTAATTATAACTATAAA-AAATATATA
1 ATAATTATAA-TATAAATAAA-ATATA
* *
25665765 ATAATTATAAT-GAAATAAAATAAA
1 ATAATTATAATATAAATAAAATATA
*
25665789 ATAATTGTAAT
1 ATAATTATAAT
25665800 GTATGGTAGA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
24 17 0.23
25 7 0.09
26 19 0.26
27 30 0.41
28 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (25 bp):
ATAATTATAATATAAATAAAATATA
Found at i:25665784 original size:26 final size:25
Alignment explanation
Indices: 25665704--25665800 Score: 96
Period size: 26 Copynumber: 3.9 Consensus size: 25
25665694 ATTATTAAAT
25665704 AAAATATAATAACT-ATTATAATGAAA
1 AAAATAT-ATAA-TAATTATAATGAAA
*
25665730 AAAA-ATATATTAATTATAACT-ATAA
1 AAAATATATAATAATTATAA-TGA-AA
25665755 AAAATATATAATAATTATAATGAAA
1 AAAATATATAATAATTATAATGAAA
*
25665780 TAAAATA-A-AATAATTGTAATG
1 -AAAATATATAATAATTATAATG
25665801 TATGGTAGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
23 1 0.02
24 23 0.37
25 13 0.21
26 25 0.40
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAATATATAATAATTATAATGAAA
Found at i:25673253 original size:19 final size:19
Alignment explanation
Indices: 25673231--25673275 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25673221 TTATATTAGG
25673231 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
25673250 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
25673269 ATTTAAT
1 ATTTAAT
25673276 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:25674111 original size:21 final size:21
Alignment explanation
Indices: 25674082--25674121 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25674072 CTTCCCTATT
25674082 TTCTATTTCTTTTATTTTTAA
1 TTCTATTTCTTTTATTTTTAA
*
25674103 TTCTGTTTCTTTTATTTTT
1 TTCTATTTCTTTTATTTTT
25674122 TCTCAGATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.03, T:0.75
Consensus pattern (21 bp):
TTCTATTTCTTTTATTTTTAA
Found at i:25685779 original size:9 final size:9
Alignment explanation
Indices: 25685765--25685791 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
25685755 GACTATCTTC
25685765 AAATGATGA
1 AAATGATGA
25685774 AAATGATGA
1 AAATGATGA
25685783 AAATGATGA
1 AAATGATGA
25685792 TGTCTTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (9 bp):
AAATGATGA
Found at i:25688614 original size:27 final size:27
Alignment explanation
Indices: 25688574--25688699 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
25688564 AAGTTTGAGC
*
25688574 AATGAGCAAATATTCTGTATCTGGCTCA
1 AATGAGC-GATATTCTGTATCTGGCTCA
* * * **
25688602 AATGAACGATATTTTGTATATGGCTTT
1 AATGAGCGATATTCTGTATCTGGCTCA
* * *
25688629 AATTAGCGATATTCTTTATCTGGCTCG
1 AATGAGCGATATTCTGTATCTGGCTCA
* **
25688656 AATGAGCTATATTCTGTATCTGGCTTG
1 AATGAGCGATATTCTGTATCTGGCTCA
* *
25688683 AACGAGCGGTATTCTGT
1 AATGAGCGATATTCTGT
25688700 TACTGCTGAA
Statistics
Matches: 78, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
27 72 0.92
28 6 0.08
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (27 bp):
AATGAGCGATATTCTGTATCTGGCTCA
Found at i:25688696 original size:54 final size:54
Alignment explanation
Indices: 25688583--25688713 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 54
25688573 CAATGAGCAA
* * * * * **
25688583 ATATTCTGTATCTGGCTCAAATGAACGATATTTTGTATATGGCTTTAATTAGCG
1 ATATTCTTTATCTGGCTCGAATGAGCGATATTCTGTATATGGCTTGAACGAGCG
* *
25688637 ATATTCTTTATCTGGCTCGAATGAGCTATATTCTGTATCTGGCTTGAACGAGCG
1 ATATTCTTTATCTGGCTCGAATGAGCGATATTCTGTATATGGCTTGAACGAGCG
*
25688691 GTATTCTGTTA-CT-GCT-GAATGAG
1 ATATTCT-TTATCTGGCTCGAATGAG
25688714 ATCATGCATA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
52 7 0.11
53 3 0.05
54 53 0.80
55 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (54 bp):
ATATTCTTTATCTGGCTCGAATGAGCGATATTCTGTATATGGCTTGAACGAGCG
Found at i:25690128 original size:15 final size:16
Alignment explanation
Indices: 25690105--25690138 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
25690095 TATTAATAAA
*
25690105 GTAAGAAAGTT-TGGG
1 GTAAAAAAGTTCTGGG
25690120 GTAAAAAAGTTCTGGG
1 GTAAAAAAGTTCTGGG
25690136 GTA
1 GTA
25690139 GTACATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.35, C:0.03, G:0.35, T:0.26
Consensus pattern (16 bp):
GTAAAAAAGTTCTGGG
Found at i:25694611 original size:26 final size:26
Alignment explanation
Indices: 25694573--25694626 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
25694563 TTTTCATTTT
*
25694573 AATTCAATCCATTT-TTTTTCTTTCAA
1 AATTCAATCCATTTATTTTT-TTTAAA
* *
25694599 AATTCTATTCATTTATTTTTTTTAAA
1 AATTCAATCCATTTATTTTTTTTAAA
25694625 AA
1 AA
25694627 AAAGGAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (26 bp):
AATTCAATCCATTTATTTTTTTTAAA
Found at i:25698324 original size:12 final size:11
Alignment explanation
Indices: 25698309--25698343 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
25698299 ATACAGAAAG
25698309 AAATGCAAGAGC
1 AAATGCAAGA-C
25698321 AAATGCAAGCAC
1 AAATGCAAG-AC
25698333 AAATGCAAGAC
1 AAATGCAAGAC
25698344 CATTTGGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.09
12 19 0.86
13 1 0.05
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.09
Consensus pattern (11 bp):
AAATGCAAGAC
Found at i:25706255 original size:38 final size:38
Alignment explanation
Indices: 25706205--25706757 Score: 333
Period size: 39 Copynumber: 14.5 Consensus size: 38
25706195 TCTTACTCCG
* *
25706205 ATCATGGAGCAGATTGAAGCATCCAATCTTTTACCCCG
1 ATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCCA
* * *
25706243 ATCATGGGGCAGATTGAAGAATTCAATCTCTT-----A
1 ATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCCA
* * *
25706276 ATCA-GAAGGCAGATTGAAG-ATACGTAATCTTTTACCCTA
1 ATCATG-GGGCAGATTGAAGCAT-C-CAATCTTTTACCCCA
* * *
25706315 ATCA-GAGGGCAGATTAAAGACATCCAATCTCTTACCCCG
1 ATCATG-GGGCAGATTGAAG-CATCCAATCTTTTACCCCA
** ***
25706354 ATCATGGGATAGATTGAAGCATCCAATCTTTTACTTTA
1 ATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCCA
* * * * *
25706392 ATCA-GAAGGCAAATTGAAGACA-CATCAACCTTTTACCTCG
1 ATCATG-GGGCAGATTGAAG-CATC--CAATCTTTTACCCCA
* * *
25706432 ATCATGAGGTAGATTGAAGCATCCAATCTTTTACCCTA
1 ATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCCA
* * *** * *
25706470 ATTA-GAGGACAGATTGAAGACAGGTAATCTCTTACTCCA
1 ATCATG-GGGCAGATTGAAG-CATCCAATCTTTTACCCCA
* * * * *
25706509 ATCATGGAGCAGATTGAAGACA-CTAATCTGTTACCTCG
1 ATCATGGGGCAGATTGAAG-CATCCAATCTTTTACCCCA
* *
25706547 ATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTA
1 ATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCCA
* * * *
25706585 ATCA-GAGGACAGATTGAAG-ATAAACAATCTTTTACCTCG
1 ATCATG-GGGCAGATTGAAGCAT--CCAATCTTTTACCCCA
* * *
25706624 ATCATGGGGCAGATTGAAGAATCTAATCTTTTACCCTA
1 ATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCCA
* ** ** * *
25706662 ATTAAAGGGCAGATTGAAGACAGACAATCTCTTACTCCA
1 ATCATGGGGCAGATTGAAG-CATCCAATCTTTTACCCCA
** * * *
25706701 ATCATGGATCAGATTGAAGACATGCAATCTCTTACCCCG
1 ATCATGGGGCAGATTGAAG-CATCCAATCTTTTACCCCA
*
25706740 ATCATGGGGTAGATTGAA
1 ATCATGGGGCAGATTGAA
25706758 ACACCCAAAT
Statistics
Matches: 392, Mismatches: 96, Indels: 53
0.72 0.18 0.10
Matches are distributed among these distances:
32 3 0.01
33 16 0.04
34 7 0.02
37 7 0.02
38 161 0.41
39 162 0.41
40 33 0.08
41 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (38 bp):
ATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCCA
Found at i:25706325 original size:72 final size:72
Alignment explanation
Indices: 25706213--25706348 Score: 179
Period size: 72 Copynumber: 1.9 Consensus size: 72
25706203 CGATCATGGA
* * *
25706213 GCAGATTGAAGCATCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGA-ATTCAATCTCTTAA
1 GCAGATTGAAGCATCCAATCTTTTACCCCAATCATGGGGCAGATTAAAGACATCCAATCTCTTAA
25706277 TCAGAAG
66 TCAGAAG
* *
25706284 GCAGATTGAAG-ATACGTAATCTTTTACCCTAATCA-GAGGGCAGATTAAAGACATCCAATCTCT
1 GCAGATTGAAGCAT-C-CAATCTTTTACCCCAATCATG-GGGCAGATTAAAGACATCCAATCTCT
25706347 TA
63 TA
25706349 CCCCGATCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
70 2 0.04
71 13 0.23
72 29 0.52
73 12 0.21
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (72 bp):
GCAGATTGAAGCATCCAATCTTTTACCCCAATCATGGGGCAGATTAAAGACATCCAATCTCTTAA
TCAGAAG
Found at i:25706387 original size:77 final size:78
Alignment explanation
Indices: 25706189--25706757 Score: 373
Period size: 77 Copynumber: 7.4 Consensus size: 78
25706179 AAGCTACCTA
* * **
25706189 CCAAACTCTTACTCCGATCAT-GGAGCAGATTGAAGCATCCAATCTTTTACCCCGATCATG-GGG
1 CCAATCTCTTACCCCGATCATGGGA-CAGATTGAAGCATCCAATCTTTTACCCTAATCATGAGGG
25706252 CAGATTGAAGA-AT
65 CAGATTGAAGACAT
* ** * *
25706265 TCAATCTCTTAATCAGA--A--GG-CAGATTGAAG-ATACGTAATCTTTTACCCTAATCA-GAGG
1 CCAATCTCTTACCCCGATCATGGGACAGATTGAAGCAT-C-CAATCTTTTACCCTAATCATGAGG
*
25706323 GCAGATTAAAGACAT
64 GCAGATTGAAGACAT
* ** *
25706338 CCAATCTCTTACCCCGATCATGGGATAGATTGAAGCATCCAATCTTTTACTTTAATCA-GAAGGC
1 CCAATCTCTTACCCCGATCATGGGACAGATTGAAGCATCCAATCTTTTACCCTAATCATGAGGGC
*
25706402 AAATTGAAGACA-
66 AGATTGAAGACAT
* * * * *
25706414 CATCAACCTTTTACCTCGATCATGAGG-TAGATTGAAGCATCCAATCTTTTACCCTAATTA-GAG
1 C--CAATCTCTTACCCCGATCATG-GGACAGATTGAAGCATCCAATCTTTTACCCTAATCATGAG
* *
25706477 GACAGATTGAAGACAG
63 GGCAGATTGAAGACAT
** * * * * *
25706493 GTAATCTCTTACTCCAATCAT-GGAGCAGATTGAAGACA-CTAATCTGTTA-CCTCGATCATGA-
1 CCAATCTCTTACCCCGATCATGGGA-CAGATTGAAG-CATCCAATCTTTTACCCT-AATCATGAG
25706554 GGCAGATTGAAG-CAT
63 GGCAGATTGAAGACAT
* ** * *
25706569 CCAATCTTTTACCCTAATCA-GAGGACAGATTGAAG-ATAAACAATCTTTTA-CCTCGATCATG-
1 CCAATCTCTTACCCCGATCATG-GGACAGATTGAAGCAT--CCAATCTTTTACCCT-AATCATGA
25706630 GGGCAGATTGAAGA-AT
62 GGGCAGATTGAAGACAT
* * ** * * ** *
25706646 CTAATCTTTTACCCTAATTAAAGGG-CAGATTGAAGACAGACAATCTCTTACTCC-AATCATG-G
1 CCAATCTCTTACCCCGA-TCATGGGACAGATTGAAG-CATCCAATCTTTTAC-CCTAATCATGAG
**
25706708 ATCAGATTGAAGACAT
63 GGCAGATTGAAGACAT
* **
25706724 GCAATCTCTTACCCCGATCATGGGGTAGATTGAA
1 CCAATCTCTTACCCCGATCATGGGACAGATTGAA
25706758 ACACCCAAAT
Statistics
Matches: 394, Mismatches: 65, Indels: 66
0.75 0.12 0.13
Matches are distributed among these distances:
70 2 0.01
71 12 0.03
72 29 0.07
73 17 0.04
74 2 0.01
75 3 0.01
76 44 0.11
77 174 0.44
78 103 0.26
79 8 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (78 bp):
CCAATCTCTTACCCCGATCATGGGACAGATTGAAGCATCCAATCTTTTACCCTAATCATGAGGGC
AGATTGAAGACAT
Found at i:25706714 original size:39 final size:38
Alignment explanation
Indices: 25706194--25706757 Score: 204
Period size: 38 Copynumber: 14.7 Consensus size: 38
25706184 ACCTACCAAA
* **
25706194 CTCTTACTCCGATCATGGAGCAGATTGAAG-CATCCAAT
1 CTCTTAC-CCAATCATGGAGCAGATTGAAGACAGACAAT
* * * **
25706232 CTTTTACCCCGATCATGGGGCAGATTGAAGA-ATTCAAT
1 CTCTTA-CCCAATCATGGAGCAGATTGAAGACAGACAAT
* * *
25706270 CTCTT----AATCA-GAAGGCAGATTGAAGATACG-TAAT
1 CTCTTACCCAATCATGGA-GCAGATTGAAGACA-GACAAT
* * * **
25706304 CTTTTACCCTAATCA-GAGGGCAGATTAAAGACATCCAAT
1 CTCTTACCC-AATCATG-GAGCAGATTGAAGACAGACAAT
* * **
25706343 CTCTTACCCCGATCATGG-GATAGATTGAAG-CATCCAAT
1 CTCTTA-CCCAATCATGGAG-CAGATTGAAGACAGACAAT
* ** * * * *
25706381 CTTTTACTTTAATCA-GAAGGCAAATTGAAGACACATCAAC
1 CTCTTAC-CCAATCATGGA-GCAGATTGAAGACAGA-CAAT
* * * **
25706421 CTTTTACCTCGATCAT-GAGGTAGATTGAAG-CATCCAAT
1 CTCTTACC-CAATCATGGA-GCAGATTGAAGACAGACAAT
* * * **
25706459 CTTTTACCCTAATTAGAGGA-CAGATTGAAGACAGGTAAT
1 CTCTTACCC-AATCA-TGGAGCAGATTGAAGACAGACAAT
25706498 CTCTTACTCCAATCATGGAGCAGATTGAAGAC--ACTAAT
1 CTCTTAC-CCAATCATGGAGCAGATTGAAGACAGAC-AAT
* * **
25706536 CTGTTACCTCGATCAT-GAGGCAGATTGAAG-CATCCAAT
1 CTCTTACC-CAATCATGGA-GCAGATTGAAGACAGACAAT
* * * *
25706574 CTTTTACCCTAATCAGAGGA-CAGATTGAAGATAAACAAT
1 CTCTTACCC-AATCA-TGGAGCAGATTGAAGACAGACAAT
* * * *
25706613 CTTTTACCTCGATCATGGGGCAGATTGAAGA-A-TCTAAT
1 CTCTTACC-CAATCATGGAGCAGATTGAAGACAGAC-AAT
* * *
25706651 CTTTTACCCTAATTAAAGG-GCAGATTGAAGACAGACAAT
1 CTCTTACCC-AA-TCATGGAGCAGATTGAAGACAGACAAT
*
25706690 CTCTTACTCCAATCATGGATCAGATTGAAGACATG-CAAT
1 CTCTTAC-CCAATCATGGAGCAGATTGAAGACA-GACAAT
* * *
25706729 CTCTTACCCCGATCATGGGGTAGATTGAA
1 CTCTTA-CCCAATCATGGAGCAGATTGAA
25706758 ACACCCAAAT
Statistics
Matches: 402, Mismatches: 76, Indels: 95
0.70 0.13 0.17
Matches are distributed among these distances:
32 1 0.00
33 16 0.04
34 8 0.02
37 10 0.02
38 169 0.42
39 157 0.39
40 41 0.10
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (38 bp):
CTCTTACCCAATCATGGAGCAGATTGAAGACAGACAAT
Found at i:25712678 original size:27 final size:27
Alignment explanation
Indices: 25712593--25712679 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
25712583 GCAATGAGTG
* *
25712593 AATATTCTGTATCAGACTCGAATGAGC
1 AATATTCTGTATCTGGCTCGAATGAGC
* * *
25712620 GATATTTTGTATCTGGCTTGAATGAGC
1 AATATTCTGTATCTGGCTCGAATGAGC
* * * *
25712647 GATATTCTATATCTGGCTCGAATTAGA
1 AATATTCTGTATCTGGCTCGAATGAGC
25712674 AATATT
1 AATATT
25712680 TTTTGTCGAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (27 bp):
AATATTCTGTATCTGGCTCGAATGAGC
Found at i:25713743 original size:41 final size:41
Alignment explanation
Indices: 25713689--25713772 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 41
25713679 AAAAAAATTT
25713689 AATGAAAAATAAATAAATAAACA-AA-AAAGAT-AATAACAATA
1 AATGAAAAATAAAT-AATAAA-ATAATAAA-ATAAATAACAATA
* *
25713730 AATGCAAATTAAATAATAAAATAATAAAATAAATAACAATA
1 AATGAAAAATAAATAATAAAATAATAAAATAAATAACAATA
25713771 AA
1 AA
25713773 ATGACATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
39 1 0.03
40 10 0.26
41 27 0.71
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (41 bp):
AATGAAAAATAAATAATAAAATAATAAAATAAATAACAATA
Found at i:25714192 original size:27 final size:26
Alignment explanation
Indices: 25714156--25714206 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
25714146 GCTTTCAATT
*
25714156 TTCTTTGAATGTATGTCTAAAAAAAAA
1 TTCTTTGAATGT-TGTATAAAAAAAAA
25714183 TTCTTTGAATGTTGTATAAAAAAA
1 TTCTTTGAATGTTGTATAAAAAAA
25714207 TCTTTGAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (26 bp):
TTCTTTGAATGTTGTATAAAAAAAAA
Found at i:25714226 original size:23 final size:24
Alignment explanation
Indices: 25714176--25714229 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
25714166 GTATGTCTAA
* *
25714176 AAAAAAATTCTTTGAATGTTGTAT
1 AAAAAAATTCTTTGAATCTTATAT
25714200 AAAAAAA-TCTTTGAATCTTAT-T
1 AAAAAAATTCTTTGAATCTTATAT
25714222 CAAAAAAA
1 -AAAAAAA
25714230 AAATCCTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 19 0.70
24 7 0.26
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (24 bp):
AAAAAAATTCTTTGAATCTTATAT
Found at i:25715120 original size:49 final size:49
Alignment explanation
Indices: 25714872--25715625 Score: 481
Period size: 49 Copynumber: 15.4 Consensus size: 49
25714862 TCGTTACAGT
** * * *
25714872 TTTAAT-TTGTCCCTCTTTGGTTTTAGAGGTGTAAGATTCACCTTTG-AGA
1 TTTAATCTT-TCCCTCTTCAGTTTTAG-GGTGTAAGATTCACCGTTGCGGC
* * *
25714921 TTTCAATCTGTCCCTCTTC-GATTTTAGAGGTATAAGATTCACCGTTACGGC
1 TTT-AATCTTTCCCTCTTCAG-TTTTAG-GGTGTAAGATTCACCGTTGCGGC
* * * * *
25714972 TTTAAT-TTCTCTCTCTTCAGTTTTAGGGGTGTAAGATT---TGTCGTGAC
1 TTTAATCTT-TCCCTCTTCAGTTTTA-GGGTGTAAGATTCACCGTTGCGGC
* * * * *** ** *
25715019 TTTAATCTATCCCTCTATTA-TTTTAAGGTGTAAAATTCGTTGTTGTAGT
1 TTTAATCTTTCCCTCT-TCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
* **
25715068 TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATCCACCGTTGCGTT
1 TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
* * * * *
25715117 TTTAATCTTTTCGTCTTC-GATTTTAGTGTGTAAGATCCACCGTTGCAGC
1 TTTAATCTTTCCCTCTTCAG-TTTTAGGGTGTAAGATTCACCGTTGCGGC
* * * ** * * *
25715166 TTTAATCTTTCCCTCTTCGGTTTTAAGGTGTTAGATTTGCCATTACGAC
1 TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
* * **
25715215 TTTAATCTTTCCCTCTTC-GATTTTAAGGTGTAAGATTCACCATTATGGC
1 TTTAATCTTTCCCTCTTCAG-TTTTAGGGTGTAAGATTCACCGTTGCGGC
* * * * * *
25715264 TTTAATCTATCCCTTTTTAGTTTTAGGGTGTAAGATTTACCGTTACGGA
1 TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
* ** *** * *
25715313 TTTAATCTTTCTCTCTTTGGTTTTAGGGTGTAAGATTCGTAGTTACGAC
1 TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
* * * * * *
25715362 TTTAATCTTTCCCTATT-TGATTTTAGGGTATAAGATTCATCGTTACGGT
1 TTTAATCTTTCCCTCTTCAG-TTTTAGGGTGTAAGATTCACCGTTGCGGC
* * *** * *
25715411 TTTAATCTTTCCCT-TTTAATTTTAGGGTGTAAGATTCGTTGTTGTGAC
1 TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
* * * *
25715459 TTTAATCTTTTCCCTCTT-TGATTTTAGGGTGTAAGATTCATCATTGTGGC
1 TTTAATC-TTTCCCTCTTCAG-TTTTAGGGTGTAAGATTCACCGTTGCGGC
* * * * * ** ***
25715509 TTTGATTTTTCCCTCTTCAATTTTAGAGTGTAAGATTTATTGTTATAGC
1 TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
* * ** *
25715558 TTTAATCTTTTCCCTTTTTAGTTTTAGGGTGTAAGATTCGTCGTTACGGC
1 TTTAATC-TTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
*
25715608 TTTAATCTTTCCGTCTTC
1 TTTAATCTTTCCCTCTTC
25715626 CACTTTAGGA
Statistics
Matches: 558, Mismatches: 123, Indels: 48
0.77 0.17 0.07
Matches are distributed among these distances:
46 10 0.02
47 21 0.04
48 39 0.07
49 347 0.62
50 134 0.24
51 7 0.01
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.46
Consensus pattern (49 bp):
TTTAATCTTTCCCTCTTCAGTTTTAGGGTGTAAGATTCACCGTTGCGGC
Found at i:25715219 original size:147 final size:146
Alignment explanation
Indices: 25714843--25715624 Score: 561
Period size: 147 Copynumber: 5.3 Consensus size: 146
25714833 CCTCTACAGC
* * * * *
25714843 TTTAGGGGTATAAGATTTATCGTTACAGTTTTAAT-TTGTCCCTCTTTGGTTTTAGAGGTGTAAG
1 TTTA-GGGTGTAAGATTCACCGTTGCAGCTTTAATCTT-TCCCTCTTTGGTTTTAG-GGTGTAAG
* * * *
25714907 ATTCACCTTTGA-GA-TTTCAATCTGTCCCTCTTC-GATTTTAGAGGTATAAGATTCACCGTTAC
63 ATTC-GCATT-ACGACTTT-AATCTTTCCCTCTTCAGATTTTAG-GGTGTAAGATTCACCGTTAC
* * * *
25714969 GGCTTTAAT-TTCTCTCTCTTCAGT
124 GGTTTTAATCTT-TCCCT-TTTAAT
*** * * * *
25714993 TTTAGGGGTGTAAGATTTGTCG-TG-A-CTTTAATCTATCCCTCTATT-ATTTTAAGGTGTAAAA
1 TTTA-GGGTGTAAGATTCACCGTTGCAGCTTTAATCTTTCCCTCT-TTGGTTTTAGGGTGTAAGA
** * * * *
25715054 TTCG--TTGTTGTAGTTTTAATCTTTCCCTCTTCAG-TTTTAGGGTGTAAGATCCACCGTTGCGT
64 TTCGCATT-ACG-A-CTTTAATCTTTCCCTCTTCAGATTTTAGGGTGTAAGATTCACCGTTACGG
* * **
25715116 TTTTAATCTTTTCGTCTTCGAT
126 TTTTAATCTTTCCCT-TTTAAT
* * * * *
25715138 TTTAGTGTGTAAGATCCACCGTTGCAGCTTTAATCTTTCCCTCTTCGGTTTTAAGGTGTTAGATT
1 TTTAGGGTGTAAGATTCACCGTTGCAGCTTTAATCTTTCCCTCTTTGGTTTTAGGGTGTAAGATT
* * * * *
25715203 TGCCATTACGACTTTAATCTTTCCCTCTTC-GATTTTAAGGTGTAAGATTCACCATTATGGCTTT
66 CG-CATTACGACTTTAATCTTTCCCTCTTCAGATTTTAGGGTGTAAGATTCACCGTTACGGTTTT
* *
25715267 AATCTATCCCTTTTTAGT
130 AATCTTTCCC-TTTTAAT
* * * * *
25715285 TTTAGGGTGTAAGATTTACCGTTACGGATTTAATCTTTCTCTCTTTGGTTTTAGGGTGTAAGATT
1 TTTAGGGTGTAAGATTCACCGTTGCAGCTTTAATCTTTCCCTCTTTGGTTTTAGGGTGTAAGATT
* * * * *
25715350 CGTAGTTACGACTTTAATCTTTCCCTATT-TGATTTTAGGGTATAAGATTCATCGTTACGGTTTT
66 CGCA-TTACGACTTTAATCTTTCCCTCTTCAGATTTTAGGGTGTAAGATTCACCGTTACGGTTTT
25715414 AATCTTTCCCTTTTAAT
130 AATCTTTCCCTTTTAAT
*** * *
25715431 TTTAGGGTGTAAGATTCGTTGTTG-TGACTTTAATCTTTTCCCTCTTTGATTTTAGGGTGTAAGA
1 TTTAGGGTGTAAGATTCACCGTTGCAG-CTTTAATC-TTTCCCTCTTTGGTTTTAGGGTGTAAGA
* ** * * * * * ** ** *
25715495 TTCATCATTGTGGCTTTGATTTTTCCCTCTTCA-ATTTTAGAGTGTAAGATTTATTGTTATAGCT
64 TTC-GCATTACGACTTTAATCTTTCCCTCTTCAGATTTTAGGGTGTAAGATTCACCGTTACGGTT
*
25715559 TTAATCTTTTCCCTTTTTAGT
128 TTAATC-TTTCCC-TTTTAAT
** * * *
25715580 TTTAGGGTGTAAGATTCGTCGTTACGGCTTTAATCTTTCCGTCTT
1 TTTAGGGTGTAAGATTCACCGTTGCAGCTTTAATCTTTCCCTCTT
25715625 CCACTTTAGG
Statistics
Matches: 507, Mismatches: 99, Indels: 54
0.77 0.15 0.08
Matches are distributed among these distances:
143 3 0.01
144 13 0.03
145 39 0.08
146 69 0.14
147 300 0.59
148 22 0.04
149 38 0.07
150 23 0.05
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (146 bp):
TTTAGGGTGTAAGATTCACCGTTGCAGCTTTAATCTTTCCCTCTTTGGTTTTAGGGTGTAAGATT
CGCATTACGACTTTAATCTTTCCCTCTTCAGATTTTAGGGTGTAAGATTCACCGTTACGGTTTTA
ATCTTTCCCTTTTAAT
Found at i:25720142 original size:24 final size:23
Alignment explanation
Indices: 25720115--25720164 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
25720105 GGCACTCTCC
*
25720115 TTCCTCTTTGTGCTTCTTCTTTTT
1 TTCCTC-TTGTGCTTCCTCTTTTT
25720139 TT-C-CTTGTGCTTCCTCTTTTT
1 TTCCTCTTGTGCTTCCTCTTTTT
*
25720160 ATCCT
1 TTCCT
25720165 TCGAACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
21 17 0.77
22 2 0.09
23 1 0.05
24 2 0.09
ACGTcount: A:0.02, C:0.28, G:0.08, T:0.62
Consensus pattern (23 bp):
TTCCTCTTGTGCTTCCTCTTTTT
Found at i:25720147 original size:21 final size:21
Alignment explanation
Indices: 25720122--25720165 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
25720112 TCCTTCCTCT
* *
25720122 TTGTGCTTCTTCTTTTTTTCC
1 TTGTGCTTCCTCTTTTTATCC
25720143 TTGTGCTTCCTCTTTTTATCC
1 TTGTGCTTCCTCTTTTTATCC
25720164 TT
1 TT
25720166 CGAACAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.25, G:0.09, T:0.64
Consensus pattern (21 bp):
TTGTGCTTCCTCTTTTTATCC
Found at i:25730289 original size:46 final size:47
Alignment explanation
Indices: 25730167--25730292 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 47
25730157 AGTGCTGGGG
* * *
25730167 AAACAGTAAGCACACACAGTG-TAAATTAGTAGGCACATGCAGTGCA
1 AAACAGTAAGCACACACAGTGCTAAATCAGTAAGCACATACAGTGCA
* * *
25730213 AAACAGTAAGCACACACAGTAC-AAATCAGTAAGCACATATAGTGCG
1 AAACAGTAAGCACACACAGTGCTAAATCAGTAAGCACATACAGTGCA
* *
25730259 AATCAGTAAGCACACACAGTGCTGAA-CAGTAAGC
1 AAACAGTAAGCACACACAGTGCTAAATCAGTAAGC
25730293 GTGCTAATGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 67 0.97
47 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (47 bp):
AAACAGTAAGCACACACAGTGCTAAATCAGTAAGCACATACAGTGCA
Found at i:25730292 original size:23 final size:23
Alignment explanation
Indices: 25730170--25730280 Score: 132
Period size: 23 Copynumber: 4.8 Consensus size: 23
25730160 GCTGGGGAAA
*
25730170 CAGTAAGCACACACAGTGTAAAT
1 CAGTAAGCACACACAGTGCAAAT
* * ** *
25730193 TAGTAGGCACATGCAGTGCAAAA
1 CAGTAAGCACACACAGTGCAAAT
*
25730216 CAGTAAGCACACACAGTACAAAT
1 CAGTAAGCACACACAGTGCAAAT
* * *
25730239 CAGTAAGCACATATAGTGCGAAT
1 CAGTAAGCACACACAGTGCAAAT
25730262 CAGTAAGCACACACAGTGC
1 CAGTAAGCACACACAGTGC
25730281 TGAACAGTAA
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (23 bp):
CAGTAAGCACACACAGTGCAAAT
Found at i:25733958 original size:16 final size:17
Alignment explanation
Indices: 25733939--25733971 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25733929 CATATAAATA
25733939 AATAAAAATAT-CAATG
1 AATAAAAATATGCAATG
*
25733955 AATAAATATATGCAATG
1 AATAAAAATATGCAATG
25733972 CAATCATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAAAAATATGCAATG
Found at i:25734132 original size:15 final size:16
Alignment explanation
Indices: 25734112--25734148 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
25734102 AAATAAAAAT
25734112 AATAAAAT-ACAT-AA
1 AATAAAATGACATGAA
25734126 CAATAAAATGACATGAA
1 -AATAAAATGACATGAA
25734143 AATAAA
1 AATAAA
25734149 TAACAACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 10 0.50
17 2 0.10
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (16 bp):
AATAAAATGACATGAA
Found at i:25734744 original size:16 final size:17
Alignment explanation
Indices: 25734711--25734744 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25734701 TTTTTTTTAA
25734711 TTTTAGTTTAGGGTTTT
1 TTTTAGTTTAGGGTTTT
* *
25734728 TTTTATTTTTGGGTTTT
1 TTTTAGTTTAGGGTTTT
25734745 GTAAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.21, T:0.71
Consensus pattern (17 bp):
TTTTAGTTTAGGGTTTT
Found at i:25734839 original size:27 final size:27
Alignment explanation
Indices: 25734797--25734849 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
25734787 ACATTTTGTC
* *
25734797 TCTGGCTCGAATGAGCGATATTCTGTA
1 TCTGGCTCAAACGAGCGATATTCTGTA
*
25734824 TCTGGCTCAAACGAGCGGTATTCTGT
1 TCTGGCTCAAACGAGCGATATTCTGT
25734850 TATTGCTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (27 bp):
TCTGGCTCAAACGAGCGATATTCTGTA
Found at i:25742861 original size:10 final size:10
Alignment explanation
Indices: 25742846--25742873 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25742836 CTGATTTTAC
25742846 AAAACTTTCT
1 AAAACTTTCT
25742856 AAAACTTTCT
1 AAAACTTTCT
25742866 AAAACTTT
1 AAAACTTT
25742874 AATATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAACTTTCT
Found at i:25743129 original size:20 final size:20
Alignment explanation
Indices: 25743106--25743145 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25743096 TTAATTAACA
*
25743106 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
* *
25743126 TAATAAACTTTATTTTAATT
1 TAATAAACCTTACTTTAATT
25743146 AAGTTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:25748921 original size:24 final size:24
Alignment explanation
Indices: 25748894--25748950 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
25748884 GACTAATAAG
* * *
25748894 AGTTTGACTCAAATAACTAAACAA
1 AGTTTAACTCAAACAAATAAACAA
* *
25748918 AGTTTAATTGAAACAAATAAACAA
1 AGTTTAACTCAAACAAATAAACAA
25748942 AGTTTAACT
1 AGTTTAACT
25748951 GGAAGATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (24 bp):
AGTTTAACTCAAACAAATAAACAA
Found at i:25750230 original size:21 final size:22
Alignment explanation
Indices: 25750206--25750246 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
25750196 AACATCTTTT
25750206 TTTTGAT-A-ATCTCATTATTGA
1 TTTTGATCATATCT-ATTATTGA
25750227 TTTTGATCATATCTATTATT
1 TTTTGATCATATCTATTATT
25750247 TTTAACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTTGATCATATCTATTATTGA
Found at i:25750793 original size:23 final size:22
Alignment explanation
Indices: 25750768--25750810 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25750758 GTTGTATGAT
*
25750768 TTTTG-AATATTATTTGATAAAG
1 TTTTGAAATATT-TTTCATAAAG
25750790 TTTTGAAATATTTTTCATAAA
1 TTTTGAAATATTTTTCATAAA
25750811 TATTTCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
TTTTGAAATATTTTTCATAAAG
Found at i:25750950 original size:19 final size:17
Alignment explanation
Indices: 25750927--25750975 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
25750917 TTTAATATTT
25750927 TAAATATAAATAAATTA
1 TAAATATAAATAAATTA
* *
25750944 TGAAAATTTAAATTAATTA
1 T--AAATATAAATAAATTA
25750963 TAAATA-AAATAAA
1 TAAATATAAATAAA
25750976 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
19 15 0.58
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAATATAAATAAATTA
Found at i:25753033 original size:41 final size:40
Alignment explanation
Indices: 25752976--25753054 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
25752966 TAAACGTTCA
25752976 CAAAAGATAAGTGTAGCTAAAATATCCAAAATATTGAGTCG
1 CAAAAGATAAGTGTAGCTAAAATATCCAAAATA-TGAGTCG
** * *
25753017 CAAAAGATGGGTGTAGCTAAAATATTCGAAATATGAGT
1 CAAAAGATAAGTGTAGCTAAAATATCCAAAATATGAGT
25753055 ATCTGAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAAAGATAAGTGTAGCTAAAATATCCAAAATATGAGTCG
Found at i:25755212 original size:17 final size:18
Alignment explanation
Indices: 25755190--25755223 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25755180 GAGAAAGAGG
25755190 ATGG-AAAGAAAAAAAGA
1 ATGGAAAAGAAAAAAAGA
*
25755207 ATGGAAAAGAAAGAAAG
1 ATGGAAAAGAAAAAAAG
25755224 GAAAAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (18 bp):
ATGGAAAAGAAAAAAAGA
Found at i:25755222 original size:26 final size:27
Alignment explanation
Indices: 25755193--25755256 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
25755183 AAAGAGGATG
*
25755193 GAAAGAAAAAAAGAATGGA-AAAGAAA
1 GAAAGAAAAAAAGAATAGAGAAAGAAA
* *
25755219 GAAAG-GAAAAAGAATATAGAAAGAAA
1 GAAAGAAAAAAAGAATAGAGAAAGAAA
25755245 -AAAGAATAAAAA
1 GAAAGAA-AAAAA
25755257 ATAAATGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 14 0.45
26 12 0.39
27 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.06
Consensus pattern (27 bp):
GAAAGAAAAAAAGAATAGAGAAAGAAA
Found at i:25755239 original size:18 final size:18
Alignment explanation
Indices: 25755218--25755252 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25755208 TGGAAAAGAA
*
25755218 AGAAAGGAAAAAGAATAT
1 AGAAAGAAAAAAGAATAT
25755236 AGAAAGAAAAAAGAATA
1 AGAAAGAAAAAAGAATA
25755253 AAAAATAAAT
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:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
AGAAAGAAAAAAGAATAT
Found at i:25758465 original size:4 final size:4
Alignment explanation
Indices: 25758456--25758480 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
25758446 TACCTCATCC
25758456 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
25758481 TTAATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:25765250 original size:21 final size:19
Alignment explanation
Indices: 25765224--25765270 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
25765214 AGAAAGTGAT
*
25765224 TTATTTTACGTTGATTGTAAG
1 TTATTTTACATTGA-T-TAAG
*
25765245 TTATTTTCCATTGATTAAG
1 TTATTTTACATTGATTAAG
25765264 TTATTTT
1 TTATTTT
25765271 TTGTGAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 1 0.04
21 12 0.50
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.57
Consensus pattern (19 bp):
TTATTTTACATTGATTAAG
Found at i:25789619 original size:2 final size:2
Alignment explanation
Indices: 25789612--25789638 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25789602 AGCAGTCAGC
25789612 AT 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 AT A
25789639 CTTATTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25793325 original size:17 final size:17
Alignment explanation
Indices: 25793305--25793363 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
25793295 TCTATATGAT
*
25793305 TAAATAATTCAATAAAA
1 TAAATAATTCAATAATA
* *
25793322 TAAATAGTACAA-AATA
1 TAAATAATTCAATAATA
25793338 TGAAATTTAATTCAATAATA
1 T-AAA--TAATTCAATAATA
25793358 TAAATA
1 TAAATA
25793364 GTAGATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 15 0.45
19 9 0.27
20 5 0.15
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:25793439 original size:53 final size:53
Alignment explanation
Indices: 25793382--25793507 Score: 130
Period size: 53 Copynumber: 2.4 Consensus size: 53
25793372 AAATTAGGAA
* **
25793382 AAAAAAGTTTTTAAGGTTTAAGGAAAAGTAAAAGTTTTGGGAA-AAA-TAAAAGC
1 AAAAAAGTTTTGAAGGTTT--GGAAAAGTAAAAGTTTTGAAAAGAAAGTAAAAGC
* * ** * *
25793435 AAAAAACTTTAGGGGGTTTGGGAAAGTAAAAGTTTTGAAAAGAAAGTAAAAGG
1 AAAAAAGTTTTGAAGGTTTGGAAAAGTAAAAGTTTTGAAAAGAAAGTAAAAGC
*
25793488 AAAAAAGTTTTGAGGGTTTG
1 AAAAAAGTTTTGAAGGTTTG
25793508 AGGGGAAGCA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
51 19 0.32
52 3 0.05
53 37 0.63
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.26
Consensus pattern (53 bp):
AAAAAAGTTTTGAAGGTTTGGAAAAGTAAAAGTTTTGAAAAGAAAGTAAAAGC
Found at i:25793467 original size:51 final size:53
Alignment explanation
Indices: 25793406--25793507 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 53
25793396 GGTTTAAGGA
** *
25793406 AAAGTAAAAGTTTTGGGAA-AAA-TAAAAGCAAAAAACTTTAGGGGGTTTGGG
1 AAAGTAAAAGTTTTGAAAAGAAAGTAAAAGCAAAAAACTTTAGAGGGTTTGGG
* * *
25793457 AAAGTAAAAGTTTTGAAAAGAAAGTAAAAGGAAAAAAGTTTTGAGGGTTTG
1 AAAGTAAAAGTTTTGAAAAGAAAGTAAAAGCAAAAAACTTTAGAGGGTTTG
25793508 AGGGGAAGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 17 0.40
52 3 0.07
53 23 0.53
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.25
Consensus pattern (53 bp):
AAAGTAAAAGTTTTGAAAAGAAAGTAAAAGCAAAAAACTTTAGAGGGTTTGGG
Found at i:25796169 original size:30 final size:30
Alignment explanation
Indices: 25796125--25796181 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
25796115 ATAAAGATAA
*
25796125 CACATGACCGTGTGGCCAGGCCGTGTGTGG
1 CACATGACCATGTGGCCAGGCCGTGTGTGG
* *
25796155 CACATGGCCATGTGGTCAGGCCGTGTG
1 CACATGACCATGTGGCCAGGCCGTGTG
25796182 CTTCACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.26, G:0.39, T:0.21
Consensus pattern (30 bp):
CACATGACCATGTGGCCAGGCCGTGTGTGG
Found at i:25804037 original size:39 final size:39
Alignment explanation
Indices: 25803974--25804186 Score: 178
Period size: 39 Copynumber: 5.5 Consensus size: 39
25803964 AAACTGGTAA
* * * * *
25803974 TGACACTGTAAATACTGCAATGCTATATTGAACTAGCAA
1 TGACACTGTAAACACTACAGTGCTATACTGAACTAGCAG
* * * *
25804013 TGACATTGCAAACACTACAGTGCTATACTGAACCAGTAG
1 TGACACTGTAAACACTACAGTGCTATACTGAACTAGCAG
* * * *
25804052 TGACACTATAAACACTGCAGTGTTATACTGAACTGGCAG
1 TGACACTGTAAACACTACAGTGCTATACTGAACTAGCAG
* * * *
25804091 TGACACTGTAAACACTACAAT-ATAATACTGAA-TCGACGG
1 TGACACTGTAAACACTACAGTGCT-ATACTGAACTAG-CAG
* * * * * * *
25804130 TGATACTGTAAACAGTGCAATGCTATACTGAGCTGGTAG
1 TGACACTGTAAACACTACAGTGCTATACTGAACTAGCAG
25804169 TGACACTGTAAACACTAC
1 TGACACTGTAAACACTAC
25804187 CAGGTTGTTA
Statistics
Matches: 136, Mismatches: 34, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
38 3 0.02
39 130 0.96
40 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (39 bp):
TGACACTGTAAACACTACAGTGCTATACTGAACTAGCAG
Found at i:25804119 original size:78 final size:77
Alignment explanation
Indices: 25803974--25804186 Score: 232
Period size: 78 Copynumber: 2.7 Consensus size: 77
25803964 AAACTGGTAA
* * * * * * * *
25803974 TGACACTGTAAATACTGCAATGCTATATTGAACTAGCAATGACATTGCAAACACTACAGTGCTAT
1 TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTACAATGATAT
25804039 ACTGAACCAGTA-G
66 ACTGAACC-G-ACG
* * *
25804052 TGACACTATAAACACTGCAGTGTTATACTGAACTGGCAGTGACACTGTAAACACTACAAT-ATAA
1 TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTACAATGAT-A
*
25804116 TACTGAATCGACGG
65 TACTGAACCGAC-G
* * * *
25804130 TGATACTGTAAACAGTGCAATGCTATACTGAGCTGGTAGTGACACTGTAAACACTAC
1 TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTAC
25804187 CAGGTTGTTA
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
76 1 0.01
77 2 0.02
78 110 0.97
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (77 bp):
TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTACAATGATAT
ACTGAACCGACG
Found at i:25805101 original size:40 final size:38
Alignment explanation
Indices: 25805033--25805167 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
25805023 ACCAGAATGG
* *
25805033 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
25805073 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
25805110 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
25805151 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
25805168 ACTCAAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:25805165 original size:41 final size:38
Alignment explanation
Indices: 25805065--25805168 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
25805055 TTCGAAGCAA
* *
25805065 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
25805102 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
25805140 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
25805169 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:25805286 original size:12 final size:12
Alignment explanation
Indices: 25805271--25805307 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
25805261 ACAATTCATA
25805271 TCACTTTCAATT
1 TCACTTTCAATT
*
25805283 TCACTTTCATTT
1 TCACTTTCAATT
25805295 TCACTTTCAATT
1 TCACTTTCAATT
25805307 T
1 T
25805308 TGATCACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (12 bp):
TCACTTTCAATT
Found at i:25805480 original size:22 final size:22
Alignment explanation
Indices: 25805454--25805499 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
25805444 TAAACATATA
25805454 ATATTTCACATATACATTGTTC
1 ATATTTCACATATACATTGTTC
25805476 ATATTTCACATATACATTGTTC
1 ATATTTCACATATACATTGTTC
25805498 AT
1 AT
25805500 CACATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (22 bp):
ATATTTCACATATACATTGTTC
Found at i:25805504 original size:18 final size:20
Alignment explanation
Indices: 25805458--25805507 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
25805448 CATATAATAT
25805458 TTCACATATACATTGTTCATA
1 TTCACATATACATTGTTCA-A
25805479 TTTCACATATACATTGTTC-A
1 -TTCACATATACATTGTTCAA
25805499 -TCACATATA
1 TTCACATATA
25805508 TATCATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.32
20 1 0.04
22 18 0.64
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (20 bp):
TTCACATATACATTGTTCAA
Found at i:25807554 original size:24 final size:24
Alignment explanation
Indices: 25807518--25807567 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
25807508 CAAGTTTAGC
* * *
25807518 ACGTTTACGCTCGCCAGCTAATGT
1 ACGTCTACACTCGCCAACTAATGT
*
25807542 ACGTCTACACTCGTCAACTAATGT
1 ACGTCTACACTCGCCAACTAATGT
25807566 AC
1 AC
25807568 ATTTAAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (24 bp):
ACGTCTACACTCGCCAACTAATGT
Found at i:25807593 original size:24 final size:24
Alignment explanation
Indices: 25807565--25807659 Score: 145
Period size: 24 Copynumber: 4.0 Consensus size: 24
25807555 TCAACTAATG
* * *
25807565 TACATTTAAGCTCATCAGTCACTA
1 TACATTTATGCTCGTCAGCCACTA
*
25807589 TACATTTATGCTCGTCAGCCTCTA
1 TACATTTATGCTCGTCAGCCACTA
*
25807613 TACGTTTATGCTCGTCAGCCACTA
1 TACATTTATGCTCGTCAGCCACTA
25807637 TACATTTATGCTCGTCAGCCACT
1 TACATTTATGCTCGTCAGCCACT
25807660 CAAATAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (24 bp):
TACATTTATGCTCGTCAGCCACTA
Found at i:25811485 original size:26 final size:26
Alignment explanation
Indices: 25811428--25811487 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
25811418 CCATAACTCG
* *
25811428 TGTGACCAGGCCCACATCACAGCTCA
1 TGTGAGCAGACCCACATCACAGCTCA
25811454 TGTGAGCAGACCCACATCACAGCTCA
1 TGTGAGCAGACCCACATCACAGCTCA
25811480 TGTGAGCA
1 TGTGAGCA
25811488 TTACAGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (26 bp):
TGTGAGCAGACCCACATCACAGCTCA
Done.