Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 97 of 133
Found at i:18831921 original size:20 final size:20
Alignment explanation
Indices: 18831844--18831936 Score: 66
Period size: 21 Copynumber: 4.6 Consensus size: 20
18831834 ATGAGTAATG
* *
18831844 AGAAAAAAAAGTGCAAAAAAA
1 AGAAAAAAAAGAG-ATAAAAA
*
18831865 AAAAAAACAAAGAAGA-AAAAA
1 AGAAAAA-AAAG-AGATAAAAA
*
18831886 ATAAAAAATAA-A-ATAAAAA
1 AGAAAAAA-AAGAGATAAAAA
* **
18831905 AGGAAAAAAAGAGATAAAGG
1 AGAAAAAAAAGAGATAAAAA
18831925 AGAAAAAAAAGA
1 AGAAAAAAAAGA
18831937 CTTAAAGGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
18 3 0.05
19 13 0.22
20 17 0.29
21 19 0.33
22 5 0.09
23 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.05
Consensus pattern (20 bp):
AGAAAAAAAAGAGATAAAAA
Found at i:18832926 original size:175 final size:175
Alignment explanation
Indices: 18832616--18832944 Score: 389
Period size: 175 Copynumber: 1.9 Consensus size: 175
18832606 ACTCCAGCCG
* * * * * *
18832616 ATTATTTCTCTGACTTGAGGTTTTATCTCGGTCAGTTATCTTCATTCTTGACTCGATCTGGGTCA
1 ATTATTTCTCTAACTTCAGGTTTTATCTCGGTCAGTCATCTTCATCCTTGACTCAATCTGAGTCA
* * *** *
18832681 CTTTATCTATTCGACTCACGATTTCATCATAGTCATTTGATCTTGGTTCCGTCCAGATCATTTAT
66 CTTTATCTATTCGACTCACAATTTCATCATAGTCATTCGATCTAACTTCCGGCCAGATCATTTAT
*
18832746 TGACTCGCAGTTTCATTTTGATCATTCGATCTCAGTTCAGTCCAA
131 TGACTCGCAGTTTCATCTTGATCATTCGATCTCAGTTCAGTCCAA
*
18832791 ATTATTTCTCTAAC-TCAGGTTTTCATCTCGGTCAGTCATCTTCGA-CCTTGACTCAATCTTAGT
1 ATTATTTCTCTAACTTCAGGTTTT-ATCTCGGTCAGTCATCTTC-ATCCTTGACTCAATCTGAGT
* ** * *
18832854 CACTTTATCTATTTGACTTGCAATTTTATC-TTGATCATTCGATCTCAACTT-CGGCCA-ATTCA
64 CACTTTATCTATTCGACTCACAATTTCATCATAG-TCATTCGATCT-AACTTCCGGCCAGA-TCA
* *
18832916 TTTCTTGACTCGCTGTTTCATCTTGATCA
126 TTTATTGACTCGCAGTTTCATCTTGATCA
18832945 ATCATCTTTG
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
174 11 0.09
175 114 0.89
176 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (175 bp):
ATTATTTCTCTAACTTCAGGTTTTATCTCGGTCAGTCATCTTCATCCTTGACTCAATCTGAGTCA
CTTTATCTATTCGACTCACAATTTCATCATAGTCATTCGATCTAACTTCCGGCCAGATCATTTAT
TGACTCGCAGTTTCATCTTGATCATTCGATCTCAGTTCAGTCCAA
Found at i:18833182 original size:242 final size:241
Alignment explanation
Indices: 18832743--18833235 Score: 537
Period size: 242 Copynumber: 2.0 Consensus size: 241
18832733 CCAGATCATT
*
18832743 TATT-GACTCGCAGTTTCATTTTGATCATTCGATCTCAGTTCAGTCCAAATTATTTCTCTAACTC
1 TATTCGACTCACAGTTTCATTTTGATCATTCGATCTCAGTTCAGTCCAAATTATTTCTCTAACTC
* * * * *
18832807 AGGTTTTCATCTCGGTCAGTCATCTTCGACCTTGACTCAATCTTAGTCACTTTATCTATTTGACT
66 AGGATTCCATCTCGGTCAGTCATATTCGACCTCGACTCAATCCTAGTCACTTTATCTATTTGACT
** ** * * * * *
18832872 TGCAATTTTATCTTGATCATTCGATCTCAACTTCGGCCAATTCATTTCTTGACTCGCTGTTTCAT
131 CACAATTTTATCCAGATCACTCAATCTCAACTTCAGCCAATTCATTTCTTGACTCGCTATTCCAT
* ** * * *
18832937 CTTGATCAATCATCTTTGACTTTGACTTAATTCTGGTCACTTTATC
196 CTTGATCAATCATCTTTGACCTCAACTCAATCCTGATCACTTTATC
* * * * *
18832983 TATTCGACTCACAGTTTTCATTTTGGTCATTCGATCTCAGTTCAGTCTAGATTATTTTTCTGACT
1 TATTCGACTCACAG-TTTCATTTTGATCATTCGATCTCAGTTCAGTCCAAATTATTTCTCTAACT
* * ***
18833048 -TGTGATTCCATCTTGGTCAGTCATATTCGACCTCGACTTGGTCCTAGTCACTTTATCTATTTGA
65 CAG-GATTCCATCTCGGTCAGTCATATTCGACCTCGACTCAATCCTAGTCACTTTATCTATTTGA
* * ** * *
18833112 CTCACGATTTTATCCCAG-TCACTCAATTTTGACTTCAGTCGA-TCATTTCTCTGACTCG-TCAT
129 CTCACAATTTTAT-CCAGATCACTCAATCTCAACTTCAGCCAATTCATTTCT-TGACTCGCT-AT
* * **
18833174 TCCATCTTGGTCAGTCATCTTTGACCTCAACTCGGTCCTGATCACTTTATC
191 TCCATCTTGATCAATCATCTTTGACCTCAACTCAATCCTGATCACTTTATC
18833225 TATTCGACTCA
1 TATTCGACTCA
18833236 TTGTTTTATC
Statistics
Matches: 206, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
240 4 0.02
241 18 0.09
242 182 0.88
243 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (241 bp):
TATTCGACTCACAGTTTCATTTTGATCATTCGATCTCAGTTCAGTCCAAATTATTTCTCTAACTC
AGGATTCCATCTCGGTCAGTCATATTCGACCTCGACTCAATCCTAGTCACTTTATCTATTTGACT
CACAATTTTATCCAGATCACTCAATCTCAACTTCAGCCAATTCATTTCTTGACTCGCTATTCCAT
CTTGATCAATCATCTTTGACCTCAACTCAATCCTGATCACTTTATC
Found at i:18833615 original size:120 final size:120
Alignment explanation
Indices: 18832767--18833641 Score: 461
Period size: 120 Copynumber: 7.3 Consensus size: 120
18832757 TTCATTTTGA
* * * * * * *
18832767 TCATTCGATCTC-AGTTCAGTCCAAATTATTTCTCTAACTCAG-GTTTTCATCTCGGTCAGTCAT
1 TCATTCGATCTCGATTTC-GTCCAGATCATTTCTCTGACTC-GTGATTCCATC-CAGTCAGTCAT
* * * * * * *
18832830 CTTCGACCTTGACTCAATCTTAGTCACTTTATCTATTTGACT--TGCAATTTTAT-CTTG
63 CTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCATG--ATTTCATCCATG
* * * * ** *
18832887 ATCATTCGATCTCAACTTCGGCCA-ATTCATTTCT-TGACTCGCTG-TTTCATCTTGATCAATCA
1 -TCATTCGATCTCGATTTCGTCCAGA-TCATTTCTCTGACTCG-TGATTCCATCCAG-TCAGTCA
* * ** * * **
18832949 TCTTTGACTTTGACTTAAT-TCTGGTCACTTTATCTATTCGACTCACAGTTTTCAT-TTTGG
62 TCTTTGACCTCGACTCGATCT-TGGTCACTTTATCTATTCGACTCA-TGATTTCATCCAT-G
* * * * * ** *
18833009 TCATTCGATCTC-AGTTCAGTCTAGATTATTTTTCTGACTTGTGATTCCATCTTGGTCAGTCATA
1 TCATTCGATCTCGATTTC-GTCCAGATCATTTCTCTGACTCGTGATTCCATC-CAGTCAGTCATC
* * * * * * * *
18833073 TTCGACCTCGACTTGGTCCTAGTCACTTTATCTATTTGACTCACGATTTTATCCCA-G
64 TTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCATGATTTCAT-CCATG
* * * * * * **
18833130 TCACTCAATTTTGACTTCAGT-C-GATCATTTCTCTGACTCGTCATTCCATCTTGGTCAGTCATC
1 TCATTCGATCTCGATTTC-GTCCAGATCATTTCTCTGACTCGTGATTCCATC-CAGTCAGTCATC
* * * * *
18833193 TTTGACCTCAACTCGGTCCTGATCACTTTATCTATTCGACTCATTG-TTTTATCCCA-G
64 TTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCA-TGATTTCAT-CCATG
* * * * * * * *
18833250 TCATTTGATCTAGACTTT-GGCCAGATCATTTTTCTAACACGTGGTTCCATCCCGATCAGTCATC
1 TCATTCGATCTCGA-TTTCGTCCAGATCATTTCTCTGACTCGTGATTCCATCCAG-TCAGTCATC
* * * * *
18833314 TTTGACCTCGACTCAATCTTGGTCACTTTATCTTTTTGACTCATGATTTCGT-CTTAG
64 TTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCATGATTTCATCCAT-G
* * * * ** *
18833371 TCATTCAATCTCGA-TTCTATCCAGATCATTTCT-TGACTCACT-ATTTCATCCCAGTTTGCCAT
1 TCATTCGATCTCGATTTC-GTCCAGATCATTTCTCTGACTC-GTGATTCCAT-CCAGTCAGTCAT
* * * * * * * *
18833433 CTTTGACCTTGACTCGGTCTTGGTCGCTTTATATTTTCAACTCATGGTTTCGTCTCAT-
63 CTTTGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCATGATTTCATC-CATG
* *
18833491 TCATTCGATCTCGATTTCGTCCAAATCATTTCT-TGACTCGTGATTCCATCACAGTTAGTCATCT
1 TCATTCGATCTCGATTTCGTCCAGATCATTTCTCTGACTCGTGATTCCATC-CAGTCAGTCATCT
* *
18833555 TCGACCTCGACAT-GATCTTGGTCACTTTATCTATTCGACT-AGTGACTTCATCCATG
65 TTGACCTCGAC-TCGATCTTGGTCACTTTATCTATTCGACTCA-TGATTTCATCCATG
* * *
18833611 TCATTTGATCTC-AGTTCAGTCCCGATCATTT
1 TCATTCGATCTCGATTTC-GTCCAGATCATTT
18833642 TCTTACTTGT
Statistics
Matches: 588, Mismatches: 126, Indels: 81
0.74 0.16 0.10
Matches are distributed among these distances:
119 17 0.03
120 324 0.55
121 176 0.30
122 68 0.12
123 3 0.01
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.41
Consensus pattern (120 bp):
TCATTCGATCTCGATTTCGTCCAGATCATTTCTCTGACTCGTGATTCCATCCAGTCAGTCATCTT
TGACCTCGACTCGATCTTGGTCACTTTATCTATTCGACTCATGATTTCATCCATG
Found at i:18833869 original size:26 final size:23
Alignment explanation
Indices: 18833820--18833871 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
18833810 TTATTATTTT
*
18833820 TATTATATCAGATTATATTATAG
1 TATTATATCAGATTATAGTATAG
*
18833843 TATTATTATCATATTATCAGTATTAG
1 TATTA-TATCAGATTAT-AGTA-TAG
18833869 TAT
1 TAT
18833872 ATTGTATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 10 0.42
25 3 0.12
26 6 0.25
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (23 bp):
TATTATATCAGATTATAGTATAG
Found at i:18833914 original size:9 final size:8
Alignment explanation
Indices: 18833831--18834011 Score: 104
Period size: 9 Copynumber: 22.0 Consensus size: 8
18833821 ATTATATCAG
18833831 ATTATATT
1 ATTATATT
18833839 ATAGTATTATT
1 AT--TA-TATT
*
18833850 ATCATATT
1 ATTATATT
*
18833858 ATCAGTATT
1 ATTA-TATT
*
18833867 AGTATATT
1 ATTATATT
* *
18833875 -GTATAGT
1 ATTATATT
18833882 ATTATATT
1 ATTATATT
18833890 ATTATATT
1 ATTATATT
**
18833898 ATGGTACTT
1 ATTATA-TT
*
18833907 ATTATACT
1 ATTATATT
18833915 A-TATCA-T
1 ATTAT-ATT
*
18833922 ATTATATA
1 ATTATATT
* *
18833930 ATAATAAT
1 ATTATATT
*
18833938 AATA-ATT
1 ATTATATT
18833945 ATTATTATT
1 ATTA-TATT
18833954 ATTATTATT
1 ATTA-TATT
*
18833963 ATTATACT
1 ATTATATT
18833971 A-T-TATT
1 ATTATATT
18833977 ATTATTATT
1 ATTA-TATT
18833986 ATTATTATT
1 ATTA-TATT
18833995 ATTATTATT
1 ATTA-TATT
18834004 ATTATATT
1 ATTATATT
18834012 TTCATTCTTT
Statistics
Matches: 138, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
6 4 0.03
7 19 0.14
8 52 0.38
9 55 0.40
10 2 0.01
11 6 0.04
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (8 bp):
ATTATATT
Found at i:18833948 original size:3 final size:3
Alignment explanation
Indices: 18833942--18834008 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
18833932 AATAATAATA
*
18833942 ATT ATT ATT ATT ATT ATT ATT ATT A-T ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18833989 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
18834009 ATTTTCATTC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:18835816 original size:22 final size:24
Alignment explanation
Indices: 18835766--18835816 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
18835756 ATATTTCTTG
*
18835766 AATTTTTTTTGAAAAATCAAATTTC
1 AATTTCTTTTGAAAAAT-AAATTTC
18835791 -ATTTCTTTT-AAAAAT-AATTTC
1 AATTTCTTTTGAAAAATAAATTTC
18835812 AATTT
1 AATTT
18835817 TTATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 6 0.25
22 4 0.17
23 6 0.25
24 8 0.33
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTTCTTTTGAAAAATAAATTTC
Found at i:18835956 original size:23 final size:24
Alignment explanation
Indices: 18835929--18835991 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
18835919 TAATAATGAG
*
18835929 TTTTTAAAAAATAAAAAATTATTA
1 TTTTTAAAAAATAAAAAATTAATA
*
18835953 TTTTTAAGAAAACT--AAATTTAATA
1 TTTTTAA-AAAA-TAAAAAATTAATA
18835977 -TTTTAAAAATATAAA
1 TTTTTAAAAA-ATAAA
18835992 TATAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
22 4 0.12
23 7 0.22
24 16 0.50
25 4 0.12
26 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTTTAAAAAATAAAAAATTAATA
Found at i:18838921 original size:197 final size:195
Alignment explanation
Indices: 18838574--18838951 Score: 596
Period size: 197 Copynumber: 1.9 Consensus size: 195
18838564 TTTATTTATT
* *
18838574 AAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTTCA
1 AAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTAAAATAATTCTTAAAATGTTCCA
* * * *
18838639 GTACGTTGATAACATTAAAAGAACTCTTTCTCACTTAGAGATTTTTTAAAGCATTTCTACTCGGA
66 GTACATTGATAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
* * * *
18838704 ATACTTTTAGAATTTCATCTTTGGAGG-CTCGAATTTATTTTTCGTAAGAAAATGTCATGTTTAA
131 ATACTTTTAGAATCTCATCTTTAGAGGTCT-AAATTTACTTTTCGTAAGAAAATGTCATGTTTAA
18838768 A
195 A
* *
18838769 AAAAAATTTATTTCTCGAGAAAAATAAATTAAAACTTTTTTATTAAAATAATTCTTAAAATGTTC
1 AAAAAA-TTA-TTCTCGAGAAAAATAAATCAAAACCTTTTTATTAAAATAATTCTTAAAATGTTC
*
18838834 CAGTACATTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
64 CAGTACATTGATAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
*
18838899 GAATATTTTTAGAATCTCATCTTTAGAGGTCTAAATTTACTTTTCGTAAGAAA
129 GAATACTTTTAGAATCTCATCTTTAGAGGTCTAAATTTACTTTTCGTAAGAAA
18838952 TTATATCATG
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
195 6 0.04
196 3 0.02
197 155 0.93
198 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (195 bp):
AAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTAAAATAATTCTTAAAATGTTCCA
GTACATTGATAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
ATACTTTTAGAATCTCATCTTTAGAGGTCTAAATTTACTTTTCGTAAGAAAATGTCATGTTTAAA
Found at i:18839033 original size:12 final size:12
Alignment explanation
Indices: 18839016--18839045 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18839006 TCATTCAAAA
18839016 ATTTTATTAATT
1 ATTTTATTAATT
18839028 ATTTTATTAATT
1 ATTTTATTAATT
*
18839040 TTTTTA
1 ATTTTA
18839046 ATTGAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:18839458 original size:205 final size:206
Alignment explanation
Indices: 18839080--18839465 Score: 480
Period size: 205 Copynumber: 1.9 Consensus size: 206
18839070 TTTAATTATG
* * *
18839080 TTGAAGATTTTTTATAAATATTCCAATACGCTGGTAATATTTTACAAAAAATCTTCTCACCTAGA
1 TTGAAAATTTTTTATAAATACTCCAATACGCTGGTAATATTTTACAAAAAATCTTCTCACCTAAA
** * * ** * *
18839145 GATTTTTTAAAGCATCTCTACTCGAAATACTTTTAGAATCCCATCATTTGATTAAATTTCTTTTC
66 GATTTCGTAAAGCATCACTACTCGAAATACCTTTAGAATCCCATCATCGGATAAAAATTCTTTTC
* * *
18839210 TTCCTATTTTTATTACTTATTTTTAATTTATTAATCAATTTTTAT-TTATTATTAAAAAAGAAAA
131 TTCATATTTTTATTACTTAATATTAATTTATTAATCAATTTTTATATTATTATTAAAAAAGAAAA
18839274 TTTTTACTGTA
196 TTTTTACTGTA
*
18839285 TTGAAAATTTTTATATAAATACTCCAATACGCTGGTAGTATTTTA-AAAAAATCTTCTCACCTAA
1 TTGAAAATTTTT-TATAAATACTCCAATACGCTGGTAATATTTTACAAAAAATCTTCTCACCTAA
* * *
18839349 AGATTTCGT-AGGCATCACTACTCGAAATACCTTT-GAATCTCATCGTCGGATAAAAATTCATTT
65 AGATTTCGTAAAGCATCACTACTCGAAATACCTTTAGAATCCCATCATCGGATAAAAATTC--TT
* **
18839412 TTCTTTCAT-TTTTTATTTCTTTAATATT-A-TTATTAAATTTATTTTTATATTATT
128 TTC-TTCATATTTTTATTAC-TTAATATTAATTTATT-AATCAATTTTTATATTATT
18839466 GTTTTTAAAG
Statistics
Matches: 153, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
203 19 0.12
204 27 0.18
205 62 0.41
206 45 0.29
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (206 bp):
TTGAAAATTTTTTATAAATACTCCAATACGCTGGTAATATTTTACAAAAAATCTTCTCACCTAAA
GATTTCGTAAAGCATCACTACTCGAAATACCTTTAGAATCCCATCATCGGATAAAAATTCTTTTC
TTCATATTTTTATTACTTAATATTAATTTATTAATCAATTTTTATATTATTATTAAAAAAGAAAA
TTTTTACTGTA
Found at i:18839465 original size:26 final size:27
Alignment explanation
Indices: 18839423--18839481 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
18839413 TCTTTCATTT
18839423 TTTATTTCTTTAATATTATTATTAAA-
1 TTTATTTCTTTAATATTATTATTAAAG
* * *
18839449 TTTATTT-TTATATTATTGTTTTTAAAG
1 TTTATTTCTT-TAATATTATTATTAAAG
18839476 TTTATT
1 TTTATT
18839482 AACATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 20 0.71
27 6 0.21
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTATTTCTTTAATATTATTATTAAAG
Found at i:18840545 original size:20 final size:20
Alignment explanation
Indices: 18840522--18840586 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 20
18840512 TTGAAAAAAA
18840522 AAGAAAAAGAAAGAAAGAAG
1 AAGAAAAAGAAAGAAAGAAG
* * *
18840542 AAGACAAACG-CAGAAATG-GG
1 AAGA-AAAAGAAAGAAA-GAAG
18840562 AAG-AAAAGAAAG--AGAAG
1 AAGAAAAAGAAAGAAAGAAG
18840579 AAGAAAAA
1 AAGAAAAA
18840587 CTAATAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
16 1 0.03
17 5 0.15
18 8 0.24
19 2 0.06
20 13 0.38
21 5 0.15
ACGTcount: A:0.68, C:0.05, G:0.26, T:0.02
Consensus pattern (20 bp):
AAGAAAAAGAAAGAAAGAAG
Found at i:18840844 original size:45 final size:45
Alignment explanation
Indices: 18840784--18841329 Score: 925
Period size: 45 Copynumber: 11.9 Consensus size: 45
18840774 TTGAAAGTTT
**
18840784 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTAATG
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
*
18840829 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATG
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
18840874 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-T-TC-TCTTG
18840922 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
18840967 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC-TCTTG
18841014 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TC-TCTTG
18841062 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
18841107 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
18841152 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC-TCTTG
18841199 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC-TCTTG
18841245 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
18841291 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT
18841330 TTATCTTGTT
Statistics
Matches: 489, Mismatches: 2, Indels: 20
0.96 0.00 0.04
Matches are distributed among these distances:
44 33 0.07
45 142 0.29
46 135 0.28
47 130 0.27
48 49 0.10
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.25
Consensus pattern (45 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
Found at i:18840959 original size:92 final size:92
Alignment explanation
Indices: 18840784--18841329 Score: 944
Period size: 92 Copynumber: 5.9 Consensus size: 92
18840774 TTGAAAGTTT
* **
18840784 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TC-TAATGAAAAGGCTCCTCTCAGCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAA-GCTCCTCTCAGCA
*
18840847 GAGGCTCAACAACTTTAAAA-TCTCATG
65 GAGGCTCAACAACTTTAAAATTCTCTTG
18840874 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGCTCCTCTCAGC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-T-TCATCTTGAAAAGCTCCTCTCAGC
18840938 AGAGGCTCAACAACTTTAAAATTCTCTTG
64 AGAGGCTCAACAACTTTAAAATTCTCTTG
18840967 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG-AAAAGCTCCTCTCAGCA
18841032 GAGGCTCAACAACTTTAAAATCTCATCTTG
65 GAGGCTCAACAACTTTAAAAT-TC-TCTTG
18841062 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC-TCTTGAAAAGCTCCTCTCAGCAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCCTCTCAGCAG
18841125 AGGCTCAACAACTTTAAAATTCTCTTG
66 AGGCTCAACAACTTTAAAATTCTCTTG
18841152 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCCTCTCAGCAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCCTCTCAGCAG
18841217 AGGCTCAACAACTTTAAAATTCATCTTG
66 AGGCTCAACAACTTTAAAATTC-TCTTG
18841245 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC-TCTTGAAAAGCTCCTCTCAGCAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCCTCTCAGCAG
18841309 AGGCTCAACAACTTTAAAATT
66 AGGCTCAACAACTTTAAAATT
18841330 TTATCTTGTT
Statistics
Matches: 440, Mismatches: 4, Indels: 22
0.94 0.01 0.05
Matches are distributed among these distances:
89 36 0.08
90 5 0.01
91 42 0.10
92 170 0.39
93 103 0.23
94 79 0.18
95 5 0.01
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.25
Consensus pattern (92 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCCTCTCAGCAG
AGGCTCAACAACTTTAAAATTCTCTTG
Found at i:18841108 original size:185 final size:185
Alignment explanation
Indices: 18840784--18841329 Score: 971
Period size: 185 Copynumber: 3.0 Consensus size: 185
18840774 TTGAAAGTTT
* ** *
18840784 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TC-TAATGAAAAGGCTCCTCTCAGCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
18840847 GAGGCTCAACAACTTTAAAATCTCA---TGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
66 GAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
18840909 AATTCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
131 AA-T-TC-TCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
18840967 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
18841032 GAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
66 GAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
18841097 AATTCTCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
131 AATTCTCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
18841152 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG-AAAAGCTCCTCTCAGCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
18841216 GAGGCTCAACAACTTTAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
66 GAGGCTCAACAACTTTAAAATCTCATCTTG-AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
18841280 AAATTCTCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT
130 AAATTCTCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT
18841330 TTATCTTGTT
Statistics
Matches: 353, Mismatches: 4, Indels: 11
0.96 0.01 0.03
Matches are distributed among these distances:
183 45 0.13
184 124 0.35
185 142 0.40
186 2 0.01
187 1 0.00
188 39 0.11
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.25
Consensus pattern (185 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGCA
GAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
AATTCTCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG
Found at i:18843210 original size:21 final size:21
Alignment explanation
Indices: 18843186--18843228 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18843176 TTTGCATGTG
*
18843186 CCCCACAAACTTCATCATGCA
1 CCCCACAAACTCCATCATGCA
18843207 CCCCACAAACTCCATCATGCA
1 CCCCACAAACTCCATCATGCA
18843228 C
1 C
18843229 ATATTCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.47, G:0.05, T:0.16
Consensus pattern (21 bp):
CCCCACAAACTCCATCATGCA
Found at i:18845692 original size:14 final size:13
Alignment explanation
Indices: 18845662--18845705 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
18845652 ATAGAATGGC
*
18845662 AAGAAAATGATGGA
1 AAGAAAA-GATGAA
18845676 AAGAAAAGAATGAA
1 AAGAAAAG-ATGAA
18845690 AAGTAAAAGATGAA
1 AAG-AAAAGATGAA
18845704 AA
1 AA
18845706 TAATAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 1 0.04
14 21 0.78
15 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (13 bp):
AAGAAAAGATGAA
Found at i:18845713 original size:28 final size:27
Alignment explanation
Indices: 18845647--18845717 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 27
18845637 ATTGGCACAC
**
18845647 AAAAAATAGAATGGCAAGAAAATGATGG
1 AAAAAATAGAATGAAAAGAAAATGAT-G
18845675 AAAGAAA-AGAATGAAAAGTAAAA-GATG
1 AAA-AAATAGAATGAAAAG-AAAATGATG
18845702 AAAATAATAGAA-GAAA
1 AAAA-AATAGAATGAAA
18845718 TATGGATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 1 0.03
27 10 0.27
28 19 0.51
29 7 0.19
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.13
Consensus pattern (27 bp):
AAAAAATAGAATGAAAAGAAAATGATG
Found at i:18850792 original size:15 final size:14
Alignment explanation
Indices: 18850754--18850813 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 14
18850744 TGTGTGTAAG
*
18850754 TTTTTT-TTTTATT
1 TTTTTTGTTTTGTT
18850767 TTTGATTTGTTTTGCTT
1 TTT--TTTGTTTTG-TT
18850784 TTTTTTGTTTT-TT
1 TTTTTTGTTTTGTT
*
18850797 TTTTTTTTTTTGTT
1 TTTTTTGTTTTGTT
18850811 TTT
1 TTT
18850814 GACCTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 15 0.38
14 5 0.12
15 11 0.28
16 4 0.10
17 5 0.12
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (14 bp):
TTTTTTGTTTTGTT
Found at i:18850795 original size:10 final size:10
Alignment explanation
Indices: 18850754--18850813 Score: 63
Period size: 9 Copynumber: 6.3 Consensus size: 10
18850744 TGTGTGTAAG
18850754 TTTTTTT-TT
1 TTTTTTTGTT
* *
18850763 TATTTTTGAT
1 TTTTTTTGTT
* *
18850773 TTGTTTTGCT
1 TTTTTTTGTT
18850783 TTTTTTTG-T
1 TTTTTTTGTT
18850792 TTTTTTT-TT
1 TTTTTTTGTT
18850801 TTTTTTTGTT
1 TTTTTTTGTT
18850811 TTT
1 TTT
18850814 GACCTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
9 22 0.52
10 20 0.48
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:18850821 original size:18 final size:18
Alignment explanation
Indices: 18850781--18850823 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
18850771 ATTTGTTTTG
***
18850781 CTTTTTTTTGTTTTTTTT
1 CTTTTTTTTGTTTTTGAC
*
18850799 TTTTTTTTTGTTTTTGAC
1 CTTTTTTTTGTTTTTGAC
18850817 CTTTTTT
1 CTTTTTT
18850824 ACTAAAAGTG
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:0.07, G:0.07, T:0.84
Consensus pattern (18 bp):
CTTTTTTTTGTTTTTGAC
Found at i:18851624 original size:196 final size:195
Alignment explanation
Indices: 18851290--18851668 Score: 661
Period size: 196 Copynumber: 1.9 Consensus size: 195
18851280 TTTTTTTATT
* *
18851290 AAAAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTT
1 AAAAAAAATTATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTC
18851355 CAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
66 CAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
* * *
18851420 GAATACTTTTAGAATCTCATCTTTAGAGG-CTCGAATTTATTTTTCGTAAGAAAATGTCATGTTT
131 GAATACTTTTAGAATCTCATCTTTAGAGGTCT-AAATTTACTTTTCATAAGAAAATGTCATGTTT
18851484 A
195 A
* *
18851485 AAAAAAAATTTATTCTCAAGAAAAATAAATTAAAACTTTTTTATTGAAATAATTCTTAAAATGTT
1 AAAAAAAA-TTATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTT
18851550 CCAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTC
65 CCAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTC
*
18851615 GGAATACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCATAAGAAA
130 GGAATACTTTTAGAATCTCATCTTTAGAGGTCTAAATTTACTTTTCATAAGAAA
18851669 TTATATCATG
Statistics
Matches: 174, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
195 8 0.05
196 164 0.94
197 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (195 bp):
AAAAAAAATTATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTC
CAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCG
GAATACTTTTAGAATCTCATCTTTAGAGGTCTAAATTTACTTTTCATAAGAAAATGTCATGTTTA
Found at i:18851750 original size:12 final size:12
Alignment explanation
Indices: 18851733--18851762 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18851723 TCATTCAAAA
18851733 ATTTTATTAATT
1 ATTTTATTAATT
18851745 ATTTTATTAATT
1 ATTTTATTAATT
*
18851757 TTTTTA
1 ATTTTA
18851763 ATTGAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:18852175 original size:205 final size:206
Alignment explanation
Indices: 18851803--18852182 Score: 513
Period size: 205 Copynumber: 1.8 Consensus size: 206
18851793 TATGTTGAAG
*
18851803 ATTTTTTATAAATATTCCAATACGCTAGTAATATTTTACAAAAAATCTTCTCACATAGAGATTTC
1 ATTTTTTATAAATACTCCAATACGCTAGTAATATTTTACAAAAAATCTTCTCACATAGAGATTTC
* * * * * *
18851868 TTAAAGCATCTCTACTCTGAATACTTTTAAAATCTCATCATTGGATTAAATTTCTTTTCTTCATA
66 GTAAAGCATCACTACTCGGAATACCTTTAAAATCTCATCATCGGATAAAATTTCTTTTCTTCATA
* *
18851933 TTTTTATTACTTATTTTTAATTTATTAATCAATTTTTAT-TTATTATTAAAAAAGAAAATTTTTA
131 TTTTTATTACTTAATATTAATTTATTAATCAATTTTTATATTATTATTAAAAAAGAAAATTTTTA
18851997 CTGTATTAAAA
196 CTGTATTAAAA
* *
18852008 ATTTTTATATAAATACTCCAATACGCTGGTAGTATTTTA-AAAAAATCTTCTCACATAGAGATTT
1 ATTTTT-TATAAATACTCCAATACGCTAGTAATATTTTACAAAAAATCTTCTCACATAGAGATTT
* * *
18852072 CGT-AGGCATCACTACTCGGAATACCTTT-GAATCTCATCGTCGGATAAAAATTTCTTTTTCTTT
65 CGTAAAGCATCACTACTCGGAATACCTTTAAAATCTCATCATCGGAT-AAAATTTC-TTTTC-TT
**
18852135 CAT-TTTTTATTACTTTAATATT-A-TTATTAAATTTATTTTTATATTATT
127 CATATTTTTATTAC-TTAATATTAATTTATT-AATCAATTTTTATATTATT
18852183 GTTTTTAAAG
Statistics
Matches: 152, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
203 14 0.09
204 33 0.22
205 60 0.39
206 45 0.30
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (206 bp):
ATTTTTTATAAATACTCCAATACGCTAGTAATATTTTACAAAAAATCTTCTCACATAGAGATTTC
GTAAAGCATCACTACTCGGAATACCTTTAAAATCTCATCATCGGATAAAATTTCTTTTCTTCATA
TTTTTATTACTTAATATTAATTTATTAATCAATTTTTATATTATTATTAAAAAAGAAAATTTTTA
CTGTATTAAAA
Found at i:18852578 original size:27 final size:27
Alignment explanation
Indices: 18852548--18852617 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
18852538 CCTTTGGCTG
18852548 AAACGACGTCGTTTTGGGTCTTTCCCT
1 AAACGACGTCGTTTTGGGTCTTTCCCT
*
18852575 AAACAACGTCGTTTTGGGTCTTTCCCT
1 AAACGACGTCGTTTTGGGTCTTTCCCT
18852602 AAACGACGTCGTTTTG
1 AAACGACGTCGTTTTG
18852618 AGTTTTTGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
AAACGACGTCGTTTTGGGTCTTTCCCT
Found at i:18864139 original size:20 final size:20
Alignment explanation
Indices: 18864108--18864156 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
18864098 ATTTTTAATG
*
18864108 TTTATAATTTAATATTATATA
1 TTTAT-ATTTAATATGATATA
18864129 TTTATATTTAATATGATATA
1 TTTATATTTAATATGATATA
18864149 TATTATAT
1 T-TTATAT
18864157 AATATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATATTTAATATGATATA
Found at i:18865603 original size:18 final size:21
Alignment explanation
Indices: 18865582--18865621 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18865572 TTATTTTTTA
18865582 TAAAA-TT-TTAA-AAATAAT
1 TAAAATTTATTAATAAATAAT
18865600 TAAAATTTATTAATAAATAAT
1 TAAAATTTATTAATAAATAAT
18865621 T
1 T
18865622 TTTTGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 2 0.11
20 4 0.21
21 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAATTTATTAATAAATAAT
Found at i:18867487 original size:21 final size:20
Alignment explanation
Indices: 18867449--18867487 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18867439 TTGGAATCAA
**
18867449 TATGATTTTAAATTGAAATT
1 TATGATTTTAAAAAGAAATT
18867469 TATGATTTTTAAAAAGAAA
1 TATGA-TTTTAAAAAGAAA
18867488 AAAAAGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
TATGATTTTAAAAAGAAATT
Found at i:18869972 original size:48 final size:47
Alignment explanation
Indices: 18869880--18869981 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 47
18869870 CTCAAAATTT
*
18869880 ATTTTTATTTTTATTTCTAAATTTTTCACTATTTGGGATAATTTAGA
1 ATTTTTATTTTTATTTCTAAATTTTTCACAATTTGGGATAATTTAGA
* * *
18869927 ATTTTTCTTTTTGATTTTTAAATTTTTCACAATTTGGG-TCTATTTAGA
1 ATTTTTATTTTT-ATTTCTAAATTTTTCACAATTTGGGAT-AATTTAGA
*
18869975 AATTTTA
1 ATTTTTA
18869982 AAAAAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 12 0.26
48 35 0.74
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (47 bp):
ATTTTTATTTTTATTTCTAAATTTTTCACAATTTGGGATAATTTAGA
Found at i:18873282 original size:2 final size:2
Alignment explanation
Indices: 18873275--18873315 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
18873265 GTCCAAATCA
18873275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18873316 CATACATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18875323 original size:13 final size:13
Alignment explanation
Indices: 18875307--18875331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18875297 TAGGGTAAAG
18875307 GTTTAAGGTTTAA
1 GTTTAAGGTTTAA
18875320 GTTTAAGGTTTA
1 GTTTAAGGTTTA
18875332 GGGATTTAAT
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:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (13 bp):
GTTTAAGGTTTAA
Found at i:18876735 original size:13 final size:13
Alignment explanation
Indices: 18876717--18876759 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
18876707 TTTTTTTTAA
18876717 TTTTTAATTAATT
1 TTTTTAATTAATT
18876730 TTTTTAATTATTATAT
1 TTTTTAATTA--AT-T
18876746 TTTTTAATT-ATT
1 TTTTTAATTAATT
18876758 TT
1 TT
18876760 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.11
13 12 0.44
15 2 0.07
16 10 0.37
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTAATT
Found at i:18876748 original size:16 final size:16
Alignment explanation
Indices: 18876717--18876776 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
18876707 TTTTTTTTAA
18876717 TTTTTAATTA--AT-T
1 TTTTTAATTATTATAT
18876730 TTTTTAATTATTATAT
1 TTTTTAATTATTATAT
*
18876746 TTTTTAATTATTTTAT
1 TTTTTAATTATTATAT
18876762 TATTATT-ATTATTAT
1 T-TT-TTAATTATTAT
18876777 TAAACTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
13 10 0.25
15 2 0.05
16 17 0.43
17 9 0.22
18 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTAATTATTATAT
Found at i:18876776 original size:36 final size:36
Alignment explanation
Indices: 18876709--18876778 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
18876699 CTCGTTTCTT
*
18876709 TTTTTTAATTTTTAATTAATTTTTTTAATTATTATA
1 TTTTTTAATTTTTAATTAATTTTATTAATTATTATA
*
18876745 TTTTTTAATTATTTTATT-ATTATTATT-ATTATTA
1 TTTTTTAATT-TTTAATTAATT-TTATTAATTATTA
18876779 AACTAAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 20 0.67
37 10 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (36 bp):
TTTTTTAATTTTTAATTAATTTTATTAATTATTATA
Found at i:18877175 original size:34 final size:34
Alignment explanation
Indices: 18877137--18877235 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
18877127 ATTAAACCGT
*
18877137 GAATCAGAGAATAAAGAGATCGAGATTAAA-TCAC
1 GAATCAGAAAATAAAGAGATCGAGATTAAACT-AC
* *
18877171 GAATCAAAAAATAAAGAGATCGAGATTAAACTGC
1 GAATCAGAAAATAAAGAGATCGAGATTAAACTAC
* *
18877205 GAATCAGATAATAAAGAGATCGGGATTAAAC
1 GAATCAGAAAATAAAGAGATCGAGATTAAAC
18877236 CGTGTATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 57 0.98
35 1 0.02
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.18
Consensus pattern (34 bp):
GAATCAGAAAATAAAGAGATCGAGATTAAACTAC
Found at i:18877591 original size:171 final size:171
Alignment explanation
Indices: 18877182--18877819 Score: 867
Period size: 171 Copynumber: 3.7 Consensus size: 171
18877172 AATCAAAAAA
* * * *
18877182 TAAAGAGATCGAGATTAAACTGCGAATCAGATAATAAAGAGATCGGGATTAAACCGTGTA-TCAA
1 TAAAGAGATCAAGATTGAACTGCGAATCAGAGAATAAAGAGATCGAGATTAAACCGTG-AGTCAA
* * *
18877246 AAAATGACATTAACTTGGATTGAATCACAACTAAGAAAATAAAGAGACCAGAATTAAACCACGAG
65 AAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGACCAGGATTAAACCACGAG
* * * *
18877311 TCAAAGGATGACAACAAT-GAGATTAAACTACGACTTTGGAT
130 TCAGAGGATAACAACAATCGAGATTAAACTTCGACTTTGAAT
** * * *
18877352 TAAAGAGATCGGGATTGAAAC-GTGAATCAGAGAATAAAAAGATCGAGATTAAACCGCGAGTCAA
1 TAAAGAGATCAAGATTG-AACTGCGAATCAGAGAATAAAGAGATCGAGATTAAACCGTGAGTCAA
* * *
18877416 AAAATGATGTTAACTTGGATTGAATCACAAGTAAGAAAATAAAAAGACCGGGATTAAACCACGAG
65 AAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGACCAGGATTAAACCACGAG
18877481 TCAGAGGATAACAACAATCGAGATTAAACTTCGACTTTGAAT
130 TCAGAGGATAACAACAATCGAGATTAAACTTCGACTTTGAAT
* *
18877523 TAAAGAGATCAAGATTGAACTGTGAATC-GAAGAATAAAGAGATC-AGGATTAAACCGTGAGTAA
1 TAAAGAGATCAAGATTGAACTGCGAATCAG-AGAATAAAGAGATCGA-GATTAAACCGTGAGTCA
*
18877586 AAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGGGACCAGGATTAAACCACGA
64 AAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGACCAGGATTAAACCACGA
18877651 GTCAGAGGATAACAACAATCGAGATTAAACTGT-GACTTTGAAT
129 GTCAGAGGATAACAACAATCGAGATTAAACT-TCGACTTTGAAT
* ** * * *
18877694 TAAAGAGATTAAGATTGAACCACGAATC-GAAGAATAAAGAGATCGAAATTAAACCGTAAGTCAG
1 TAAAGAGATCAAGATTGAACTGCGAATCAG-AGAATAAAGAGATCGAGATTAAACCGTGAGTCAA
* ** * * *
18877758 AAAATAACGTTAACTTATATTGAACCACAAGTAAGAAAATAAAGTGACCAGGATTACACCAC
65 AAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGACCAGGATTAAACCAC
18877820 AAGTGAGAAA
Statistics
Matches: 420, Mismatches: 40, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
169 1 0.00
170 131 0.31
171 286 0.68
172 2 0.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.21
Consensus pattern (171 bp):
TAAAGAGATCAAGATTGAACTGCGAATCAGAGAATAAAGAGATCGAGATTAAACCGTGAGTCAAA
AAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGACCAGGATTAAACCACGAGT
CAGAGGATAACAACAATCGAGATTAAACTTCGACTTTGAAT
Found at i:18878026 original size:39 final size:39
Alignment explanation
Indices: 18877846--18878049 Score: 167
Period size: 39 Copynumber: 5.4 Consensus size: 39
18877836 AACGACTAGA
* * *
18877846 ATTAAACCACGAGTC-AGGAAACTATAGAAATGATCGAG
1 ATTAAACCACGAGTCAAGAAAACTATAAAAATGATCGGG
* * * *
18877884 ATTAAATCACGAGTC-A-AAGA-T-TAAATATGA-CTAGG
1 ATTAAACCACGAGTCAAGAAAACTATAAAAATGATC-GGG
* * *** * *
18877919 ACTAAATCGTAAGTCAGGAAAACTATAAAAATGATCAGG
1 ATTAAACCACGAGTCAAGAAAACTATAAAAATGATCGGG
* *
18877958 ATTAGACCACGAGTGAA-AAAA--ATAAAAATGA-CTGGG
1 ATTAAACCACGAGTCAAGAAAACTATAAAAATGATC-GGG
*
18877994 ATTAAACCACGAGTCAAGAAAACTATAGAAATGATCGGG
1 ATTAAACCACGAGTCAAGAAAACTATAAAAATGATCGGG
18878033 ATTAAACCACGAGTCAA
1 ATTAAACCACGAGTCAA
18878050 AGATTAAAGA
Statistics
Matches: 129, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
34 1 0.01
35 20 0.16
36 28 0.22
37 9 0.07
38 20 0.16
39 49 0.38
40 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (39 bp):
ATTAAACCACGAGTCAAGAAAACTATAAAAATGATCGGG
Found at i:18878076 original size:149 final size:148
Alignment explanation
Indices: 18877806--18878084 Score: 441
Period size: 149 Copynumber: 1.9 Consensus size: 148
18877796 ATAAAGTGAC
* *
18877806 CAGGATTACACCACAAGTGAGAAAAATAAAAACGACTAGAATTAAACCACGAGTCAGGAAACTAT
1 CAGGATTACACCACAAGTGAAAAAAATAAAAACGACTAGAATTAAACCACGAGTCAGAAAACTAT
* *
18877871 AGAAATGATCGAGATTAAATCACGAGTCAAAGATTAAATATGACTAGGACTAAATCGTAAGTCAG
66 AGAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTAGGACTAAATCGTAAGTCAG
18877936 GAAAACTATAAAAATGAT
131 GAAAACTATAAAAATGAT
* * * * *
18877954 CAGGATTAGACCACGAGTGAAAAAAATAAAAATGACTGGGATTAAACCACGAGTCAAGAAAACTA
1 CAGGATTACACCACAAGTGAAAAAAATAAAAACGACTAGAATTAAACCACGAGTC-AGAAAACTA
* * *
18878019 TAGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAATCGTAAGTCA
65 TAGAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTAGGACTAAATCGTAAGTCA
18878084 G
130 G
18878085 AGAATTATAT
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
148 49 0.42
149 69 0.58
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (148 bp):
CAGGATTACACCACAAGTGAAAAAAATAAAAACGACTAGAATTAAACCACGAGTCAGAAAACTAT
AGAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTAGGACTAAATCGTAAGTCAG
GAAAACTATAAAAATGAT
Found at i:18879122 original size:1 final size:1
Alignment explanation
Indices: 18879116--18879172 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
18879106 TCTGAATCAC
* * * * * * *
18879116 TTTTTTTTTTATCTTTTTTTTGTTTTTTGTTTTTTTTGTTTTTTTTTCTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18879173 AAACAAAATA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.02, C:0.05, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:18879158 original size:16 final size:16
Alignment explanation
Indices: 18879116--18879159 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
18879106 TCTGAATCAC
*
18879116 TTTTTT-TTTTATCTT
1 TTTTTTGTTTTTTCTT
*
18879131 TTTTTTGTTTTTTGTT
1 TTTTTTGTTTTTTCTT
18879147 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
18879160 TTTCTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.89
Consensus pattern (16 bp):
TTTTTTGTTTTTTCTT
Found at i:18891993 original size:27 final size:26
Alignment explanation
Indices: 18891963--18892018 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
18891953 TTTTTTTTTA
18891963 ATTTT-TTAATTATTATATATT-TTAAAT
1 ATTTTATT-ATTATTAT-TATTATT-AAT
18891990 ATTTTATTATTATTATTATTATTAAT
1 ATTTTATTATTATTATTATTATTAAT
18892016 ATT
1 ATT
18892019 AAACTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 10 0.37
27 15 0.56
28 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTTATTATTATTATTATTATTAAT
Found at i:18891998 original size:24 final size:24
Alignment explanation
Indices: 18891957--18892006 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
18891947 TTTTCTTTTT
* *
18891957 TTTTTAATTTTTTAATTATTATATA
1 TTTTAAATATTTTAATTATTAT-TA
18891982 TTTTAAATATTTT-ATTATTATTA
1 TTTTAAATATTTTAATTATTATTA
18892005 TT
1 TT
18892007 ATTATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 8 0.35
25 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTAAATATTTTAATTATTATTA
Found at i:18893008 original size:2 final size:2
Alignment explanation
Indices: 18893001--18893026 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18892991 CACCAATCTC
18893001 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
18893027 CAAATAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18900280 original size:2 final size:2
Alignment explanation
Indices: 18900273--18900307 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
18900263 TAGGCAATTT
*
18900273 TA TA TA TA TA TA TA TA TA TA TA TT TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18900308 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:18901410 original size:36 final size:34
Alignment explanation
Indices: 18901352--18901431 Score: 83
Period size: 36 Copynumber: 2.3 Consensus size: 34
18901342 GCTATTTTTG
*
18901352 TATTTATCTTTATTTATATTTTA-TAATTTTATGATA
1 TATTTAT-TTTATTTATATTTTACT-ATTATAT-ATA
*
18901388 TATTTATTTTCATTT-TATTTTTACTATTATATTTA
1 TATTTATTTT-ATTTATA-TTTTACTATTATATATA
18901423 TATTTATTT
1 TATTTATTT
18901432 ATCTTTATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 16 0.41
36 22 0.56
37 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.68
Consensus pattern (34 bp):
TATTTATTTTATTTATATTTTACTATTATATATA
Found at i:18901417 original size:12 final size:12
Alignment explanation
Indices: 18901308--18901431 Score: 60
Period size: 12 Copynumber: 10.1 Consensus size: 12
18901298 TTTTTGGCTA
18901308 TTTATATTTATCT
1 TTTATATTTAT-T
18901321 TTTATCTATTTATAT
1 TTTA--TATTTAT-T
* **
18901336 TCTATAGCTATT
1 TTTATATTTATT
*
18901348 TTTGTATTTA-T
1 TTTATATTTATT
*
18901359 CTT-TATTTATAT
1 TTTATATTTAT-T
18901371 TTTATAATTT-TAT
1 TTTAT-ATTTAT-T
**
18901384 GATATATTTATT
1 TTTATATTTATT
*
18901396 TTCAT-TTTATT
1 TTTATATTTATT
*
18901407 TTTACTA-TTATA
1 TTTA-TATTTATT
18901419 TTTATATTTATT
1 TTTATATTTATT
18901431 T
1 T
18901432 ATCTTTATTC
Statistics
Matches: 83, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
10 6 0.07
11 14 0.17
12 31 0.37
13 17 0.20
14 4 0.05
15 11 0.13
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (12 bp):
TTTATATTTATT
Found at i:18901500 original size:6 final size:6
Alignment explanation
Indices: 18901306--18901429 Score: 53
Period size: 6 Copynumber: 20.2 Consensus size: 6
18901296 TATTTTTGGC
* ** * *
18901306 TATTTA TATTTA TCTTTTA TCTATTTA TATTCTA TAGCTA TTTTTG TATTTA
1 TATTTA TATTTA T-ATTTA --TATTTA TATT-TA TATTTA TATTTA TATTTA
* *
18901358 T-CTT- TATTTA TATTTTA TAATTT- TATGATA TATTTA T-TTTCA T-TTTA
1 TATTTA TATTTA TA-TTTA T-ATTTA TAT-TTA TATTTA TATTT-A TATTTA
*
18901405 TTTTTA CTA-TTA TATTTA TATTTA T
1 TATTTA -TATTTA TATTTA TATTTA T
18901430 TTATCTTTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
4 1 0.01
5 13 0.15
6 49 0.55
7 20 0.22
8 5 0.06
9 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:18906068 original size:17 final size:17
Alignment explanation
Indices: 18906035--18906085 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
18906025 CAGCATTTTA
*
18906035 TATTTAAAATT-TTATT
1 TATTTAATATTATTATT
18906051 TA-TTATATATTATTATT
1 TATTTA-ATATTATTATT
*
18906068 TATTTAATTTTATTATT
1 TATTTAATATTATTATT
18906085 T
1 T
18906086 TAAAATACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 3 0.10
16 6 0.20
17 18 0.60
18 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTAATATTATTATT
Found at i:18906314 original size:13 final size:13
Alignment explanation
Indices: 18906296--18906321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18906286 TTATCTAAGG
18906296 TTTTAAGGTTTCA
1 TTTTAAGGTTTCA
18906309 TTTTAAGGTTTCA
1 TTTTAAGGTTTCA
18906322 CATTAGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTTAAGGTTTCA
Found at i:18906339 original size:33 final size:34
Alignment explanation
Indices: 18906302--18906367 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
18906292 AAGGTTTTAA
*
18906302 GGTTTCATTTTAAGG-TTTCACATTAGGGTTTTG
1 GGTTTCATATTAAGGATTTCACATTAGGGTTTTG
* **
18906335 GGTTTCATATTAAGGATTTGAGTTTAGGGTTTT
1 GGTTTCATATTAAGGATTTCACATTAGGGTTTT
18906368 ATTTAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.20, C:0.06, G:0.26, T:0.48
Consensus pattern (34 bp):
GGTTTCATATTAAGGATTTCACATTAGGGTTTTG
Found at i:18906354 original size:20 final size:20
Alignment explanation
Indices: 18906315--18906359 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18906305 TTCATTTTAA
* *
18906315 GGTTTCACATTAGGGTTTTG
1 GGTTTCACATTAAGGATTTG
*
18906335 GGTTTCATATTAAGGATTTG
1 GGTTTCACATTAAGGATTTG
*
18906355 AGTTT
1 GGTTT
18906360 AGGGTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (20 bp):
GGTTTCACATTAAGGATTTG
Found at i:18906388 original size:47 final size:46
Alignment explanation
Indices: 18906324--18906415 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 46
18906314 AGGTTTCACA
* *
18906324 TTAGGGTTTTGGGTTTCATATTAAGGATTTGAGTTTAGGGTTTTAT
1 TTAGGGTTTAGGGTTTCATATTAAGGATTTAAGTTTAGGGTTTTAT
* * * *
18906370 TTAGGGTTTCAGGGTTTCATTTTATGGTTTTAATTTTAGGGTTTTA
1 TTAGGGTTT-AGGGTTTCATATTAAGGATTTAAGTTTAGGGTTTTA
18906416 GGATTTCGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 9 0.23
47 30 0.77
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.52
Consensus pattern (46 bp):
TTAGGGTTTAGGGTTTCATATTAAGGATTTAAGTTTAGGGTTTTAT
Found at i:18906428 original size:13 final size:13
Alignment explanation
Indices: 18906411--18906460 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
18906401 AATTTTAGGG
*
18906411 TTTTAGGATTTCG
1 TTTTAGGATTTCA
* *
18906424 TTTTAGGGTTTTA
1 TTTTAGGATTTCA
*
18906437 TTTTAGGGTTTCA
1 TTTTAGGATTTCA
18906450 TTTTAGGATTT
1 TTTTAGGATTT
18906461 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.16, C:0.04, G:0.22, T:0.58
Consensus pattern (13 bp):
TTTTAGGATTTCA
Found at i:18906428 original size:35 final size:34
Alignment explanation
Indices: 18906347--18906449 Score: 136
Period size: 35 Copynumber: 3.0 Consensus size: 34
18906337 TTTCATATTA
* *
18906347 AGGATTTGAGTTTAGGGTTTTA-TTTAGGGTTTC
1 AGGATTTCATTTTAGGGTTTTATTTTAGGGTTTC
* * *
18906380 AGGGTTTCATTTTATGGTTTTAATTTTAGGGTTTT
1 AGGATTTCATTTTAGGGTTTT-ATTTTAGGGTTTC
*
18906415 AGGATTTCGTTTTAGGGTTTTATTTTAGGGTTTC
1 AGGATTTCATTTTAGGGTTTTATTTTAGGGTTTC
18906449 A
1 A
18906450 TTTTAGGATT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
33 17 0.29
34 14 0.24
35 28 0.47
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.52
Consensus pattern (34 bp):
AGGATTTCATTTTAGGGTTTTATTTTAGGGTTTC
Found at i:18907055 original size:10 final size:9
Alignment explanation
Indices: 18907037--18907071 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
18907027 TTACCTATTT
18907037 TTATTTTTA
1 TTATTTTTA
18907046 TTATTGTTTA
1 TTATT-TTTA
18907056 TTATTATTTA
1 TTATT-TTTA
18907066 TTATTT
1 TTATTT
18907072 ATTCTTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
TTATTTTTA
Found at i:18907066 original size:7 final size:7
Alignment explanation
Indices: 18907032--18907103 Score: 55
Period size: 7 Copynumber: 10.3 Consensus size: 7
18907022 AGTCTTTACC
18907032 TATT-TT
1 TATTATT
18907038 TATT-TT
1 TATTATT
18907044 TATTATT
1 TATTATT
18907051 GT-TTA-T
1 -TATTATT
18907057 TATTATT
1 TATTATT
18907064 TATTATT
1 TATTATT
*
18907071 TATT-CT
1 TATTATT
18907077 TATTCCTATT
1 TA-T--TATT
18907087 TATTATT
1 TATTATT
18907094 TATTTATT
1 TA-TTATT
18907102 TA
1 TA
18907104 AAGGACATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
5 1 0.02
6 17 0.31
7 24 0.44
8 8 0.15
9 2 0.04
10 3 0.05
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (7 bp):
TATTATT
Found at i:18907176 original size:24 final size:25
Alignment explanation
Indices: 18907149--18907196 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18907139 AAATAATAAA
*
18907149 AAAATCATAC-TT-AAATTATGAAAC
1 AAAATCA-ACATTAAAAATATGAAAC
18907173 AAAATCAACATTAAAAATATGAAA
1 AAAATCAACATTAAAAATATGAAA
18907197 AACACAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 9 0.43
25 10 0.48
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAATCAACATTAAAAATATGAAAC
Found at i:18908252 original size:3 final size:3
Alignment explanation
Indices: 18908244--18908288 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
18908234 CAATATTAAC
18908244 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18908289 CTGTATTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18909756 original size:19 final size:18
Alignment explanation
Indices: 18909719--18909756 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18909709 TTCTCGGAAA
*
18909719 TTTTTTTTTTATGTTTGT
1 TTTTTTTTTTATGTGTGT
18909737 TTTTTTTTTTATTGTGTGT
1 TTTTTTTTTTA-TGTGTGT
18909756 T
1 T
18909757 CCCCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTTATGTGTGT
Found at i:18910101 original size:3 final size:3
Alignment explanation
Indices: 18910043--18910081 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
18910033 TTTTAAAGAT
*
18910043 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18910082 ACAAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18910404 original size:78 final size:76
Alignment explanation
Indices: 18910312--18910564 Score: 268
Period size: 78 Copynumber: 3.3 Consensus size: 76
18910302 AGTTTCTCTC
*
18910312 ACCAGAGGCAACAAACTTTAAATTCAAAAGGCTCATTTAACCGAAGGCAACATACTTTAAATTTC
1 ACCAAAGGCAACAAACTTTAAATTCAAAAGGCTCATTTAACC-AAGGCAACA-ACTTTAAATTTC
*
18910377 AAAAGCTCTTTTA
64 AAAAGCTCATTTA
* * * * * * *
18910390 ACCAAAGGCAACAAACTTTAAATGTTAAAAAGCTCCTCTCATCAGAGGTAACAAACTTTAAA-TT
1 ACCAAAGGCAACAAACTTTAAAT-TCAAAAGGCTCATTTAACCA-AGGCAAC-AACTTTAAATTT
18910454 CAAAAGCTCATTTA
63 CAAAAGCTCATTTA
* *
18910468 ACTAAAGGCAACATACTTTAAATTCTAAAAGGCTCATTTAACCAAAGGCAACGAACTTTAAA--T
1 ACCAAAGGCAACAAACTTTAAATTC-AAAAGGCTCATTTAACC-AAGGCAAC-AACTTTAAATTT
*
18910531 ----GGCTCATTTA
63 CAAAAGCTCATTTA
*
18910541 ACTAAAGGCAACAAACTTTAAATT
1 ACCAAAGGCAACAAACTTTAAATT
18910565 AAAGATCTGA
Statistics
Matches: 149, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
73 32 0.21
77 2 0.01
78 86 0.58
79 28 0.19
80 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (76 bp):
ACCAAAGGCAACAAACTTTAAATTCAAAAGGCTCATTTAACCAAGGCAACAACTTTAAATTTCAA
AAGCTCATTTA
Found at i:18910420 original size:118 final size:118
Alignment explanation
Indices: 18910285--18910531 Score: 374
Period size: 118 Copynumber: 2.1 Consensus size: 118
18910275 AGAGGCTATA
* *
18910285 AAACTTTAAAT-TCAAAAAGTTTCTCTCACCAGAGGCAACAAACTTTAAATTCAAAAGGCTCATT
1 AAACTTTAAATGTCAAAAAGCTCCTCTCACCAGAGGCAACAAACTTTAAATTCAAAA-GCTCATT
* *
18910349 TAACCGAAGGCAACATACTTTAAATT-TCAAAA-GCTCTTTTAACCAAAGGCAAC
65 TAACCAAAGGCAACATACTTTAAATTCT-AAAAGGCTCATTTAACCAAAGGCAAC
* * *
18910402 AAACTTTAAATGTTAAAAAGCTCCTCTCATCAGAGGTAACAAACTTTAAATTCAAAAGCTCATTT
1 AAACTTTAAATGTCAAAAAGCTCCTCTCACCAGAGGCAACAAACTTTAAATTCAAAAGCTCATTT
*
18910467 AACTAAAGGCAACATACTTTAAATTCTAAAAGGCTCATTTAACCAAAGGCAAC
66 AACCAAAGGCAACATACTTTAAATTCTAAAAGGCTCATTTAACCAAAGGCAAC
*
18910520 GAACTTTAAATG
1 AAACTTTAAATG
18910532 GCTCATTTAA
Statistics
Matches: 118, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
117 46 0.39
118 72 0.61
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (118 bp):
AAACTTTAAATGTCAAAAAGCTCCTCTCACCAGAGGCAACAAACTTTAAATTCAAAAGCTCATTT
AACCAAAGGCAACATACTTTAAATTCTAAAAGGCTCATTTAACCAAAGGCAAC
Found at i:18910443 original size:40 final size:39
Alignment explanation
Indices: 18910285--18910530 Score: 201
Period size: 39 Copynumber: 6.3 Consensus size: 39
18910275 AGAGGCTATA
* *
18910285 AAACTTTAAATTCAAAAAGTTTCTCTCACCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
* * * *
18910324 AAACTTTAAATTCAAAAGGCTCATTTAACC-GAAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTCTCACCAG-AGGCAAC
* * * * *
18910363 ATACTTTAAATTTC-AAAAGCTCTTTTAACCAAAGGCAAC
1 AAACTTTAAA-TTCAAAAAGCTCCTCTCACCAGAGGCAAC
* * *
18910402 AAACTTTAAATGTTAAAAAGCTCCTCTCATCAGAGGTAAC
1 AAACTTTAAAT-TCAAAAAGCTCCTCTCACCAGAGGCAAC
* * * * *
18910442 AAACTTTAAATTC-AAAAGCTCATTTAACTAAAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
* * * * * *
18910480 ATACTTTAAATTCTAAAAGGCTCATTTAACCAAAGGCAAC
1 AAACTTTAAATTC-AAAAAGCTCCTCTCACCAGAGGCAAC
*
18910520 GAACTTTAAAT
1 AAACTTTAAAT
18910531 GGCTCATTTA
Statistics
Matches: 169, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
38 32 0.19
39 72 0.43
40 65 0.38
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (39 bp):
AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
Found at i:18910540 original size:33 final size:33
Alignment explanation
Indices: 18910493--18910563 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
18910483 CTTTAAATTC
* *
18910493 TAAAAGGCTCATTTAACCAAAGGCAACGAACTT
1 TAAATGGCTCATTTAACCAAAGGCAACAAACTT
*
18910526 TAAATGGCTCATTTAACTAAAGGCAACAAACTT
1 TAAATGGCTCATTTAACCAAAGGCAACAAACTT
18910559 TAAAT
1 TAAAT
18910564 TAAAGATCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (33 bp):
TAAATGGCTCATTTAACCAAAGGCAACAAACTT
Found at i:18918344 original size:36 final size:36
Alignment explanation
Indices: 18918296--18918367 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
18918286 ACTATCCTGA
* * *
18918296 AAATAATTGATAAGTAACTTGTCATTGTTTGTATGC
1 AAATAATGGATAAGTAACTTATCATCGTTTGTATGC
18918332 AAATAATGGATAAGTAACTTATCATCGTTTGTATGC
1 AAATAATGGATAAGTAACTTATCATCGTTTGTATGC
18918368 CCAGTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (36 bp):
AAATAATGGATAAGTAACTTATCATCGTTTGTATGC
Found at i:18924138 original size:10 final size:9
Alignment explanation
Indices: 18924115--18924139 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18924105 GCCTATACCA
18924115 GTTTTTCAC
1 GTTTTTCAC
18924124 GTTTTTCAC
1 GTTTTTCAC
18924133 GTTTTTC
1 GTTTTTC
18924140 TTCTGCTGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.20, G:0.12, T:0.60
Consensus pattern (9 bp):
GTTTTTCAC
Found at i:18924755 original size:3 final size:3
Alignment explanation
Indices: 18924742--18924782 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
18924732 AATTTATAAT
* *
18924742 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18924783 TAATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:18927447 original size:143 final size:143
Alignment explanation
Indices: 18927192--18927456 Score: 311
Period size: 143 Copynumber: 1.9 Consensus size: 143
18927182 AATCTTGATT
* * * *
18927192 ATACCTCGAAAGGTGTGAAATCATCAAAATACACTTTAAAGGTATTTTTGTAATTTGACTTTTCT
1 ATACCTCGAAAGGTGTAAAATCATCAAAATACACTCTAAAGGTAATTTTGTAATTTGACTTTTCG
* * * ** * *
18927257 AAGGTCGATTTTTCATGAAACTTTTCAGATCATGCTTTTAAAATATTTGATGATTTTGGTGCATT
66 AAGGTAGATATTTCACGAAACTTTTCAGATCATGAGTTCAAAATATTTCATGATTTTGGTGCATT
18927322 CAAAACTATTGCA
131 CAAAACTATTGCA
* * *
18927335 ATACTTCGAAAGGTGTAAAATTATCAAAATACAC-CTAAGGGTAATTTTGTAATTTGATACTTTT
1 ATACCTCGAAAGGTGTAAAATCATCAAAATACACTCTAAAGGTAATTTTGTAATTTG--ACTTTT
* * * * *
18927399 CGAAGTTAGA-ATTTCACGAAAACTTTT-AGATCTTTAGTTCATATTATTTCATGATTTT
64 CGAAGGTAGATATTTCACG-AAACTTTTCAGATCATGAGTTCAAAATATTTCATGATTTT
18927457 TAGTTCTTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
142 19 0.19
143 60 0.60
144 21 0.21
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (143 bp):
ATACCTCGAAAGGTGTAAAATCATCAAAATACACTCTAAAGGTAATTTTGTAATTTGACTTTTCG
AAGGTAGATATTTCACGAAACTTTTCAGATCATGAGTTCAAAATATTTCATGATTTTGGTGCATT
CAAAACTATTGCA
Found at i:18928461 original size:30 final size:31
Alignment explanation
Indices: 18928408--18928466 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
18928398 TCCTAAAACC
18928408 TAAACCCTAAACCCTAAACCACTTTTTAACG
1 TAAACCCTAAACCCTAAACCACTTTTTAACG
*
18928439 TAAACCCTAAA-CCTAAATCACTTTTTAA
1 TAAACCCTAAACCCTAAACCACTTTTTAA
18928467 ACCCTAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.29
Consensus pattern (31 bp):
TAAACCCTAAACCCTAAACCACTTTTTAACG
Found at i:18929455 original size:8 final size:8
Alignment explanation
Indices: 18929444--18929490 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
18929434 GAAAATTTTG
18929444 AAAAAATA
1 AAAAAATA
18929452 AAAAAATA
1 AAAAAATA
*
18929460 AAAAAATT
1 AAAAAATA
*
18929468 AAAAAATT
1 AAAAAATA
* *
18929476 GAAAAATG
1 AAAAAATA
18929484 AAAAAAT
1 AAAAAAT
18929491 GTTTTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (8 bp):
AAAAAATA
Found at i:18929471 original size:24 final size:24
Alignment explanation
Indices: 18929444--18929490 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18929434 GAAAATTTTG
18929444 AAAAAATAAAAAAATAAAAAAATT
1 AAAAAATAAAAAAATAAAAAAATT
** *
18929468 AAAAAATTGAAAAATGAAAAAAT
1 AAAAAATAAAAAAATAAAAAAAT
18929491 GTTTTGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAAATAAAAAAATAAAAAAATT
Found at i:18930580 original size:37 final size:37
Alignment explanation
Indices: 18930506--18930656 Score: 169
Period size: 37 Copynumber: 4.1 Consensus size: 37
18930496 CATTCTATTC
**
18930506 CATGCATATCTTAATAGATAAGTACATTTATTCCATCT
1 CATGCATATCTTAATAGAT-AGTACATGCATTCCATCT
* * * *
18930544 CATGTATATCTTAGTAGATAGTACATACATTTCATCT
1 CATGCATATCTTAATAGATAGTACATGCATTCCATCT
** * * * *
18930581 CATAAATATCTCAAT-GATAATACATGCATTTCATTT
1 CATGCATATCTTAATAGATAGTACATGCATTCCATCT
*
18930617 CATGCATATCTTAATAGATAGTATATGCATTCCATCT
1 CATGCATATCTTAATAGATAGTACATGCATTCCATCT
18930654 CAT
1 CAT
18930657 ATACATTCTA
Statistics
Matches: 93, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
36 30 0.32
37 46 0.49
38 17 0.18
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (37 bp):
CATGCATATCTTAATAGATAGTACATGCATTCCATCT
Found at i:18930626 original size:73 final size:75
Alignment explanation
Indices: 18930511--18930657 Score: 190
Period size: 73 Copynumber: 2.0 Consensus size: 75
18930501 TATTCCATGC
* ** * * *
18930511 ATATCTTAATAGATAAGTACATTTATTCCATCTCATGTATATCTTAGTAGATAGTACATACATTT
1 ATATCTCAATAGATAAGTACATGCATTCCATCTCATGCATATCTTAATAGATAGTACATACATTC
18930576 CATCTCATAA
66 CATCTCATAA
* * * *
18930586 ATATCTCAAT-GATAA-TACATGCATTTCATTTCATGCATATCTTAATAGATAGTATATGCATTC
1 ATATCTCAATAGATAAGTACATGCATTCCATCTCATGCATATCTTAATAGATAGTACATACATTC
18930649 CATCTCATA
66 CATCTCATA
18930658 TACATTCTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
73 48 0.77
74 5 0.08
75 9 0.15
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.39
Consensus pattern (75 bp):
ATATCTCAATAGATAAGTACATGCATTCCATCTCATGCATATCTTAATAGATAGTACATACATTC
CATCTCATAA
Found at i:18931421 original size:33 final size:32
Alignment explanation
Indices: 18931392--18931474 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 32
18931382 CCAAAATAAC
**
18931392 ATTTAAGCCTAGTTTAGTTGGTACTAAAATGA
1 ATTTAAGCCTAGTTTAGTTGACACTAAAATGA
*
18931424 GATATAAGCCTAGTTTAGTTGACACTAAAATGGA
1 -ATTTAAGCCTAGTTTAGTTGACACTAAAAT-GA
*
18931458 ATTTAAGCCTAATTTAG
1 ATTTAAGCCTAGTTTAG
18931475 CTGATAGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 42 0.95
34 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (32 bp):
ATTTAAGCCTAGTTTAGTTGACACTAAAATGA
Found at i:18932615 original size:2 final size:2
Alignment explanation
Indices: 18932610--18932643 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18932600 TGTGTGTGTG
18932610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18932644 AAATAACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18934378 original size:86 final size:85
Alignment explanation
Indices: 18934221--18934394 Score: 251
Period size: 86 Copynumber: 2.0 Consensus size: 85
18934211 AATAAGCCAT
* *
18934221 GAAAGTGCTAAAAAATTTCATTATCGATATGGGATCATTTCTTAAACTTTAAATTAATTAATTTG
1 GAAAGTGCTAAAAAATTTCATTATCGATATGAGATCATTTCTTAAACTTTAAATTAATTAAGTTG
*
18934286 AATAATATCGTAGTCAAATG
66 AATAATATCGTAGTAAAATG
** * *
18934306 GAAAGATGCTAAAATTTTTC-TATATTGATATGAGATCATTTCTTAAGCTTTAAATTAATTAAGT
1 GAAAG-TGCTAAAAAATTTCAT-TATCGATATGAGATCATTTCTTAAACTTTAAATTAATTAAGT
*
18934370 TGACTAATATCGTAGTAAAATG
64 TGAATAATATCGTAGTAAAATG
18934392 GAA
1 GAA
18934395 TGACATTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
85 6 0.08
86 73 0.92
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (85 bp):
GAAAGTGCTAAAAAATTTCATTATCGATATGAGATCATTTCTTAAACTTTAAATTAATTAAGTTG
AATAATATCGTAGTAAAATG
Found at i:18936356 original size:2 final size:2
Alignment explanation
Indices: 18936349--18936382 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18936339 CATTGAAAGG
18936349 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18936383 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18936387 original size:2 final size:2
Alignment explanation
Indices: 18936382--18936419 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18936372 TCTCTCTCTC
18936382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18936420 CAAAGGAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18938092 original size:44 final size:44
Alignment explanation
Indices: 18938019--18938103 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
18938009 TTACATATAT
*
18938019 CATGCTTCTTACATACAAAACATGGTGGATAATCATTCAAAGAC
1 CATGCTTCTGACATACAAAACATGGTGGATAATCATTCAAAGAC
* **
18938063 CATGTTTCTGACATACAAAATGTGGTGGATAATCATTCAAA
1 CATGCTTCTGACATACAAAACATGGTGGATAATCATTCAAA
18938104 AATCAGGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (44 bp):
CATGCTTCTGACATACAAAACATGGTGGATAATCATTCAAAGAC
Found at i:18938126 original size:44 final size:44
Alignment explanation
Indices: 18938024--18938113 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
18938014 TATATCATGC
* ** * *
18938024 TTCTTACATACAAAACATGGTGGATAATCATTCAAAGACCATGT
1 TTCTGACATACAAAATGTGGTGGATAATCATTCAAAAACCAGGT
*
18938068 TTCTGACATACAAAATGTGGTGGATAATCATTCAAAAATCAGGT
1 TTCTGACATACAAAATGTGGTGGATAATCATTCAAAAACCAGGT
18938112 TT
1 TT
18938114 TTTTCTTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (44 bp):
TTCTGACATACAAAATGTGGTGGATAATCATTCAAAAACCAGGT
Found at i:18938310 original size:91 final size:89
Alignment explanation
Indices: 18938052--18938303 Score: 317
Period size: 91 Copynumber: 2.8 Consensus size: 89
18938042 GGTGGATAAT
* * * * *
18938052 CATT-CAAAGACCATGTTTCTGACATACAAAATGTGGTGGATAATCATTCAAAAATCAGGTTTTT
1 CATTACAAAGACCA-CTTTCTAACATACAAAACGTGGTGGATAATCATTCAAAGATCATG-TTTT
* * *
18938116 TTCTTTCAAAACGTAATTTTTGAACA
64 TTCTTTCAAAATGCAATCTTTGAACA
* * * *
18938142 CATGACAAAGATCACATTTATAACATACAAAACGTGGTGGATAATCATTCAAAGACCATGCTTTT
1 CATTACAAAGACCAC-TTTCTAACATACAAAACGTGGTGGATAATCATTCAAAGATCATG-TTTT
18938207 TTCTTTCAAAATGCAATCTTTGAACA
64 TTCTTTCAAAATGCAATCTTTGAACA
* *
18938233 CATTACAAAGACCACTTTCTAACATAAAAAAACGTGGTTGATAATCATTCAAAGATCATGTTTTT
1 CATTACAAAGACCACTTTCTAACAT-ACAAAACGTGGTGGATAATCATTCAAAGATCATGTTTTT
18938298 TGCTTT
65 T-CTTT
18938304 TTAAATGTGT
Statistics
Matches: 139, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
90 18 0.13
91 121 0.87
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (89 bp):
CATTACAAAGACCACTTTCTAACATACAAAACGTGGTGGATAATCATTCAAAGATCATGTTTTTT
CTTTCAAAATGCAATCTTTGAACA
Found at i:18940480 original size:10 final size:9
Alignment explanation
Indices: 18940456--18940495 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
18940446 ATCAGAATAG
18940456 AAAAGAAAA
1 AAAAGAAAA
*
18940465 AGAAGAAGAA
1 AAAAGAA-AA
18940475 AAAAGAAAAA
1 AAAAG-AAAA
18940485 AAAAGAAAA
1 AAAAGAAAA
18940494 AA
1 AA
18940496 TATAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 12 0.44
10 13 0.48
11 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:18940503 original size:3 final size:3
Alignment explanation
Indices: 18940497--18940554 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
18940487 AAGAAAAAAT
18940497 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18940545 ATA ATA ATA A
1 ATA ATA ATA A
18940555 AAAATATAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18940804 original size:44 final size:44
Alignment explanation
Indices: 18940692--18940983 Score: 236
Period size: 44 Copynumber: 6.7 Consensus size: 44
18940682 AAAAGGTCCA
* * *
18940692 CTAAACAGAGGTTCAACGACATTTTTAAAAAATTTAAA-AAGCTC-T
1 CTAAGCAGAGGCTCAACGAC--TTTT-AAAAATTTAAAGAGGCTCAT
* * * *
18940737 CTGAA-CAGAGGCTCTACAACTTTTAAAAATTTAAAGATGCTCCT
1 CT-AAGCAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCTCAT
* * * * * *
18940781 TTAAGCAGAGACTTAACGACTTTT-GAAATTTAAAAAGGCTCCT
1 CTAAGCAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCTCAT
* * *
18940824 CTAAACAGAGGCTCAATGATTTTTAAAAATTTAAAGAGGCTCAT
1 CTAAGCAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCTCAT
* * * * *
18940868 CTAAGTAAAGGCTCAACAACTTTTGAAAATTTAAAGAGACTCAT
1 CTAAGCAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCTCAT
* * * * **
18940912 CTAAGTAGAGGTTTAACGACTTTTAAAAATTTAAAAAAGTTTC-T
1 CTAAGCAGAGGCTCAACGACTTTTAAAAATTT-AAAGAGGCTCAT
* *
18940956 CTAAGTAGAGGCTCAACAAC-TTTAAAAA
1 CTAAGCAGAGGCTCAACGACTTTTAAAAA
18940984 CTTCATCTTG
Statistics
Matches: 201, Mismatches: 40, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
42 11 0.05
43 53 0.26
44 114 0.57
45 21 0.10
46 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (44 bp):
CTAAGCAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCTCAT
Found at i:18940831 original size:87 final size:88
Alignment explanation
Indices: 18940720--18940946 Score: 246
Period size: 87 Copynumber: 2.6 Consensus size: 88
18940710 ACATTTTTAA
* * * * *
18940720 AAAATTTAAAAA-GCT-CTCTGAACAGAGGCTCTACAACTTTTAAAAATTTAAAGATGCTCCTTT
1 AAAATTTAAAAAGGCTCCTCTAAACAGAGGCTCTACGACTTTTAAAAATTTAAAGAGGCTCATCT
* * *
18940783 AAGCAGAGACTTAACGACTTTTG
66 AAGCAAAGACTCAACAACTTTTG
* * *
18940806 -AAATTTAAAAAGGCTCCTCTAAACAGAGGCTCAATGATTTTTAAAAATTTAAAGAGGCTCATCT
1 AAAATTTAAAAAGGCTCCTCTAAACAGAGGCTCTACGACTTTTAAAAATTTAAAGAGGCTCATCT
* *
18940870 AAGTAAAGGCTCAACAACTTTTG
66 AAGCAAAGACTCAACAACTTTTG
* * * ** *
18940893 AAAATTTAAAGAGACTCATCTAAGTAGAGG-TTTAACGACTTTTAAAAATTTAAA
1 AAAATTTAAAAAGGCTCCTCTAAACAGAGGCTCT-ACGACTTTTAAAAATTTAAA
18940947 AAAGTTTCTC
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
85 11 0.10
86 3 0.03
87 59 0.51
88 42 0.37
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (88 bp):
AAAATTTAAAAAGGCTCCTCTAAACAGAGGCTCTACGACTTTTAAAAATTTAAAGAGGCTCATCT
AAGCAAAGACTCAACAACTTTTG
Found at i:18940928 original size:131 final size:131
Alignment explanation
Indices: 18940682--18940972 Score: 322
Period size: 131 Copynumber: 2.2 Consensus size: 131
18940672 CCTTTTTTTT
* * *
18940682 AAAAGGTCCACTAAACAGAGGTTCAACGACATTTTTAAAAAATTTAAAAAGCTCTCTGAACAGAG
1 AAAAGGTCCTCTAAACAGAGGCTCAACGA-ATTTTTAAAAAATTTAAAAAGCTCTCTGAACAAAG
* * * *
18940747 GCTCTACAACTTTTAAAAATTTAAAGATGCTCCTTTAAGCAGAGACTTAACGACTTTT-GAAATT
65 GCTCAACAACTTTTAAAAATTTAAAGATGCTCATCTAAGCAGAGACTTAACGACTTTTAAAAATT
18940811 TA
130 TA
* * *
18940813 AAAAGGCTCCTCTAAACAGAGGCTCAATG-ATTTTT-AAAAATTTAAAGAGGCTCATCT-AAGTA
1 AAAAGG-TCCTCTAAACAGAGGCTCAACGAATTTTTAAAAAATTTAAA-AAGCTC-TCTGAA-CA
* * **
18940875 AAGGCTCAACAACTTTTGAAAATTTAAAGA-GACTCATCTAAGTAGAGGTTTAACGACTTTTAAA
62 AAGGCTCAACAACTTTTAAAAATTTAAAGATG-CTCATCTAAGCAGAGACTTAACGACTTTTAAA
18940939 AATTTAA
126 AATTT-A
* * **
18940946 AAAAGTTTCTCTAAGTAGAGGCTCAAC
1 AAAAGGTCCTCTAAACAGAGGCTCAAC
18940973 AACTTTAAAA
Statistics
Matches: 134, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
129 11 0.08
130 14 0.10
131 61 0.46
132 42 0.31
133 6 0.04
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (131 bp):
AAAAGGTCCTCTAAACAGAGGCTCAACGAATTTTTAAAAAATTTAAAAAGCTCTCTGAACAAAGG
CTCAACAACTTTTAAAAATTTAAAGATGCTCATCTAAGCAGAGACTTAACGACTTTTAAAAATTT
A
Found at i:18940939 original size:88 final size:86
Alignment explanation
Indices: 18940721--18940978 Score: 268
Period size: 88 Copynumber: 3.0 Consensus size: 86
18940711 CATTTTTAAA
* * * * *
18940721 AAATTTAAAAAG-CTC-TCTGAACAGAGGCTCTACAACTTTTAAAAATTTAAAGATGCTCCTTTA
1 AAATTTAAAAAGACTCATCTAAACAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCT-CTCTA
* * * *
18940784 AGCAGAGACTTAACGACTTTTG
65 AGTAGAGGCTCAACAACTTTTG
* * * *
18940806 AAATTTAAAAAGGCTCCTCTAAACAGAGGCTCAATGATTTTTAAAAATTTAAAGAGGCTCATCTA
1 AAATTTAAAAAGACTCATCTAAACAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCTC-TCTA
*
18940871 AGTAAAGGCTCAACAACTTTTG
65 AGTAGAGGCTCAACAACTTTTG
* ** * * * **
18940893 AAAATTTAAAGAGACTCATCTAAGTAGAGGTTTAACGACTTTTAAAAATTTAAAAAAGTTTCTCT
1 -AAATTTAAAAAGACTCATCTAAACAGAGGCTCAACGACTTTTAAAAATTT-AAAGAGGCTCTCT
18940958 AAGTAGAGGCTCAACAACTTT
64 AAGTAGAGGCTCAACAACTTT
18940979 AAAAACTTCA
Statistics
Matches: 143, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
85 12 0.08
86 4 0.03
87 56 0.39
88 64 0.45
89 7 0.05
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (86 bp):
AAATTTAAAAAGACTCATCTAAACAGAGGCTCAACGACTTTTAAAAATTTAAAGAGGCTCTCTAA
GTAGAGGCTCAACAACTTTTG
Found at i:18941025 original size:50 final size:49
Alignment explanation
Indices: 18940954--18941231 Score: 297
Period size: 49 Copynumber: 5.6 Consensus size: 49
18940944 AAAAAAGTTT
* * *
18940954 CTCTAAGTAGAGGCTCAACAACTTTAAAAA-CTTCATCTTGGAATAGGCTC
1 CTCTAAGCAGAAGCTCAACAACTTTAAAAATC-TCATCTTGGAA-AAGCTC
* **
18941004 CTCTAAGCAGAAGCTCTACAACTTTAAAAATCTCATCTTAAAAAAGCTC
1 CTCTAAGCAGAAGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTC
* * * * * *
18941053 TTCTAAACAGAGGCTCAATAACTTTAAAATTATCATCTTGGAAAAGCTC
1 CTCTAAGCAGAAGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTC
* * * * **
18941102 TTCTAAACAGAAGCTCAAAAACTTTAAAAATCTCATCTTGAAAAAATTC
1 CTCTAAGCAGAAGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTC
* * * *
18941151 CTTTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTGTAAAAGCTC
1 CTCTAAGCAGAAGCTCAACAACTTTAAAAATC-TCATCTTGGAAAAGCTC
* * *
18941201 CTTTAAGTAGAAGCTCAACAACTTCAAAAAT
1 CTCTAAGCAGAAGCTCAACAACTTTAAAAAT
18941232 TTTATCTGTT
Statistics
Matches: 191, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 113 0.59
50 77 0.40
51 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (49 bp):
CTCTAAGCAGAAGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTC
Found at i:18941058 original size:99 final size:97
Alignment explanation
Indices: 18940942--18941231 Score: 350
Period size: 99 Copynumber: 2.9 Consensus size: 97
18940932 TTTTAAAAAT
* * *
18940942 TTAAAAAAGTTTCTCTAAGTAGAGGCTCAACAACTTTAAAAACTTCATCTTGGAATAGGCTCCTC
1 TTAAAAAAGTCT-TCTAAGCAGAGGCTCAACAACTTTAAAAACTTCATCTTGGAA-AAGCTCCTC
*
18941007 TAAGCAGAAGCTCTACAACTTTAAAAATCTCATC
64 TAAGCAGAAGCTCAACAACTTTAAAAATCTCATC
* * * *
18941041 TTAAAAAAGCTCTTCTAAACAGAGGCTCAATAACTTT-AAAATTATCATCTTGGAAAAGCTCTTC
1 TTAAAAAAG-TCTTCTAAGCAGAGGCTCAACAACTTTAAAAACT-TCATCTTGGAAAAGCTCCTC
* *
18941105 TAAACAGAAGCTCAAAAACTTTAAAAATCTCATC
64 TAAGCAGAAGCTCAACAACTTTAAAAATCTCATC
* * * *
18941139 TTGAAAAAATTCCTT-TAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTGTAAAAGCTCCT
1 TT-AAAAAAGT-CTTCTAAGCAGAGGCTCAACAACTTTAAAA-ACTTCATCTTGGAAAAGCTCCT
* * *
18941203 TTAAGTAGAAGCTCAACAACTTCAAAAAT
63 CTAAGCAGAAGCTCAACAACTTTAAAAAT
18941232 TTTATCTGTT
Statistics
Matches: 162, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
98 66 0.41
99 94 0.58
100 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (97 bp):
TTAAAAAAGTCTTCTAAGCAGAGGCTCAACAACTTTAAAAACTTCATCTTGGAAAAGCTCCTCTA
AGCAGAAGCTCAACAACTTTAAAAATCTCATC
Found at i:18947842 original size:17 final size:17
Alignment explanation
Indices: 18947822--18947854 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18947812 ATAATGAATG
18947822 ATGAACTATAAGCAAAT
1 ATGAACTATAAGCAAAT
*
18947839 ATGAACTATAATCAAA
1 ATGAACTATAAGCAAA
18947855 ATAAAGAGAT
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:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATGAACTATAAGCAAAT
Found at i:18949892 original size:16 final size:16
Alignment explanation
Indices: 18949871--18949901 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18949861 AAGTTCATAT
*
18949871 CAATTGTTAAGGATAC
1 CAATTGTTAAAGATAC
18949887 CAATTGTTAAAGATA
1 CAATTGTTAAAGATA
18949902 TGTTATCACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (16 bp):
CAATTGTTAAAGATAC
Found at i:18958321 original size:14 final size:14
Alignment explanation
Indices: 18958302--18958331 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18958292 TTTGACGTCT
18958302 ATCACTTCTATTAA
1 ATCACTTCTATTAA
*
18958316 ATCACTTTTATTAA
1 ATCACTTCTATTAA
18958330 AT
1 AT
18958332 ACCATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (14 bp):
ATCACTTCTATTAA
Found at i:18969049 original size:10 final size:10
Alignment explanation
Indices: 18969036--18969102 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
18969026 TTAAAAACTC
18969036 AAAAAAATTA
1 AAAAAAATTA
**
18969046 AAAAATTTTA
1 AAAAAAATTA
* *
18969056 ATAAAAATCCA
1 AAAAAAAT-TA
*
18969067 TAAAAAATTA
1 AAAAAAATTA
* *
18969077 AAAAAATTTG
1 AAAAAAATTA
18969087 AAAAAAA-TA
1 AAAAAAATTA
18969096 AAAAAAA
1 AAAAAAA
18969103 GAAAATTTCA
Statistics
Matches: 42, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
9 8 0.19
10 27 0.64
11 7 0.17
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.22
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:18969246 original size:21 final size:21
Alignment explanation
Indices: 18969211--18969251 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18969201 CTAAAAATTG
* *
18969211 AAAAAATTGTAAAAAGTTTTT
1 AAAAAATTATAAAAAATTTTT
*
18969232 AAAAAATTATGAAAAATTTT
1 AAAAAATTATAAAAAATTTT
18969252 CATTTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAAAATTATAAAAAATTTTT
Found at i:18969319 original size:18 final size:18
Alignment explanation
Indices: 18969298--18969376 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 18
18969288 ATTTTATGAT
18969298 TTTTTTAGATTTTTAAAA
1 TTTTTTAGATTTTTAAAA
*
18969316 TTTTTTGGATTTTTATTAAA
1 TTTTTTAGATTTTTA--AAA
18969336 TTTTTT--ATTTTTCAAAAA
1 TTTTTTAGATTTTT--AAAA
*
18969354 TTTTTTAAATTTTTAAGAA
1 TTTTTTAGATTTTTAA-AA
18969373 TTTT
1 TTTT
18969377 GTATAAATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
18 31 0.58
19 6 0.11
20 16 0.30
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTTAGATTTTTAAAA
Found at i:18969366 original size:19 final size:19
Alignment explanation
Indices: 18969333--18969386 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
18969323 GATTTTTATT
*
18969333 AAATTTTTT-ATTTTTCAA
1 AAATTTTTTAAATTTTCAA
*
18969351 AAATTTTTTAAATTTTTAA
1 AAATTTTTTAAATTTTCAA
*
18969370 GAATTTTGTATAAATTT
1 AAATTTT-T-TAAATTT
18969387 CCATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.30
19 13 0.43
20 1 0.03
21 7 0.23
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
AAATTTTTTAAATTTTCAA
Found at i:18969680 original size:28 final size:28
Alignment explanation
Indices: 18969619--18969680 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
18969609 TTTTATGTTC
*
18969619 TTATATTTTTTTATATTTTTAAAATATT
1 TTATATTTTTTTATATTTCTAAAATATT
*
18969647 TAATATTTTTTTA-ATTTGCTATAAAT-TT
1 TTATATTTTTTTATATTT-CTA-AAATATT
18969675 TTATAT
1 TTATAT
18969681 ATATTTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 4 0.14
28 21 0.72
29 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTATATTTTTTTATATTTCTAAAATATT
Found at i:18975546 original size:16 final size:17
Alignment explanation
Indices: 18975521--18975558 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
18975511 TTTTAAAAGT
18975521 AAAATAAAAAT-TAAAA
1 AAAATAAAAATCTAAAA
* *
18975537 AAAATTAAAATCTAAAT
1 AAAATAAAAATCTAAAA
18975554 AAAAT
1 AAAAT
18975559 GATGTCGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAAAAATCTAAAA
Found at i:18979620 original size:95 final size:95
Alignment explanation
Indices: 18979418--18979597 Score: 249
Period size: 95 Copynumber: 1.9 Consensus size: 95
18979408 AAACTTGCCT
* * ** * *
18979418 TAAAAAA-TGATTAAATTTTCTAATAGTTTAATAAGATTTAATTCGAGATTTAAATCCTCCAATA
1 TAAAAAATTTATTAAATTCTCTAATAGTTTGGTAAGACTTAATTAGAGATTTAAATCCTCCAATA
18979482 ATTTGATAATATTGAAAATTTTATTTTTCA
66 ATTTGATAATATTGAAAATTTTATTTTTCA
*
18979512 TAAAAAATTTATTAAATTCTCTAATAGTTTGGTAAGACTTAATTTAGATATTTAAATCCTCCAAT
1 TAAAAAATTTATTAAATTCTCTAATAGTTTGGTAAGACTTAA-TTAGAGATTTAAATCCTCCAAT
*
18979577 AA-TTGGT-ATGATTGAAAATTT
65 AATTTGATAAT-ATTGAAAATTT
18979598 ATGTTGTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 9 0.12
95 44 0.59
96 22 0.29
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.43
Consensus pattern (95 bp):
TAAAAAATTTATTAAATTCTCTAATAGTTTGGTAAGACTTAATTAGAGATTTAAATCCTCCAATA
ATTTGATAATATTGAAAATTTTATTTTTCA
Found at i:18979770 original size:15 final size:13
Alignment explanation
Indices: 18979740--18979799 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 13
18979730 TTTTTGAGAA
*
18979740 AAATTAATTAAAAT
1 AAATAAATT-AAAT
18979754 AAATAACATTTAAAT
1 AAATAA-A-TTAAAT
18979769 AAAATAAATTAGAAT
1 -AAATAAATTA-AAT
18979784 AAATAAATTAAA-
1 AAATAAATTAAAT
18979796 AAAT
1 AAAT
18979800 TACCAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 18 0.44
15 9 0.22
16 8 0.20
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
AAATAAATTAAAT
Found at i:18980797 original size:25 final size:25
Alignment explanation
Indices: 18980769--18980819 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18980759 GATGAAATTT
*
18980769 AGATAGGTAGATAAAATAAAAATAA
1 AGATAGATAGATAAAATAAAAATAA
* * *
18980794 AGATATATGGATAAAATAAACATAA
1 AGATAGATAGATAAAATAAAAATAA
18980819 A
1 A
18980820 AAAATTAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.14, T:0.22
Consensus pattern (25 bp):
AGATAGATAGATAAAATAAAAATAA
Found at i:18980896 original size:6 final size:6
Alignment explanation
Indices: 18980876--18980932 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
18980866 AAATACACTA
* *
18980876 AAAAAT ATAAGAAT AAAAAT AAATAT AAAAAT -AAAAT ATAAA- AAAAAT
1 AAAAAT A-AA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
18980924 AAAATAT AA
1 AAAA-AT AA
18980933 CAATTGAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
5 9 0.21
6 21 0.50
7 8 0.19
8 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:18980899 original size:18 final size:19
Alignment explanation
Indices: 18980878--18980932 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
18980868 ATACACTAAA
*
18980878 AAATATAAGAATAAAA-AT
1 AAATATAAAAATAAAATAT
18980896 AAATATAAAAATAAAATAT
1 AAATATAAAAATAAAATAT
18980915 -AA-A-AAAAATAAAATAT
1 AAATATAAAAATAAAATAT
18980931 AA
1 AA
18980933 CAATTGAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.38
17 2 0.06
18 17 0.50
19 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AAATATAAAAATAAAATAT
Found at i:18980906 original size:13 final size:13
Alignment explanation
Indices: 18980888--18980919 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18980878 AAATATAAGA
18980888 ATAAAAAT-AAAT
1 ATAAAAATAAAAT
18980900 ATAAAAATAAAAT
1 ATAAAAATAAAAT
18980913 ATAAAAA
1 ATAAAAA
18980920 AAATAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:18980923 original size:16 final size:16
Alignment explanation
Indices: 18980902--18980932 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18980892 AAATAAATAT
18980902 AAAAATAAAATATAAA
1 AAAAATAAAATATAAA
18980918 AAAAATAAAATATAA
1 AAAAATAAAATATAA
18980933 CAATTGAACT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAAATATAAA
Found at i:18981446 original size:32 final size:32
Alignment explanation
Indices: 18981388--18981500 Score: 93
Period size: 32 Copynumber: 3.5 Consensus size: 32
18981378 ACTGAACCAA
* * * *
18981388 GGTCGAAGATAAAGGTAACTGCACTAAATTAG
1 GGTCAAAGATAAAGGTGATTGAACTAAATTAG
*
18981420 GGTCAAAGATAAAGGTGATTGAACTAAACTAAG
1 GGTCAAAGATAAAGGTGATTGAACTAAA-TTAG
* * * * * **
18981453 GAT-GAAGATGAAGGTGATAGGACTAAGCTAG
1 GGTCAAAGATAAAGGTGATTGAACTAAATTAG
*
18981484 GGTAAAAGATAAAGGTG
1 GGTCAAAGATAAAGGTG
18981501 TCCAGACTTA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
31 4 0.06
32 54 0.86
33 5 0.08
ACGTcount: A:0.42, C:0.08, G:0.29, T:0.20
Consensus pattern (32 bp):
GGTCAAAGATAAAGGTGATTGAACTAAATTAG
Found at i:18982060 original size:41 final size:40
Alignment explanation
Indices: 18981984--18982060 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
18981974 TTAAAGAAAG
* * * *
18981984 ATAAATAAAATTAAAGCTAAGATAATCAACCATAAAAATA
1 ATAAATAAAATAAAAACCAAGATAATCAACAATAAAAATA
*
18982024 ATAAATAAAATAAAAAACCAAGTTAATCAACAATAAA
1 ATAAATAAAAT-AAAAACCAAGATAATCAACAATAAA
18982061 GGTAACAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 11 0.35
41 20 0.65
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.21
Consensus pattern (40 bp):
ATAAATAAAATAAAAACCAAGATAATCAACAATAAAAATA
Found at i:18982194 original size:7 final size:7
Alignment explanation
Indices: 18982184--18982238 Score: 65
Period size: 7 Copynumber: 7.9 Consensus size: 7
18982174 AATAAAAACA
*
18982184 AAAATTC
1 AAAATCC
*
18982191 AAAATTC
1 AAAATCC
18982198 AAAATCC
1 AAAATCC
18982205 AAAATCC
1 AAAATCC
*
18982212 AAAATGC
1 AAAATCC
18982219 AAAATCC
1 AAAATCC
*
18982226 ACAATCC
1 AAAATCC
*
18982233 ACAATC
1 AAAATC
18982239 AAGCTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.55, C:0.25, G:0.02, T:0.18
Consensus pattern (7 bp):
AAAATCC
Found at i:18982201 original size:21 final size:21
Alignment explanation
Indices: 18982177--18982222 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
18982167 AAATAAAAAT
* *
18982177 AAAAACAAAAATTCAAAATTC
1 AAAAACAAAAATCCAAAATGC
* *
18982198 AAAATCCAAAATCCAAAATGC
1 AAAAACAAAAATCCAAAATGC
18982219 AAAA
1 AAAA
18982223 TCCACAATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.65, C:0.17, G:0.02, T:0.15
Consensus pattern (21 bp):
AAAAACAAAAATCCAAAATGC
Found at i:18982223 original size:21 final size:21
Alignment explanation
Indices: 18982184--18982233 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
18982174 AATAAAAACA
* *
18982184 AAAATTCAAAATTCAAAATCC
1 AAAATCCAAAATGCAAAATCC
18982205 AAAATCCAAAATGCAAAATCC
1 AAAATCCAAAATGCAAAATCC
*
18982226 ACAATCCA
1 AAAATCCA
18982234 CAATCAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAATCCAAAATGCAAAATCC
Found at i:18983111 original size:19 final size:19
Alignment explanation
Indices: 18983082--18983124 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18983072 TCTTAAATTG
**
18983082 TAAAATAAATATTAAAATAT
1 TAAAATAAATACCAAAA-AT
18983102 TAAAAT-AATACCAAAAAT
1 TAAAATAAATACCAAAAAT
18983120 TAAAA
1 TAAAA
18983125 AAAAAAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAATAAATACCAAAAAT
Found at i:18984070 original size:21 final size:21
Alignment explanation
Indices: 18984046--18984085 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18984036 AATTTGGGAT
18984046 TTGAAGAAGAAAAAATGGTAC
1 TTGAAGAAGAAAAAATGGTAC
*
18984067 TTGAAGAAGGAAAAATGGT
1 TTGAAGAAGAAAAAATGGT
18984086 GGCCACTAGT
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:0.50, C:0.03, G:0.28, T:0.20
Consensus pattern (21 bp):
TTGAAGAAGAAAAAATGGTAC
Found at i:18984603 original size:41 final size:42
Alignment explanation
Indices: 18984516--18984603 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 42
18984506 GAGGCTTGAT
* * * * *
18984516 AATTTAAAAGGCTTCTTTAAATAAAGGCTTGACAACATTTTG
1 AATTTAAAAAGCTTCTCTAAACAAAGGCTTAACAACATTTTA
*
18984558 AATTTAAAAAGCTTCTCT-AACAAAGG-TTCAACAACTTTTTA
1 AATTTAAAAAGCTTCTCTAAACAAAGGCTT-AACAACATTTTA
18984599 AATTT
1 AATTT
18984604 TTGAAAGGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
40 2 0.05
41 21 0.54
42 16 0.41
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (42 bp):
AATTTAAAAAGCTTCTCTAAACAAAGGCTTAACAACATTTTA
Found at i:18984680 original size:44 final size:44
Alignment explanation
Indices: 18984516--18985089 Score: 344
Period size: 44 Copynumber: 13.2 Consensus size: 44
18984506 GAGGCTTGAT
* * *
18984516 AATTTAAAAGGCTTCTT-TAAATAAAGGCTTGACAACATTTT--G
1 AATTTAAAAGGC-TCTTCTAAATAAAGGCTTAACAACTTTTTAAA
* *
18984558 AATTTAAAAAGCT-TCTCT-AACAAAGG-TTCAACAACTTTTTAAA
1 AATTTAAAAGGCTCT-TCTAAATAAAGGCTT-AACAACTTTTTAAA
** * * ** * *
18984601 TTTTTGAAAGGCTCTTCTAAATAGATACTCAATAACTTTTTAAA
1 AATTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACTTTTTAAA
* * * * *
18984645 AATTTAAAAGGCTCTTCTAAACAGAGGCTTGATAAC-TTTTGAA
1 AATTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACTTTTTAAA
* * * *
18984688 AATTTAAAAAGCTCTTCTAAACAAAAGG-TTGATAACTTTTTAAA
1 AATTTAAAAGGCTCTTCTAAA-TAAAGGCTTAACAACTTTTTAAA
* ** * **
18984732 ATTTTAAAAGAATCCTT-TAAATAGAA-GCTTGACAA-TTTTGGAA
1 AATTTAAAAGGCT-CTTCTAAATA-AAGGCTTAACAACTTTTTAAA
* * *
18984775 AATTTAAAAGGCTCATCTAAACAAAGGCTTAACAA-TTTTAAAA
1 AATTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACTTTTTAAA
* * * * * *
18984818 AATTTTGAAAGGTTCATCTAAGTAAAAGTTTAACAACTTTTTAAA
1 AA-TTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACTTTTTAAA
* * * * *
18984863 AGTTTAAAAGGTTCCTCTAAGTAAAGGCTTGACAA-TATTTTAAA
1 AATTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACT-TTTTAAA
* * ** *
18984907 ATTTTGAAAGGCTCTTCTAAGCAAAAGCTTAACAAC-TTTTAAA
1 AATTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACTTTTTAAA
* * * * * *
18984950 AATTTAGAAGGCTTTTTTAAATAGATGCTTAACAAGTTTTTAAAAA
1 AATTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACTTTTT--AAA
** *
18984996 AATTTGGAAGGCTTCTT-T-AATAGAGGCTTAACAAC-TTTTAAA
1 AATTTAAAAGGC-TCTTCTAAATAAAGGCTTAACAACTTTTTAAA
* * *
18985038 AATATGAAAA-GCT-TCTCTAAGTAGAA-GCTTAACAAC-TTTTCAA
1 AAT-TTAAAAGGCTCT-TCTAAATA-AAGGCTTAACAACTTTTTAAA
18985081 AATTTAAAA
1 AATTTAAAA
18985090 CATTTGGCCA
Statistics
Matches: 419, Mismatches: 85, Indels: 56
0.75 0.15 0.10
Matches are distributed among these distances:
40 4 0.01
41 20 0.05
42 30 0.07
43 144 0.34
44 176 0.42
45 27 0.06
46 15 0.04
47 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (44 bp):
AATTTAAAAGGCTCTTCTAAATAAAGGCTTAACAACTTTTTAAA
Found at i:18984702 original size:87 final size:87
Alignment explanation
Indices: 18984611--18984822 Score: 216
Period size: 87 Copynumber: 2.4 Consensus size: 87
18984601 TTTTTGAAAG
* * ** *
18984611 GCTCTTCTAAATAGATA-CTCAATAACTTTTTAAAAATTTAAAAGGCT-CTTCTAAACAGAGGCT
1 GCTCTTCTAAACA-AAAGCTCAATAACTTTTTAAAAATTTAAAAGAATCCTT-TAAACAGAAGCT
*
18984674 TGATAACTTTT-GAAAATTTAAAAA
64 TGACAA-TTTTGGAAAATTTAAAAA
* ** * *
18984698 GCTCTTCTAAACAAAAGGTTGATAACTTTTTAAAATTTTAAAAGAATCCTTTAAATAGAAGCTTG
1 GCTCTTCTAAACAAAAGCTCAATAACTTTTTAAAAATTTAAAAGAATCCTTTAAACAGAAGCTTG
*
18984763 ACAATTTTGGAAAATTTAAAAG
66 ACAATTTTGGAAAATTTAAAAA
* * * * *
18984785 GCTCATCTAAACAAAGGCTTAACAA-TTTTAAAAAATTT
1 GCTCTTCTAAACAAAAGCTCAATAACTTTTTAAAAATTT
18984823 TGAAAGGTTC
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
86 17 0.17
87 83 0.81
88 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (87 bp):
GCTCTTCTAAACAAAAGCTCAATAACTTTTTAAAAATTTAAAAGAATCCTTTAAACAGAAGCTTG
ACAATTTTGGAAAATTTAAAAA
Found at i:18984823 original size:87 final size:87
Alignment explanation
Indices: 18984638--18984955 Score: 218
Period size: 87 Copynumber: 3.7 Consensus size: 87
18984628 CTCAATAACT
** * *
18984638 TTTTAAAAA-TTTAAAAGGCTCTTCTAAACAGAGGCTTGATAACTTTTGAAAATTTAAAAAGCTC
1 TTTTAAAAATTTTAAAAGAATCTTCTAAACAGAAGCTTGACAACTTTTGAAAATTTAAAAAGCTC
* * *
18984702 TTCTAAACAAAAGGTTGATAAC
66 ATCTAAACAAAAGGTTAACAAC
* * *
18984724 TTTTTAAAATTTTAAAAGAATCCTT-TAAATAGAAGCTTGACAA-TTTTGGAAAATTTAAAAGGC
1 TTTTAAAAATTTTAAAAGAAT-CTTCTAAACAGAAGCTTGACAACTTTT-GAAAATTTAAAAAGC
18984787 TCATCTAAAC-AAAGGCTTAACAA-
64 TCATCTAAACAAAAGG-TTAACAAC
* ** * ** * * * * * *
18984810 TTTTAAAAAATTTTGAAAGGTTCATCTAAGTAAAAGTTTAACAACTTTTTAAAAGTTTAAAAGGT
1 TTTT-AAAAATTTTAAAAGAATCTTCTAAACAGAAGCTTGACAACTTTTGAAAA-TTTAAAAAGC
* ** *
18984875 TCCTCT-AAGTAAAGGCTTGACAA-
64 TCATCTAAACAAAAGG-TTAACAAC
* * ** * * * *
18984898 TATTTTAAAATTTTGAAAGGCTCTTCTAAGCAAAAGCTTAACAACTTTTAAAAATTTA
1 T-TTTAAAAATTTTAAAAGAATCTTCTAAACAGAAGCTTGACAACTTTTGAAAATTTA
18984956 GAAGGCTTTT
Statistics
Matches: 192, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
86 23 0.12
87 89 0.46
88 77 0.40
89 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (87 bp):
TTTTAAAAATTTTAAAAGAATCTTCTAAACAGAAGCTTGACAACTTTTGAAAATTTAAAAAGCTC
ATCTAAACAAAAGGTTAACAAC
Found at i:18985006 original size:46 final size:44
Alignment explanation
Indices: 18984933--18985082 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 44
18984923 CTAAGCAAAA
* *
18984933 GCTTAACAACTTTT--AAAAATTTAGAAGGCTTTTTTAAATAGAT
1 GCTTAACAACTTTTAAAAAAATTTAGAAGGCTTCTTT-AATAGAG
* *
18984976 GCTTAACAAGTTTTTAAAAAAATTTGGAAGGCTTCTTTAATAGAG
1 GCTTAACAA-CTTTTAAAAAAATTTAGAAGGCTTCTTTAATAGAG
* * * * *
18985021 GCTTAACAACTTTTAAAAATA-TGA-AAAGCTTCTCTAAGTAGAA
1 GCTTAACAACTTTTAAAAAAATTTAGAAGGCTTCTTTAA-TAGAG
*
18985064 GCTTAACAACTTTTCAAAA
1 GCTTAACAACTTTTAAAAA
18985083 TTTAAAACAT
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 11 0.12
43 32 0.35
44 14 0.15
45 15 0.16
46 19 0.21
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (44 bp):
GCTTAACAACTTTTAAAAAAATTTAGAAGGCTTCTTTAATAGAG
Found at i:18985185 original size:48 final size:48
Alignment explanation
Indices: 18985133--18985256 Score: 110
Period size: 48 Copynumber: 2.6 Consensus size: 48
18985123 TGAATGCTCC
*** *
18985133 TTTAAACAAATGCTTAAAAACTTTAAAA-TTCTCATTTTAAAATGCATT
1 TTTAAACAAATGCTTAAAAACTTTAAAACTT-TCATCCCAAAATACATT
* * * * *
18985181 TTTAAGCTAAA-GCTCAATATCTTTAAAACTTTCATCCCAAAATACTTT
1 TTTAAAC-AAATGCTTAAAAACTTTAAAACTTTCATCCCAAAATACATT
*
18985229 TTTAAACAAATG-TTCAACAACTTTAAAA
1 TTTAAACAAATGCTT-AAAAACTTTAAAA
18985257 GTAAAAAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
47 4 0.07
48 50 0.85
49 5 0.08
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (48 bp):
TTTAAACAAATGCTTAAAAACTTTAAAACTTTCATCCCAAAATACATT
Done.