Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 21 of 199
Found at i:8540017 original size:31 final size:30
Alignment explanation
Indices: 8539967--8540033 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
8539957 ATTATTTAGT
*
8539967 AATTTTTTAAAGTTAAGTGATCAAAATATA
1 AATTTATTAAAGTTAAGTGATCAAAATATA
* ** *
8539997 AATTTATTAATAGTTTAGTGATCTCAATCTA
1 AATTTATTAA-AGTTAAGTGATCAAAATATA
8540028 AATTTA
1 AATTTA
8540034 CCCTAAAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (30 bp):
AATTTATTAAAGTTAAGTGATCAAAATATA
Found at i:8548917 original size:10 final size:10
Alignment explanation
Indices: 8548888--8548920 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
8548878 ATTAGCAAAC
*
8548888 AAAAAAAAAA
1 AAAAAAAAAG
8548898 AAAAAAAAAG
1 AAAAAAAAAG
8548908 AAAAAAAAAG
1 AAAAAAAAAG
8548918 AAA
1 AAA
8548921 TGATAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:8566205 original size:9 final size:8
Alignment explanation
Indices: 8566191--8566215 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8566181 TTCTTTAAGC
8566191 AAAAAAAG
1 AAAAAAAG
8566199 AAAAAAAG
1 AAAAAAAG
8566207 AAAAAAAG
1 AAAAAAAG
8566215 A
1 A
8566216 GTTATTCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:8577435 original size:15 final size:15
Alignment explanation
Indices: 8577415--8577444 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8577405 AATATTCATG
8577415 GTGAAATTAAGTAAT
1 GTGAAATTAAGTAAT
8577430 GTGAAATTAAGTAAT
1 GTGAAATTAAGTAAT
8577445 CAAGTGAATA
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:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
GTGAAATTAAGTAAT
Found at i:8581671 original size:29 final size:29
Alignment explanation
Indices: 8581616--8581671 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
8581606 AATCTACCCA
* * *
8581616 AAAATCTTGATTTTTAAGTTATCCTCACT
1 AAAATCTTGATCTTCAAGCTATCCTCACT
* *
8581645 AAAATCTTTATCTTCAAGCTATTCTCA
1 AAAATCTTGATCTTCAAGCTATCCTCA
8581672 AATGATTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (29 bp):
AAAATCTTGATCTTCAAGCTATCCTCACT
Found at i:8587135 original size:23 final size:22
Alignment explanation
Indices: 8587083--8587135 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8587073 TCCACGTCTT
*
8587083 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
8587105 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
8587128 TTTCTTTT
1 TTTCTTTT
8587136 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:8614875 original size:29 final size:29
Alignment explanation
Indices: 8614824--8614879 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
8614814 AATCTACCCC
* * *
8614824 AAAATCTTGATTTTTAAGTTATCCTCACT
1 AAAATCTTGATCTTCAAGCTATCCTCACT
*
8614853 AAAATCTTTATCTTCAAGCTATCCTCA
1 AAAATCTTGATCTTCAAGCTATCCTCA
8614880 AATGATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.41
Consensus pattern (29 bp):
AAAATCTTGATCTTCAAGCTATCCTCACT
Found at i:8620749 original size:18 final size:18
Alignment explanation
Indices: 8620722--8620762 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8620712 ATCGAAGAAA
* *
8620722 CATCATCCTCATCGTCCT
1 CATCACCCTCATCGTCAT
*
8620740 CATCACCCTCATTGTCAT
1 CATCACCCTCATCGTCAT
8620758 CATCA
1 CATCA
8620763 TTCTTGCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.41, G:0.05, T:0.32
Consensus pattern (18 bp):
CATCACCCTCATCGTCAT
Found at i:8626870 original size:14 final size:16
Alignment explanation
Indices: 8626850--8626887 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
8626840 GTAGCTGTTC
8626850 CAAAATTGGA-TAAAT
1 CAAAATTGGACTAAAT
*
8626865 -AAAATTTGACTAAAT
1 CAAAATTGGACTAAAT
8626880 CAAAATTG
1 CAAAATTG
8626888 TGCTAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 8 0.42
15 5 0.26
16 6 0.32
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (16 bp):
CAAAATTGGACTAAAT
Found at i:8633229 original size:29 final size:30
Alignment explanation
Indices: 8633182--8633241 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
8633172 TTTTACATTT
* *
8633182 AGAATTTAGTTCTTTTACTTTT-ATTTTCA
1 AGAATTTAGTTCTTCTACTTTTCATATTCA
8633211 AGAATTTAG-TCTCTCTACTTTTCATATTCA
1 AGAATTTAGTTCT-TCTACTTTTCATATTCA
8633241 A
1 A
8633242 AAATGCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
30 7 0.26
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.52
Consensus pattern (30 bp):
AGAATTTAGTTCTTCTACTTTTCATATTCA
Found at i:8639550 original size:15 final size:17
Alignment explanation
Indices: 8639519--8639550 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8639509 TTTTTCCCAT
8639519 ATCAATATAATACAAAA
1 ATCAATATAATACAAAA
8639536 ATCAATA-AATA-AAAA
1 ATCAATATAATACAAAA
8639551 GCTCCCATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (17 bp):
ATCAATATAATACAAAA
Found at i:8642092 original size:29 final size:30
Alignment explanation
Indices: 8642035--8642103 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
8642025 ATTTTAATAG
*
8642035 TTTATATTTTTATAATTTTTAAAATATTAA
1 TTTAAATTTTTATAATTTTTAAAATATTAA
*
8642065 TTTAAATTTTTATTATTTTTAAAA-ATTAA
1 TTTAAATTTTTATAATTTTTAAAATATTAA
*
8642094 ATTATAATTT
1 TTTA-AATTT
8642104 CACCATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 8 0.23
30 27 0.77
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTAAATTTTTATAATTTTTAAAATATTAA
Found at i:8646574 original size:3 final size:3
Alignment explanation
Indices: 8646566--8646614 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8646556 AAACAATTCG
8646566 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8646614 T
1 T
8646615 TTGTTTTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:8649827 original size:15 final size:14
Alignment explanation
Indices: 8649800--8649833 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
8649790 GTGTTGAGTA
*
8649800 TTTAAAATTATTTT
1 TTTAAAATAATTTT
8649814 TTTATAAATAATTTT
1 TTTA-AAATAATTTT
8649829 TTTAA
1 TTTAA
8649834 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAAAATAATTTT
Found at i:8649838 original size:13 final size:14
Alignment explanation
Indices: 8649800--8649848 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
8649790 GTGTTGAGTA
* *
8649800 TTTAAAATTATTTT
1 TTTATAATTAATTT
*
8649814 TTTATAAATAATTT
1 TTTATAATTAATTT
8649828 TTT-TAATTAATTT
1 TTTATAATTAATTT
8649841 TATTATAA
1 T-TTATAA
8649849 CTTCTCATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 10 0.34
14 16 0.55
15 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTATAATTAATTT
Found at i:8650450 original size:18 final size:18
Alignment explanation
Indices: 8650427--8650463 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8650417 ATCGGTTTTT
8650427 ATATTA-AAAGAAAAAGAA
1 ATATTAGAAA-AAAAAGAA
8650445 ATATTAGAAAAAAAAGAA
1 ATATTAGAAAAAAAAGAA
8650463 A
1 A
8650464 AAAAGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (18 bp):
ATATTAGAAAAAAAAGAA
Found at i:8651818 original size:31 final size:29
Alignment explanation
Indices: 8651772--8651864 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 29
8651762 AATATATTTA
8651772 TTTTTAATTTTTTTTAATTTTAAAATACT
1 TTTTTAATTTTTTTTAATTTTAAAATACT
*
8651801 CTTTTTATTATTTTTTTAATTTTAAAATAC-
1 -TTTTTAAT-TTTTTTTAATTTTAAAATACT
**** *
8651831 TTTTTAAAAAATTTTAATTTTAAAATAAT
1 TTTTTAATTTTTTTTAATTTTAAAATACT
8651860 TTTTT
1 TTTTT
8651865 GGTATTTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 16 0.30
29 11 0.20
30 7 0.13
31 20 0.37
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTTAATTTTTTTTAATTTTAAAATACT
Found at i:8653217 original size:17 final size:17
Alignment explanation
Indices: 8653181--8653227 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
8653171 AATTTAGAAT
*
8653181 AATTTT-TGAATTAGTG
1 AATTTTGTGATTTAGTG
*
8653197 AATTTTGTGATTTATTG
1 AATTTTGTGATTTAGTG
8653214 AATTTTGTGATTTA
1 AATTTTGTGATTTA
8653228 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (17 bp):
AATTTTGTGATTTAGTG
Found at i:8654042 original size:46 final size:46
Alignment explanation
Indices: 8653972--8654110 Score: 233
Period size: 46 Copynumber: 3.0 Consensus size: 46
8653962 CATGGCAAAG
* *
8653972 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATATTAAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
* *
8654018 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
*
8654064 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
8654110 T
1 T
8654111 ATAGCAATGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
Found at i:8655383 original size:15 final size:15
Alignment explanation
Indices: 8655363--8655393 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8655353 TAAAAGTAAA
8655363 TTTTATGCCCCGAAC
1 TTTTATGCCCCGAAC
8655378 TTTTATGCCCCGAAC
1 TTTTATGCCCCGAAC
8655393 T
1 T
8655394 CTGGAAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (15 bp):
TTTTATGCCCCGAAC
Found at i:8660196 original size:9 final size:9
Alignment explanation
Indices: 8660182--8660212 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8660172 GTTAAACGAA
8660182 TCGAGTTAT
1 TCGAGTTAT
*
8660191 TCGAGTTAA
1 TCGAGTTAT
8660200 TCGAGTTAT
1 TCGAGTTAT
8660209 TCGA
1 TCGA
8660213 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:8660282 original size:9 final size:9
Alignment explanation
Indices: 8660265--8660301 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8660255 TGAGTTTTCA
8660265 AATTCGAAT
1 AATTCGAAT
*
8660274 AACTCGAAT
1 AATTCGAAT
*
8660283 AATTTGAAT
1 AATTCGAAT
8660292 AATTCGAAT
1 AATTCGAAT
8660301 A
1 A
8660302 TAAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8660847 original size:9 final size:9
Alignment explanation
Indices: 8660833--8660861 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8660823 AATTTCACAT
8660833 TTTATATTA
1 TTTATATTA
8660842 TTTATATTA
1 TTTATATTA
8660851 TTTATATTA
1 TTTATATTA
8660860 TT
1 TT
8660862 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:8683401 original size:17 final size:18
Alignment explanation
Indices: 8683374--8683411 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8683364 TCTTTTTACA
8683374 ATTTTTAATAAT-TTTATG
1 ATTTTTAATAATATTT-TG
8683392 ATTTTT-ATAATATTTTG
1 ATTTTTAATAATATTTTG
8683409 ATT
1 ATT
8683412 CTCATCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTTTTAATAATATTTTG
Found at i:8684863 original size:13 final size:13
Alignment explanation
Indices: 8684845--8684869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8684835 GGGTATAGTA
8684845 AAATATTTAAAAT
1 AAATATTTAAAAT
8684858 AAATATTTAAAA
1 AAATATTTAAAA
8684870 AAAGAGTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATTTAAAAT
Found at i:8685107 original size:19 final size:18
Alignment explanation
Indices: 8685067--8685130 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
8685057 AATAATTCCA
*
8685067 ATATCTTTT-ATAATATTCT
1 ATAT-TTTTAATAAT-TTTT
8685086 ATAATTTTTAATAATTTTT
1 AT-ATTTTTAATAATTTTT
* *
8685105 ATATTTTTTACAATTTTT
1 ATATTTTTAATAATTTTT
8685123 -TATTTTTA
1 ATATTTTTA
8685131 TTTTTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.18
18 14 0.36
19 11 0.28
20 7 0.18
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTTTAATAATTTTT
Found at i:8685112 original size:9 final size:9
Alignment explanation
Indices: 8685089--8685161 Score: 52
Period size: 9 Copynumber: 8.8 Consensus size: 9
8685079 ATATTCTATA
*
8685089 ATTTTTAAT
1 ATTTTTTAT
*
8685098 AATTTTTAT
1 ATTTTTTAT
*
8685107 ATTTTTTAC
1 ATTTTTTAT
*
8685116 AATTTTT-T
1 ATTTTTTAT
8685124 A-TTTTTAT
1 ATTTTTTAT
8685132 -TTTTTTA-
1 ATTTTTTAT
8685139 A--TTTTA-
1 ATTTTTTAT
8685145 ATTTTTATAT
1 ATTTTT-TAT
8685155 ATTTTTT
1 ATTTTTT
8685162 TAAAAAATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
6 6 0.12
7 5 0.10
8 11 0.22
9 23 0.45
10 6 0.12
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:8685137 original size:14 final size:14
Alignment explanation
Indices: 8685118--8685160 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
8685108 TTTTTTACAA
8685118 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
*
8685132 TTTTTTAATTTTAAT
1 TTTTTT-ATTTTTAT
8685147 TTTTATATATTTTT
1 TTTT-T-TATTTTT
8685161 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 6 0.25
17 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:8687871 original size:90 final size:90
Alignment explanation
Indices: 8687255--8687859 Score: 942
Period size: 90 Copynumber: 6.7 Consensus size: 90
8687245 GTGGACCCAT
* * * *
8687255 GGTTTGTGCATTGACTAGAGCAGGAGAAACAGTTCGCAT-GCTAGTAGCTGAGCCAGTTGAAGGG
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAG-TAGAAGCTGAGCCAGTTGAAGGG
* *
8687319 ATCCCTGAAGCAGTGGAAGGCTGCAA
65 ATCCCTGAAGCAGTAGAACGCTGCAA
* * *
8687345 GGTTTGTGCATTGCCTACAGCAGGTGAAACAGTTTGCATACTAGAAGCTGAGCCAGTTGGAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
* *
8687410 TCCCTGAAGCAGTGGAAGGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
* * * * * *
8687435 GGTTTGTGCATTGACTGCAGCAAGTGAAACAGTTTGCAGAGTAGAAGTTGAGCTACTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8687500 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
*
8687525 AGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8687590 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
*
8687615 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGAA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
*
8687680 TCCCTGAAGCAGTAGAAAGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
* * *
8687705 TGTTTGCGCATTGACTACAGCAGGTGAAACAATTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8687770 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
** * * *
8687795 TATTTGTGCATTAACTACAGCGGGTGAAACAGTTTGCATACTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8687860 GACCAGAAGC
Statistics
Matches: 475, Mismatches: 39, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
90 475 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (90 bp):
GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
TCCCTGAAGCAGTAGAACGCTGCAA
Found at i:8696525 original size:16 final size:16
Alignment explanation
Indices: 8696506--8696536 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8696496 AATTCAAGTA
8696506 AACCCATAACCTAAAT
1 AACCCATAACCTAAAT
8696522 AACCCATAACCTAAA
1 AACCCATAACCTAAA
8696537 ACAAGATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (16 bp):
AACCCATAACCTAAAT
Found at i:8703595 original size:42 final size:42
Alignment explanation
Indices: 8703347--8703587 Score: 365
Period size: 42 Copynumber: 5.7 Consensus size: 42
8703337 TTAAATCATT
*
8703347 ATCTCCATCATCCTTAGCTTTCCTACTAGAAGATCTAGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* ** *
8703389 ATCTCCATCATCCTTAGTTTTCCTACTAGTTGATCTGGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* * *
8703431 ATCTCCATCATTCTTAGCTTTCCTACTAGAGGATCTGGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* * *
8703473 ACCTCCATCATCCTCAGCTTTCCTACTAGACGATCTAATACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* *
8703515 ATCTCCGTCATCCTTAGCTTTCCTACCAGACGATCTAGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
8703557 ATCTCCATCATCCTTAGCTTTCCTACTAGAC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGAC
8703588 AGCCTAGTGC
Statistics
Matches: 178, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 178 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.34
Consensus pattern (42 bp):
ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
Found at i:8704503 original size:24 final size:24
Alignment explanation
Indices: 8704476--8704529 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
8704466 TAAACATACC
* *
8704476 TATTTTATTATTTATATTTATTAA
1 TATTTTATAATTTATATTTAATAA
* *
8704500 TATTATATAATTTATTTTTAATAA
1 TATTTTATAATTTATATTTAATAA
8704524 -ATTTTA
1 TATTTTA
8704530 AAAATAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTATAATTTATATTTAATAA
Found at i:8704650 original size:23 final size:23
Alignment explanation
Indices: 8704617--8704673 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
8704607 ATTTTTAATA
8704617 ATAAATATTTT-A-TAGTATCAAAT
1 ATAAATATTTTAATTA-TAT-AAAT
*
8704640 ATGAATATTTTAATTATATAAAT
1 ATAAATATTTTAATTATATAAAT
8704663 ATAAATATTTT
1 ATAAATATTTT
8704674 TTAAATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 24 0.80
24 4 0.13
25 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAAATATTTTAATTATATAAAT
Found at i:8706831 original size:30 final size:30
Alignment explanation
Indices: 8706797--8706859 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
8706787 ACTTAACAAG
*
8706797 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
8706827 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
8706857 CAA
1 CAA
8706860 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:8707226 original size:12 final size:11
Alignment explanation
Indices: 8707200--8707237 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
8707190 ATTTTAAAAA
8707200 TAAAAA-ATTT
1 TAAAAATATTT
*
8707210 AAAAAAGTATTT
1 TAAAAA-TATTT
8707222 TAAAAATATTT
1 TAAAAATATTT
8707233 TAAAA
1 TAAAA
8707238 TTAGAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.21
11 10 0.42
12 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:8707524 original size:123 final size:123
Alignment explanation
Indices: 8707305--8707528 Score: 310
Period size: 123 Copynumber: 1.8 Consensus size: 123
8707295 AAAGCGATGC
* *
8707305 CCGAGGCCCGGCCCATTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCCCATATTTCGGGCCTAT
1 CCGAGGCCCGACCCATTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCCCATATTTCAGGCCTAT
*
8707370 ATTTTTACTCAAACCCTCTCATATTTCGGGCGGGCCACTCGGCCTATGAGCACCTCTA
66 ATTTTTACTCAAACCCTCTCACATTTCGGGCGGGCCACTCGGCCTATGAGCACCTCTA
* * * *
8707428 CCGAGGCCCGACCCATTTT-TCAAACGGGCCTTA-TTTTTTGTCCAAGCCCATTTTTTCAGGCTT
1 CCGAGGCCCGACCCATTTTCT-AAACGGGCCTCATTTTTTTGCCCAAGCCCA-TATTTCAGGCCT
* * *
8707491 ATATTTTTGCTCAAACCCT-TCCACGTTTTGGGCGGGCC
64 ATATTTTTACTCAAACCCTCT-CACATTTCGGGCGGGCC
8707529 TTCGGGCCGG
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
122 18 0.20
123 70 0.80
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.32
Consensus pattern (123 bp):
CCGAGGCCCGACCCATTTTCTAAACGGGCCTCATTTTTTTGCCCAAGCCCATATTTCAGGCCTAT
ATTTTTACTCAAACCCTCTCACATTTCGGGCGGGCCACTCGGCCTATGAGCACCTCTA
Found at i:8708745 original size:17 final size:18
Alignment explanation
Indices: 8708723--8708758 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8708713 TAAATGAGTT
8708723 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
8708740 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
8708758 A
1 A
8708759 TAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:8709230 original size:21 final size:22
Alignment explanation
Indices: 8709204--8709267 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
8709194 GCTTTGCCGA
8709204 TCAGGCACTATATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
* ** *
8709226 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTTGTAT
* *
8709246 TCAGGCACTTTATATGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
8709268 ACTGCTTCTG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.39
Consensus pattern (22 bp):
TCAGGCACTATATGTGTTGTAT
Found at i:8710740 original size:2 final size:2
Alignment explanation
Indices: 8710735--8710778 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
8710725 TCAAAATTAC
*
8710735 CA CA CA CA CA CA CA CA CA CA CG CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8710777 CA
1 CA
8710779 TATATATATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8714280 original size:28 final size:30
Alignment explanation
Indices: 8714248--8714304 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
8714238 ATGATTTAGG
* *
8714248 TATTATATTGGATAT-TT-TCAAAGTACAA
1 TATTAAATCGGATATCTTATCAAAGTACAA
*
8714276 TATTAAATCGGATATCTTATGAAAGTACA
1 TATTAAATCGGATATCTTATCAAAGTACA
8714305 TGTACCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.54
29 2 0.08
30 9 0.38
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (30 bp):
TATTAAATCGGATATCTTATCAAAGTACAA
Found at i:8721160 original size:16 final size:16
Alignment explanation
Indices: 8721136--8721176 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
8721126 AATTTATTAC
*
8721136 AATATAATTTTTTTAG
1 AATATAATTTTTTTAA
*
8721152 AATACAATTTTTTTAA
1 AATATAATTTTTTTAA
8721168 AATATAATT
1 AATATAATT
8721177 AATAGTGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AATATAATTTTTTTAA
Found at i:8721894 original size:12 final size:12
Alignment explanation
Indices: 8721862--8721899 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8721852 ATTTAAATTA
8721862 ATTTATAAATAT
1 ATTTATAAATAT
**
8721874 -TAAATAAATAT
1 ATTTATAAATAT
8721885 ATTTATAAATAT
1 ATTTATAAATAT
8721897 ATT
1 ATT
8721900 CGTGTCAACC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTTATAAATAT
Found at i:8722564 original size:20 final size:20
Alignment explanation
Indices: 8722539--8722588 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
8722529 TGGCTTAAAA
8722539 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
8722559 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
8722576 GTGGTAGTGGATT
1 TTGGTAGTGGATT
8722589 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:8727158 original size:17 final size:17
Alignment explanation
Indices: 8727136--8727168 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8727126 TAGATGGATT
*
8727136 GTTGTTGTTGGTAGTGG
1 GTTGTTGGTGGTAGTGG
8727153 GTTGTTGGTGGTAGTG
1 GTTGTTGGTGGTAGTG
8727169 ATTAGTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.48, T:0.45
Consensus pattern (17 bp):
GTTGTTGGTGGTAGTGG
Found at i:8735986 original size:46 final size:46
Alignment explanation
Indices: 8735918--8736139 Score: 365
Period size: 46 Copynumber: 4.8 Consensus size: 46
8735908 AGTGTGGAAC
* * *
8735918 GTAGGTATGGTATTTCATTAAAGAAAAACATACTGAGTTCTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
8735964 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * *
8736010 GTAGGTATGATATTTCAATAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
8736056 GTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
8736102 GTA-GTATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
8736140 ATAGCATTGT
Statistics
Matches: 164, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
45 33 0.20
46 131 0.80
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:8737225 original size:14 final size:17
Alignment explanation
Indices: 8737194--8737230 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
8737184 ATTATAAATG
8737194 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
8737211 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
8737225 ATATTA
1 ATATTA
8737231 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:8737242 original size:31 final size:28
Alignment explanation
Indices: 8737176--8737243 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
8737166 ATATAAATAT
**
8737176 ATAAATTAATTATAAATGATATTATTAA
1 ATAAATTAATTATAAATGATATTAAGAA
* *
8737204 ATTAATTATATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-ATGATATTAAGAA
8737235 ATAAATTAA
1 ATAAATTAA
8737244 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
ATAAATTAATTATAAATGATATTAAGAA
Found at i:8737406 original size:14 final size:14
Alignment explanation
Indices: 8737380--8737430 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8737370 GAAAACAAAA
8737380 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
8737394 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
8737408 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
8737423 G-AATAAAA
1 GAAATAAAA
8737431 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:8737441 original size:17 final size:16
Alignment explanation
Indices: 8737419--8737452 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8737409 AAGTTAAAAT
8737419 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
8737436 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
8737452 A
1 A
8737453 TAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:8738370 original size:22 final size:25
Alignment explanation
Indices: 8738327--8738403 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 25
8738317 TGAAAATGTG
* *
8738327 TGAATTTGTGAAATAATTATTG-AT
1 TGAATGTGTGAAATAATGATTGAAT
8738351 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTGAAT
* **
8738374 TGAAAGTGTGAGAAATTGTGATTGAAT
1 TG-AA-TGTGTGAAATAATGATTGAAT
8738401 TGA
1 TGA
8738404 GAATATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 9 0.20
25 4 0.09
26 5 0.11
27 11 0.25
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
TGAATGTGTGAAATAATGATTGAAT
Found at i:8738375 original size:23 final size:24
Alignment explanation
Indices: 8738327--8738384 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
8738317 TGAAAATGTG
* *
8738327 TGAATTTGTGAAATAATTATTGAT
1 TGAATGTGTGAAATAATGATTGAT
8738351 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTG-AT
*
8738374 TGAAAGTGTGA
1 TGAATGTGTGA
8738385 GAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (24 bp):
TGAATGTGTGAAATAATGATTGAT
Found at i:8738606 original size:37 final size:39
Alignment explanation
Indices: 8738547--8738642 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
8738537 CGGATAGATT
* * * *
8738547 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
8738584 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
8738623 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
8738643 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:8742193 original size:42 final size:42
Alignment explanation
Indices: 8742127--8742224 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
8742117 CTATACGAAT
* ** * **
8742127 GGCACTAAGTGTGCGAAATTAAAATGACAATGTTGAATAAAG
1 GGCACTAAGTGTGCAAAACAAAAATAACAATGTCAAATAAAG
* *
8742169 GGCACTAAGTGTGCAAAACAAAAATAACGATGTCAAATAACG
1 GGCACTAAGTGTGCAAAACAAAAATAACAATGTCAAATAAAG
*
8742211 GGCACTAAATGTGC
1 GGCACTAAGTGTGC
8742225 GATACCAAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (42 bp):
GGCACTAAGTGTGCAAAACAAAAATAACAATGTCAAATAAAG
Found at i:8743395 original size:40 final size:40
Alignment explanation
Indices: 8743335--8743421 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
8743325 AATTCGTTAC
* * * *
8743335 TTCAGTAATTTCACAGTTCAA-TGCAGTACACATAACAATA
1 TTCAATAACTTCACAATTCAACT-CAGTACACAAAACAATA
*
8743375 TTCAATAACTTCACAATTCAACTCAGTACTCAAAACAATA
1 TTCAATAACTTCACAATTCAACTCAGTACACAAAACAATA
*
8743415 TTTAATA
1 TTCAATA
8743422 TTTCATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.31
Consensus pattern (40 bp):
TTCAATAACTTCACAATTCAACTCAGTACACAAAACAATA
Found at i:8743889 original size:20 final size:20
Alignment explanation
Indices: 8743864--8743903 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8743854 CGTAAAATGA
*
8743864 TTTCTGGAAAATGCTTTACT
1 TTTCTGGAAAATGATTTACT
*
8743884 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
8743904 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:8744355 original size:13 final size:13
Alignment explanation
Indices: 8744337--8744364 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8744327 ATTCTTTCTC
8744337 TATTTATGAAGTT
1 TATTTATGAAGTT
8744350 TATTTATGAAGTT
1 TATTTATGAAGTT
8744363 TA
1 TA
8744365 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:8746497 original size:18 final size:18
Alignment explanation
Indices: 8746474--8746531 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
8746464 ATTTGAAGGA
8746474 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
* *** *
8746492 ATGAAGGAAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
*
8746510 ATGAAGGGAGAAGAATGC
1 ATGAAGGGAGAAGAATGG
8746528 ATGA
1 ATGA
8746532 GAGCTTTAGG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:8747111 original size:5 final size:5
Alignment explanation
Indices: 8747101--8747160 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
8747091 TTACCTATTT
8747101 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
8747151 ATATA ATATA
1 ATATA ATATA
8747161 TAATAATCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:8748157 original size:21 final size:21
Alignment explanation
Indices: 8748117--8748213 Score: 126
Period size: 21 Copynumber: 4.7 Consensus size: 21
8748107 ATACGCCAAT
*
8748117 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
*
8748136 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
*
8748157 AGAAGCTCGTAAGAGTTTAAC
1 AGAAGCTCGTAAGAGTTGAAC
* *
8748178 AGAAGCTCGTAAGAGCTGAGC
1 AGAAGCTCGTAAGAGTTGAAC
*
8748199 AGAAGCTCGAAAGAG
1 AGAAGCTCGTAAGAG
8748214 CTAAACCGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.12
20 2 0.03
21 58 0.85
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGTTGAAC
Found at i:8754029 original size:41 final size:41
Alignment explanation
Indices: 8753972--8754062 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
8753962 GCATAGCGCT
*
8753972 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
8754013 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
8754054 TAGCAGGCT
1 TAGCAGGCT
8754063 AAGTGCTGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:8771195 original size:31 final size:29
Alignment explanation
Indices: 8771140--8771202 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
8771130 TATTTAAATG
* *
8771140 TGTACAATTGAATCCAAATTAAAGTTTCA
1 TGTACAATTGAATCCAAATCAAAGTTCCA
8771169 TGTACACATTTGAA-CCACAATCAAAGTTCCA
1 TGTACA-A-TTGAATCCA-AATCAAAGTTCCA
8771200 TGT
1 TGT
8771203 GTATTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 6 0.21
30 4 0.14
31 19 0.66
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (29 bp):
TGTACAATTGAATCCAAATCAAAGTTCCA
Found at i:8773509 original size:14 final size:14
Alignment explanation
Indices: 8773447--8773510 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 14
8773437 ATTTTTCTAG
8773447 AATTTTTATATAAA
1 AATTTTTATATAAA
* *
8773461 AATTTCTATTCTTTAAA
1 AA-TT-T-TTATATAAA
*
8773478 TAATTTTTATTATTAA
1 -AATTTTTA-TATAAA
8773494 AATTTTTATATAAA
1 AATTTTTATATAAA
8773508 AAT
1 AAT
8773511 ATAAAAATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
14 10 0.26
15 12 0.31
16 6 0.15
17 9 0.23
18 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTTATATAAA
Found at i:8777200 original size:7 final size:7
Alignment explanation
Indices: 8777188--8777215 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8777178 ATATTTTAGA
8777188 TTGTATT
1 TTGTATT
8777195 TTGTATT
1 TTGTATT
8777202 TTGTATT
1 TTGTATT
8777209 TTGTATT
1 TTGTATT
8777216 AGAAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (7 bp):
TTGTATT
Found at i:8785426 original size:25 final size:26
Alignment explanation
Indices: 8785383--8785432 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
8785373 TAATTTAAAA
8785383 TGAAAATTTTAAAGAAAAA-AAAAGT
1 TGAAAATTTTAAAGAAAAATAAAAGT
**
8785408 TGAAAATTTTAAATTAAAATAAAAG
1 TGAAAATTTTAAAGAAAAATAAAAG
8785433 GTTGTTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (26 bp):
TGAAAATTTTAAAGAAAAATAAAAGT
Found at i:8786009 original size:17 final size:18
Alignment explanation
Indices: 8785978--8786016 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8785968 AAATTTTATA
* *
8785978 AAAATATTTACAAAATTT
1 AAAATATTTAAAAAAATT
8785996 AAAAT-TTTAAAAAAATT
1 AAAATATTTAAAAAAATT
8786013 AAAA
1 AAAA
8786017 AAAAAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATTTAAAAAAATT
Found at i:8786017 original size:18 final size:18
Alignment explanation
Indices: 8785976--8786017 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8785966 TTAAATTTTA
*
8785976 TAAAAATATTTACAAAAT
1 TAAAAATATTTAAAAAAT
*
8785994 TTAAAAT-TTTAAAAAAAT
1 TAAAAATATTT-AAAAAAT
8786012 TAAAAA
1 TAAAAA
8786018 AAAAAGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATATTTAAAAAAT
Found at i:8786020 original size:28 final size:28
Alignment explanation
Indices: 8785963--8786019 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
8785953 GTTAATGATT
* *
8785963 AATTTAAATTTTATAAAAATATTTACAA
1 AATTTAAATTTTATAAAAATATTAAAAA
8785991 AATTTAAAATTTTA-AAAAA-ATTAAAAA
1 AATTT-AAATTTTATAAAAATATTAAAAA
8786018 AA
1 AA
8786020 AAAGAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 8 0.31
28 10 0.38
29 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTTAAATTTTATAAAAATATTAAAAA
Found at i:8790538 original size:3 final size:3
Alignment explanation
Indices: 8790530--8790582 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
8790520 TTTGGAACTT
*
8790530 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTA
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8790578 TTC TT
1 TTC TT
8790583 TTTTTTTTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8794785 original size:15 final size:15
Alignment explanation
Indices: 8794765--8794794 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8794755 GATAACCATC
8794765 AATAATAACATCATA
1 AATAATAACATCATA
8794780 AATAATAACATCATA
1 AATAATAACATCATA
8794795 CCTCCAACTA
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:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAACATCATA
Found at i:8794896 original size:13 final size:13
Alignment explanation
Indices: 8794878--8794902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8794868 TTTTCCTTCG
8794878 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
8794891 TTTTCTTTTTTT
1 TTTTCTTTTTTT
8794903 CAAAATTTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:8818961 original size:23 final size:23
Alignment explanation
Indices: 8818935--8818986 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
8818925 AATTAAAAAG
8818935 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
8818958 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
8818981 ATGAAA
1 ATGAAA
8818987 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:8823089 original size:40 final size:39
Alignment explanation
Indices: 8823022--8823099 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
8823012 CGAATATAAT
*
8823022 AAATATATATTTTTATTTTTTAATTTTAAAATACTTTTA
1 AAATATATATTTTTATTTTTTAATTTTAAAATAATTTTA
*
8823061 AAATATATATTTTTTATTTTTTATTTTTAAAATAATTTT
1 AAATATATA-TTTTTATTTTTTAATTTTAAAATAATTTT
8823100 TAATGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 9 0.25
40 27 0.75
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (39 bp):
AAATATATATTTTTATTTTTTAATTTTAAAATAATTTTA
Found at i:8823563 original size:24 final size:24
Alignment explanation
Indices: 8823531--8823586 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
8823521 CATTCGATCA
8823531 AATCGAGTGGAAAACTTTCAAGAT
1 AATCGAGTGGAAAACTTTCAAGAT
*
8823555 AATCGAGTGGAAAATTTTCAAGAT
1 AATCGAGTGGAAAACTTTCAAGAT
8823579 AATCGAGT
1 AATCGAGT
8823587 TGACAAATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (24 bp):
AATCGAGTGGAAAACTTTCAAGAT
Found at i:8823925 original size:18 final size:18
Alignment explanation
Indices: 8823902--8823940 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8823892 ACATCAATTT
8823902 ATTATTCAAATTATTAGA
1 ATTATTCAAATTATTAGA
* * *
8823920 ATTATTTAAGTTATTCGA
1 ATTATTCAAATTATTAGA
8823938 ATT
1 ATT
8823941 GTAAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
ATTATTCAAATTATTAGA
Found at i:8826386 original size:3 final size:3
Alignment explanation
Indices: 8826378--8826406 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8826368 AATGTACTGT
8826378 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8826407 TTTGTAAAAT
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):
ATA
Found at i:8826431 original size:22 final size:23
Alignment explanation
Indices: 8826406--8826453 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
8826396 ATAATAATAA
8826406 TTTTGTA-AAATAAATAAGATAT
1 TTTTGTACAAATAAATAAGATAT
* *
8826428 TTTTTTACAAATAAATGAGATAT
1 TTTTGTACAAATAAATAAGATAT
8826451 TTT
1 TTT
8826454 GACTTTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (23 bp):
TTTTGTACAAATAAATAAGATAT
Found at i:8832674 original size:25 final size:24
Alignment explanation
Indices: 8832635--8832689 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
8832625 GGTTAATCGC
8832635 GTTTATTCTATTTTCATTTTTACTTT
1 GTTT-TTCTATTTTCATTTTTA-TTT
* * *
8832661 TTTTTTCTCTTTTCTTTTTTATTT
1 GTTTTTCTATTTTCATTTTTATTT
8832685 GTTTT
1 GTTTT
8832690 GTGAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 7 0.28
25 15 0.60
26 3 0.12
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.76
Consensus pattern (24 bp):
GTTTTTCTATTTTCATTTTTATTT
Found at i:8833208 original size:10 final size:10
Alignment explanation
Indices: 8833193--8833219 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8833183 ATTATTACTA
8833193 TATTATTTAT
1 TATTATTTAT
8833203 TATTATTTAT
1 TATTATTTAT
8833213 TATTATT
1 TATTATT
8833220 CCTATATTTA
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTATTTAT
Found at i:8833299 original size:27 final size:27
Alignment explanation
Indices: 8833242--8833299 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
8833232 CACGCATTTT
* ***
8833242 CTTTATATAGTATATATATACATATTT
1 CTTTATATAATATATATATACATAAAC
* *
8833269 CTTTATATAATATATATATTCTTAAAC
1 CTTTATATAATATATATATACATAAAC
8833296 CTTT
1 CTTT
8833300 TTAAATACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (27 bp):
CTTTATATAATATATATATACATAAAC
Found at i:8833446 original size:10 final size:10
Alignment explanation
Indices: 8833431--8833460 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8833421 CCGCATACTC
8833431 TTATATTTTT
1 TTATATTTTT
*
8833441 TTATATTATT
1 TTATATTTTT
8833451 TTATATTTTT
1 TTATATTTTT
8833461 ATAGTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATATTTTT
Found at i:8835248 original size:22 final size:21
Alignment explanation
Indices: 8835197--8835252 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
8835187 AAATGCTACT
*
8835197 TATTCACAA-TTTTTTATAAT
1 TATTCACAATTTTTTTATAAA
*
8835217 TATTCGCAATTTTTTTAAATAAA
1 TATTCACAATTTTTTT--ATAAA
8835240 T-TTCACAATTTTT
1 TATTCACAATTTTT
8835253 GATGATCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 11 0.37
23 5 0.17
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTCACAATTTTTTTATAAA
Found at i:8835323 original size:21 final size:20
Alignment explanation
Indices: 8835260--8835334 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
8835250 TTTGATGATC
* *
8835260 TTTACAAATTTTAAATAGTGT
1 TTTAC-AATTTTAAATACTTT
* *
8835281 TTTATAATTTTTAATAACTTT
1 TTTACAATTTTAAAT-ACTTT
8835302 TTTACAATTTTAAAATA-TTT
1 TTTACAATTTT-AAATACTTT
*
8835322 TTAACAATATTTA
1 TTTACAAT-TTTA
8835335 TTTTTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 20 0.45
21 21 0.48
22 3 0.07
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTACAATTTTAAATACTTT
Found at i:8835358 original size:18 final size:19
Alignment explanation
Indices: 8835315--8835359 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
8835305 ACAATTTTAA
8835315 AATATTTTTAACAATATTT
1 AATATTTTTAACAATATTT
*
8835334 -ATTTTTTTAA-AAGT-TTT
1 AATATTTTTAACAA-TATTT
8835351 AATATTTTT
1 AATATTTTT
8835360 TTAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AATATTTTTAACAATATTT
Found at i:8835358 original size:20 final size:21
Alignment explanation
Indices: 8835333--8835377 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
8835323 TAACAATATT
8835333 TATTTTTTTAAAAGTTTT-AA
1 TATTTTTTTAAAAGTTTTAAA
* *
8835353 TATTTTTTTAATATTTTTAAA
1 TATTTTTTTAAAAGTTTTAAA
8835374 TATT
1 TATT
8835378 ATTTATGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTTTTTAAAAGTTTTAAA
Found at i:8841470 original size:22 final size:22
Alignment explanation
Indices: 8841436--8841484 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8841426 AGAATTTAGA
*
8841436 ATTTTCTAAAATTTTACCTTTT
1 ATTTTATAAAATTTTACCTTTT
* *
8841458 ATTTTATAGAATTTTACTTTTT
1 ATTTTATAAAATTTTACCTTTT
*
8841480 CTTTT
1 ATTTT
8841485 TGAATTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTATAAAATTTTACCTTTT
Found at i:8846678 original size:21 final size:20
Alignment explanation
Indices: 8846646--8846689 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 20
8846636 ATATTAAGAA
8846646 TATTATTTAAAATTCAAAAT
1 TATTATTTAAAATTCAAAAT
8846666 TATTATATTAAAATTCAAAAT
1 TATTAT-TTAAAATTCAAAAT
8846687 TAT
1 TAT
8846690 ATTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTATTTAAAATTCAAAAT
Found at i:8846809 original size:21 final size:22
Alignment explanation
Indices: 8846777--8846818 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8846767 ATGTTTTATA
8846777 ATATTGAATA-TTATAATATTTG
1 ATATTGAATATTTA-AATATTTG
8846799 ATATT-AATATTTAAATATTT
1 ATATTGAATATTTAAATATTT
8846819 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTGAATATTTAAATATTTG
Found at i:8859556 original size:35 final size:35
Alignment explanation
Indices: 8859516--8859586 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
8859506 TGCAACAAGG
8859516 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
1 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
8859551 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
1 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
8859586 T
1 T
8859587 ATTGCACACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (35 bp):
TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
Found at i:8861122 original size:21 final size:21
Alignment explanation
Indices: 8861097--8861137 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8861087 GTATCCATAT
8861097 CCAGGATAACTCGGCATGTAG
1 CCAGGATAACTCGGCATGTAG
* *
8861118 CCAGGGTAACTTGGCATGTA
1 CCAGGATAACTCGGCATGTA
8861138 TCCATATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (21 bp):
CCAGGATAACTCGGCATGTAG
Found at i:8863790 original size:21 final size:20
Alignment explanation
Indices: 8863766--8863821 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
8863756 TTTATATATA
8863766 TTTTAAGAATATTTTTGAAAT
1 TTTTAA-AATATTTTTGAAAT
*
8863787 TTTTATAAATA-TTTTGAAGT
1 TTTTA-AAATATTTTTGAAAT
8863807 TTTTAAAATTATTTT
1 TTTTAAAA-TATTTT
8863822 ATATTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 3 0.10
20 15 0.48
21 12 0.39
22 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTAAAATATTTTTGAAAT
Found at i:8873614 original size:47 final size:47
Alignment explanation
Indices: 8873544--8873638 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
8873534 ATAATTAGAT
*
8873544 GACCATTTGTATAGTAAGTTGGATCATGGGCTGAACCACCCACCCAG
1 GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
8873591 GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
1 GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
8873638 G
1 G
8873639 CCTGAAAGTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.22
Consensus pattern (47 bp):
GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
Found at i:8876469 original size:15 final size:14
Alignment explanation
Indices: 8876448--8876483 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
8876438 ATAATCCTTA
*
8876448 ATAATTATCTTAAT
1 ATAATTATCCTAAT
8876462 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
8876477 ATAATTA
1 ATAATTA
8876484 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:8877832 original size:39 final size:37
Alignment explanation
Indices: 8877765--8877857 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
8877755 ACCAGAATGG
* *
8877765 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
8877804 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
8877841 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
8877858 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:8878221 original size:3 final size:3
Alignment explanation
Indices: 8878213--8878248 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
8878203 ATTCCCACTC
* *
8878213 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8878249 CTAACATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8878230 original size:12 final size:12
Alignment explanation
Indices: 8878213--8878248 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
8878203 ATTCCCACTC
*
8878213 ATAATAATAATA
1 ATAATACTAATA
8878225 ATAATACTAATA
1 ATAATACTAATA
8878237 ATAATACTAATA
1 ATAATACTAATA
8878249 CTAACATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:8878249 original size:6 final size:6
Alignment explanation
Indices: 8878214--8878262 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
8878204 TTCCCACTCA
* * * * *
8878214 TAATAA TAATAA TAATAC TAATAA TAATAC TAATAC TAACAT TAATAC
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC
8878262 T
1 T
8878263 TACCTCACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (6 bp):
TAATAC
Found at i:8878259 original size:18 final size:18
Alignment explanation
Indices: 8878218--8878262 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
8878208 CACTCATAAT
* *
8878218 AATAATAATAATACTAAT
1 AATAATACTAATACTAAC
8878236 AATAATACTAATACTAAC
1 AATAATACTAATACTAAC
*
8878254 ATTAATACT
1 AATAATACT
8878263 TACCTCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATACTAATACTAAC
Found at i:8878999 original size:20 final size:20
Alignment explanation
Indices: 8878965--8879004 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8878955 TTCTATTCTG
*
8878965 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
8878985 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
8879005 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:8879171 original size:31 final size:28
Alignment explanation
Indices: 8879135--8879202 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
8879125 TTGTCTTTAT
**
8879135 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
8879165 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
8879194 TTAATTTAT
1 TTAATTTAT
8879203 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:8879219 original size:21 final size:20
Alignment explanation
Indices: 8879181--8879219 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8879171 TAATTTAATA
*
8879181 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
8879201 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
8879220 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:8909928 original size:14 final size:14
Alignment explanation
Indices: 8909905--8909935 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8909895 TGTCGCGTTC
*
8909905 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
8909919 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
8909933 TTA
1 TTA
8909936 AAAACAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:8910385 original size:22 final size:22
Alignment explanation
Indices: 8910357--8910400 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8910347 CTCCTGATTG
8910357 CCATTCGATTCAAGTCTTTGTT
1 CCATTCGATTCAAGTCTTTGTT
8910379 CCATTCGATTCAAGTCTTTGTT
1 CCATTCGATTCAAGTCTTTGTT
8910401 AGTGGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (22 bp):
CCATTCGATTCAAGTCTTTGTT
Found at i:8914927 original size:22 final size:22
Alignment explanation
Indices: 8914901--8914942 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
8914891 TAAGTTGTTA
8914901 TTTTATTTTTATTTTTGAAGTT
1 TTTTATTTTTATTTTTGAAGTT
8914923 TTTTATTTTTATTTTTGAAG
1 TTTTATTTTTATTTTTGAAG
8914943 AATGGTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTTATTTTTATTTTTGAAGTT
Found at i:8918619 original size:2 final size:2
Alignment explanation
Indices: 8918612--8918640 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8918602 ATGTATACAT
8918612 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8918641 TAACTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8919782 original size:6 final size:7
Alignment explanation
Indices: 8919766--8919791 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8919756 TAGAATTTAC
8919766 AAAAATA
1 AAAAATA
8919773 AAAAATA
1 AAAAATA
8919780 AAAAATA
1 AAAAATA
8919787 AAAAA
1 AAAAA
8919792 AGTTTCTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:8922689 original size:2 final size:2
Alignment explanation
Indices: 8922682--8922711 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8922672 TTATGTTTCG
*
8922682 TC TC TC TC TC TC TC TC TC TC TC TC TA TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8922712 GATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8953150 original size:2 final size:2
Alignment explanation
Indices: 8953143--8953167 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8953133 CTTAATATTT
8953143 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
8953168 CGCTTACCTG
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8958698 original size:221 final size:219
Alignment explanation
Indices: 8958309--8958954 Score: 802
Period size: 221 Copynumber: 2.9 Consensus size: 219
8958299 ATAATCATAT
* * * * **
8958309 TTTAACAATCATTACAATCATTATTATTATCGATCACTAAAAATAATATATATTTGACCACGGTA
1 TTTAACGATCATTAAAATCATCATTATTATCAATCACTAAAAATAATATATATTTGACCACAATA
* *
8958374 ATTAAAATTATCTACAACAAAATATATAAGGATATTTTAGTTGGCCGTTAAAACCGTTATCACTC
66 ATTAAAA-TATCTACAACAAAATATATAAGGATATTTTAGTTTGCCGTTAAAACCGTTATTACTC
* * *
8958439 TCACTCACTAAAATAAACGCATATCTTGATCGATAAATTGTTTGAATAAATTCACAATTATATTT
130 TCACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTT
*
8958504 TAATTGATCATTAAAATAAAATAGA
195 TAATTGACCATTAAAATAAAATAGA
* *
8958529 TTTAACGATCATTAAAATCATCATTATTATCTATCACTAAAAATAATATATATTTGGCCACAATA
1 TTTAACGATCATTAAAATCATCATTATTATCAATCACTAAAAATAATATATATTTGACCACAATA
* *
8958594 ATTAAAATCATCTATAACAAAATATAGTAAGGATATTTTAGTTTGCCGTTAAAACCTTTATTACT
66 ATTAAAAT-ATCTACAACAAAATATA-TAAGGATATTTTAGTTTGCCGTTAAAACCGTTATTACT
8958659 CTCACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATT
129 CTCACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATT
* * *
8958724 TTAATTAACCGTTAAAATAAATTAGA
194 TTAATTGACCATTAAAATAAAATAGA
* * * * * * * * * *
8958750 TTTATAAGATAAATGCATAATGA-CATT-TTAACAATCA-TTAAAATCAT-TATTATTATCTATC
1 TTTA-ACGAT-CAT-TAAAATCATCATTATTATCAATCACTAAAAATAATATA-TATT-T-GACC
* * *
8958811 ACTAA-AAATAATATATATCTACAACAAAATATATAAGAATATTTTAG-TTGACCGTTTAAACCG
60 AC-AATAATTAA-A-ATATCTACAACAAAATATATAAGGATATTTTAGTTTG-CCGTTAAAACCG
* * *
8958874 TTATTACTATCTA-TCACTAAAATAAACACATATTTTTATCGATAAATTGTTTAAATAAGTTCAC
121 TTATTACTCTC-ACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCAC
8958938 AATTATATTTTAATTGA
185 AATTATATTTTAATTGA
8958955 AAATGCATTA
Statistics
Matches: 374, Mismatches: 39, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
219 1 0.00
220 83 0.22
221 135 0.36
222 16 0.04
223 112 0.30
224 25 0.07
225 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (219 bp):
TTTAACGATCATTAAAATCATCATTATTATCAATCACTAAAAATAATATATATTTGACCACAATA
ATTAAAATATCTACAACAAAATATATAAGGATATTTTAGTTTGCCGTTAAAACCGTTATTACTCT
CACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTTT
AATTGACCATTAAAATAAAATAGA
Found at i:8962519 original size:35 final size:34
Alignment explanation
Indices: 8962480--8962546 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
8962470 TTTTCCTTTA
* *
8962480 AACCTCAAATTCTAAACCTAAACCCTTAAATTTTG
1 AACCTCAAACTCGAAACCTAAACCC-TAAATTTTG
** *
8962515 AACCTTGAACTCGAATCCTAAACCCTAAATTT
1 AACCTCAAACTCGAAACCTAAACCCTAAATTT
8962547 GGAGTTTGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 7 0.26
35 20 0.74
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (34 bp):
AACCTCAAACTCGAAACCTAAACCCTAAATTTTG
Found at i:8963787 original size:22 final size:19
Alignment explanation
Indices: 8963736--8963788 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 19
8963726 TACCATGTTT
*
8963736 ATTAAAATATTTATTTTTA
1 ATTAAAATATTGATTTTTA
8963755 ATTAATCAATATTGATTTTATA
1 ATTAA--AATATTGATTTT-TA
8963777 ATCATAAAATAT
1 AT--TAAAATAT
8963789 ATATAACTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.18
21 11 0.39
22 9 0.32
24 3 0.11
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAAAATATTGATTTTTA
Found at i:8965140 original size:17 final size:18
Alignment explanation
Indices: 8965114--8965152 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8965104 GTTCATGTGG
8965114 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
8965130 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
8965148 AAAAT
1 AAAAT
8965153 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:8965329 original size:15 final size:15
Alignment explanation
Indices: 8965309--8965339 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8965299 AAAACAATAT
8965309 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
8965324 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
8965339 A
1 A
8965340 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:8968710 original size:15 final size:15
Alignment explanation
Indices: 8968700--8968729 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8968690 TCCCTTCTTG
8968700 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
8968715 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
8968730 TCGATCTCCA
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:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:8969497 original size:17 final size:18
Alignment explanation
Indices: 8969471--8969509 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8969461 CAAATTGTGG
8969471 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
8969487 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
8969505 AAAAT
1 AAAAT
8969510 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:8971604 original size:46 final size:46
Alignment explanation
Indices: 8971540--8971802 Score: 382
Period size: 46 Copynumber: 5.6 Consensus size: 46
8971530 TTTGAGTACT
*
8971540 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
8971586 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
8971632 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGTTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
8971684 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
8971730 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
8971776 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
8971803 GCTACACTTA
Statistics
Matches: 198, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
46 156 0.79
52 42 0.21
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:8971659 original size:98 final size:92
Alignment explanation
Indices: 8971540--8971802 Score: 373
Period size: 98 Copynumber: 2.8 Consensus size: 92
8971530 TTTGAGTACT
* *
8971540 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
8971605 GATAAGTGATAGCTTCAGCTATACTTA
66 GATAAGTGATAGCTTCAGCTATACTTA
* * *
8971632 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGTTATACTTATCTGATCAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGA
* *
8971697 TAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAAGTGATAAGTGATAGCTTCAGCTATACTTA
** * *
8971730 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
8971795 GATAAGTG
66 GATAAGTG
8971803 GCTACACTTA
Statistics
Matches: 152, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
92 65 0.43
98 87 0.57
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (92 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCTTCAGCTATACTTA
Found at i:8971810 original size:37 final size:37
Alignment explanation
Indices: 8971766--8971874 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
8971756 GATAGCTTTA
8971766 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
8971803 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
8971840 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
8971875 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:8980829 original size:103 final size:103
Alignment explanation
Indices: 8980650--8980859 Score: 420
Period size: 103 Copynumber: 2.0 Consensus size: 103
8980640 CGATGTTCCT
8980650 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
1 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
8980715 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
66 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
8980753 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
1 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
8980818 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
66 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
8980856 AAGA
1 AAGA
8980860 GACAGATCCT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (103 bp):
AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
Found at i:8984278 original size:32 final size:33
Alignment explanation
Indices: 8984239--8984302 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
8984229 ACTTGAATGC
8984239 TGCTTCTAGT-CTAGGTGTTGGCTTATGAGTAA
1 TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTAA
8984271 TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTA
1 TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTA
8984303 GAGTCGGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 10 0.32
33 21 0.68
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (33 bp):
TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTAA
Found at i:8984907 original size:29 final size:29
Alignment explanation
Indices: 8984852--8984907 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
8984842 ATAATACAAA
* **
8984852 AATATTTACCAAACTAATATATGTTTTAC
1 AATACTTACCAAACTAATATAAATTTTAC
* *
8984881 AATACTTACCAAATTAGTATAAATTTT
1 AATACTTACCAAACTAATATAAATTTT
8984908 GTTGGAGGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (29 bp):
AATACTTACCAAACTAATATAAATTTTAC
Done.