Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 125 of 135
Found at i:37834834 original size:12 final size:12
Alignment explanation
Indices: 37834819--37834844 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37834809 TTATTTCTTT
37834819 TTTATTAATTAA
1 TTTATTAATTAA
37834831 TTTATTAATTAA
1 TTTATTAATTAA
37834843 TT
1 TT
37834845 AAATTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATTAATTAA
Found at i:37837650 original size:22 final size:23
Alignment explanation
Indices: 37837625--37837667 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37837615 TTCAACTTTA
*
37837625 TTAACTCT-TTTTTTTTTTCTAT
1 TTAACTCTGTCTTTTTTTTCTAT
37837647 TTAACTCTGTCTTTTTTTTCT
1 TTAACTCTGTCTTTTTTTTCT
37837668 TCTGCCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.70
Consensus pattern (23 bp):
TTAACTCTGTCTTTTTTTTCTAT
Found at i:37841809 original size:30 final size:30
Alignment explanation
Indices: 37841775--37841839 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
37841765 ACTTATTTTA
*
37841775 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
37841805 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
37841835 TTGTT
1 TTGTT
37841840 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGACAT
Found at i:37842200 original size:23 final size:23
Alignment explanation
Indices: 37842174--37842218 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37842164 ACAACTCTGA
37842174 TATAAACAT-TTAAAAAATTTTAG
1 TATAAACATATT-AAAAATTTTAG
**
37842197 TATAATTATATTAAAAATTTTA
1 TATAAACATATTAAAAATTTTA
37842219 ATAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TATAAACATATTAAAAATTTTAG
Found at i:37842225 original size:22 final size:23
Alignment explanation
Indices: 37842186--37842228 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37842176 TAAACATTTA
*
37842186 AAAAATTTTAGTATAATTATATT
1 AAAAATTTTAATATAATTATATT
37842209 AAAAATTTTAATA-AATTATA
1 AAAAATTTTAATATAATTATA
37842229 AAATTAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AAAAATTTTAATATAATTATATT
Found at i:37851351 original size:96 final size:96
Alignment explanation
Indices: 37851187--37851379 Score: 386
Period size: 96 Copynumber: 2.0 Consensus size: 96
37851177 AAGAAAGGGA
37851187 TTGGTTTCTGGAGATGGTATCAACTGCAAAGCAGACTTGGGTTTGTAGAGACAAACACATGAACA
1 TTGGTTTCTGGAGATGGTATCAACTGCAAAGCAGACTTGGGTTTGTAGAGACAAACACATGAACA
37851252 ATAACAACTCGCAAGTAAGCTCCAGCACCGG
66 ATAACAACTCGCAAGTAAGCTCCAGCACCGG
37851283 TTGGTTTCTGGAGATGGTATCAACTGCAAAGCAGACTTGGGTTTGTAGAGACAAACACATGAACA
1 TTGGTTTCTGGAGATGGTATCAACTGCAAAGCAGACTTGGGTTTGTAGAGACAAACACATGAACA
37851348 ATAACAACTCGCAAGTAAGCTCCAGCACCGG
66 ATAACAACTCGCAAGTAAGCTCCAGCACCGG
37851379 T
1 T
37851380 CTCATTACGG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (96 bp):
TTGGTTTCTGGAGATGGTATCAACTGCAAAGCAGACTTGGGTTTGTAGAGACAAACACATGAACA
ATAACAACTCGCAAGTAAGCTCCAGCACCGG
Found at i:37861854 original size:24 final size:25
Alignment explanation
Indices: 37861822--37861876 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
37861812 TAAATTTTAA
*
37861822 AATTATTAT-TTTAGAAAAAA-TATT
1 AATTTTTATATTTAGAAAAAATTA-T
**
37861846 AATTTTTATATTTTTAAAAAATTAT
1 AATTTTTATATTTAGAAAAAATTAT
37861871 AATTTT
1 AATTTT
37861877 AAAAAGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 8 0.31
25 16 0.62
26 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATTTTTATATTTAGAAAAAATTAT
Found at i:37861857 original size:26 final size:25
Alignment explanation
Indices: 37861828--37861876 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
37861818 TTAAAATTAT
37861828 TATTTTAGAAAAAA-TATTAATTTTTA
1 TATTTT-GAAAAAATTA-TAATTTTTA
*
37861854 TATTTTTAAAAAATTATAATTTT
1 TATTTTGAAAAAATTATAATTTT
37861877 AAAAAGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTTTGAAAAAATTATAATTTTTA
Found at i:37861859 original size:40 final size:43
Alignment explanation
Indices: 37861801--37861881 Score: 98
Period size: 43 Copynumber: 1.9 Consensus size: 43
37861791 TAAATAATTA
*
37861801 ATTAACTTATTTAAA-TTTT-AAAATTATTATTTTAGAAAAAAT
1 ATTAACTTATTTAAATTTTTAAAAATTATAATTTTA-AAAAAAT
*
37861843 ATTAA-TT-TTTATATTTTTAAAAAATTATAATTTTAAAAA
1 ATTAACTTATTTAAATTTTT-AAAAATTATAATTTTAAAAA
37861882 GTATAGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 5 0.15
41 6 0.18
42 9 0.26
43 14 0.41
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (43 bp):
ATTAACTTATTTAAATTTTTAAAAATTATAATTTTAAAAAAAT
Found at i:37861880 original size:15 final size:16
Alignment explanation
Indices: 37861851--37861881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37861841 ATATTAATTT
*
37861851 TTATATTTTTAAAAAA
1 TTATAATTTTAAAAAA
37861867 TTATAATTTTAAAAA
1 TTATAATTTTAAAAA
37861882 GTATAGTTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAATTTTAAAAAA
Found at i:37861892 original size:40 final size:41
Alignment explanation
Indices: 37861820--37861898 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
37861810 TTTAAATTTT
*
37861820 AAAATTATTATTTTAGAAAAAATATTAATTTTTATATTTTTAA
1 AAAATTATAATTTTA-AAAAAATATTAATTTTTAT-TTTTTAA
* *
37861863 AAAATTATAATTTT-AAAAAGTA-TAGTTTTTATTTTT
1 AAAATTATAATTTTAAAAAAATATTAATTTTTATTTTT
37861899 CATAAACATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.12
40 9 0.27
41 7 0.21
43 13 0.39
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (41 bp):
AAAATTATAATTTTAAAAAAATATTAATTTTTATTTTTTAA
Found at i:37877129 original size:27 final size:27
Alignment explanation
Indices: 37877099--37877168 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
37877089 GGCAGTGTTG
37877099 ATAGACTTCCACATT-AAGATAGTCCTA
1 ATAGACTTCCACATTCAA-ATAGTCCTA
* *
37877126 ATAGACTTTCACATATCAAATAGTCCTC
1 ATAGACTTCCACAT-TCAAATAGTCCTA
*
37877154 ATGGACTTCCACATT
1 ATAGACTTCCACATT
37877169 TACGGTAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.38
28 21 0.57
29 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (27 bp):
ATAGACTTCCACATTCAAATAGTCCTA
Found at i:37877258 original size:22 final size:22
Alignment explanation
Indices: 37877204--37877263 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
37877194 TCCATTTGTG
* *
37877204 CCATAAAGGGCTCTCATACGTC
1 CCATAAAGGGCTCTCAAACATC
* * *
37877226 CCACAAGGGGCACTCAAACATC
1 CCATAAAGGGCTCTCAAACATC
*
37877248 CTATAAAGGGCTCTCA
1 CCATAAAGGGCTCTCA
37877264 TATATTGGTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (22 bp):
CCATAAAGGGCTCTCAAACATC
Found at i:37879321 original size:58 final size:58
Alignment explanation
Indices: 37879228--37879339 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
37879218 TTTTTAAGTA
* * *
37879228 CTAACTTGAATAAAAAAAATTAAAATCCCAATGTGAAAACATTTACCAAGTTTAAAAT
1 CTAACTTGAAAAAAAAAAATTAAAATCCCAATGTGAAAACAATTACCAAATTTAAAAT
* * * * *
37879286 CTAACTTGAACAAAAAAAAATTCAAA-CCTATTGTGAGAATAATTACCAAATTTA
1 CTAACTTGAA-AAAAAAAAATTAAAATCCCAATGTGAAAACAATTACCAAATTTA
37879340 GAGCTTAACT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
58 32 0.71
59 13 0.29
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (58 bp):
CTAACTTGAAAAAAAAAAATTAAAATCCCAATGTGAAAACAATTACCAAATTTAAAAT
Found at i:37879397 original size:61 final size:58
Alignment explanation
Indices: 37879287--37879398 Score: 134
Period size: 61 Copynumber: 1.9 Consensus size: 58
37879277 GTTTAAAATC
* * * * *
37879287 TAACTTGAACAAAAAAAAATTCAAACCTATTGTGAGAATAATTACCAAATTTAGAGCT
1 TAACTTAAACAAAAAAAAATTCAAACCTAATGTAAAAAGAATTACCAAATTTAGAGCT
* *
37879345 TAACTTAAACACAAAAAAATATTTAAACTCTAATGTAAAAAGAATTATCAAATT
1 TAACTTAAACA-AAAAAAA-ATTCAAAC-CTAATGTAAAAAGAATTACCAAATT
37879399 CAAGCCAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
58 10 0.23
59 7 0.16
60 7 0.16
61 20 0.45
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (58 bp):
TAACTTAAACAAAAAAAAATTCAAACCTAATGTAAAAAGAATTACCAAATTTAGAGCT
Found at i:37880760 original size:15 final size:16
Alignment explanation
Indices: 37880723--37880763 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
37880713 GATAGTAAAA
37880723 TTATAATATTATCATTT
1 TTATAAT-TTATCATTT
*
37880740 TAATAATTTAT-ATTT
1 TTATAATTTATCATTT
37880755 TTATAATTT
1 TTATAATTT
37880764 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 12 0.55
16 4 0.18
17 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATAATTTATCATTT
Found at i:37900973 original size:25 final size:24
Alignment explanation
Indices: 37900945--37900991 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
37900935 AATTGTATCA
37900945 AATTAAAATTCATATATCAAATTAC
1 AATTAAAATTCATATAT-AAATTAC
37900970 AATTAAAATTCATATATAAATT
1 AATTAAAATTCATATATAAATT
37900992 TGATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTAAAATTCATATATAAATTAC
Found at i:37900991 original size:12 final size:13
Alignment explanation
Indices: 37900948--37900989 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
37900938 TGTATCAAAT
37900948 TAAAATTCATATA
1 TAAAATTCATATA
*
37900961 TCAAATTACA-AT-
1 TAAAATT-CATATA
37900973 TAAAATTCATATA
1 TAAAATTCATATA
37900986 TAAA
1 TAAA
37900990 TTTGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 2 0.08
12 8 0.33
13 12 0.50
14 2 0.08
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATTCATATA
Found at i:37917508 original size:79 final size:79
Alignment explanation
Indices: 37917409--37917581 Score: 319
Period size: 79 Copynumber: 2.2 Consensus size: 79
37917399 ATTAATGGAT
37917409 ATTTATTTGATAAGTACGTAAAATTACTTATCTCTACAACTAATGCTTTTATTAATTAGATTAAA
1 ATTTATTTGATAAGTACGTAAAATTACTTATCTCTACAACTAATGCTTTTATTAATTAGATTAAA
37917474 ATATGTTGTTAGTC
66 ATATGTTGTTAGTC
37917488 ATTTATTTGATAAGTACGTAAAATTACTTATCTCTACAACTAATGCTTTTATTAATTAGATTAAA
1 ATTTATTTGATAAGTACGTAAAATTACTTATCTCTACAACTAATGCTTTTATTAATTAGATTAAA
37917553 ATATGTTGTTAGTC
66 ATATGTTGTTAGTC
*
37917567 CTTATACTTTGATAA
1 ATT-TA-TTTGATAA
37917582 AATTTAAGAT
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
79 81 0.89
80 2 0.02
81 8 0.09
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (79 bp):
ATTTATTTGATAAGTACGTAAAATTACTTATCTCTACAACTAATGCTTTTATTAATTAGATTAAA
ATATGTTGTTAGTC
Found at i:37924212 original size:278 final size:278
Alignment explanation
Indices: 37923715--37924262 Score: 961
Period size: 278 Copynumber: 2.0 Consensus size: 278
37923705 TAATGAAAAC
*
37923715 TTGGGATATCAGAGGTGCGTCCAGGTTGATATAGACGATCATACGAGCAAATTTCCCCCAAGCTC
1 TTGGGATATCAGAGGTACGTCCAGGTTGATATAGACGATCATACGAGCAAATTTCCCCCAAGCTC
* *
37923780 TATTGTCTACATTCAGGTCCAGTTTAGCAACTTTCCCGATCATCCCATCAATCTCTTTAAGAATT
66 TATTGTCTACATTCAGGCCCAGTTTAGCAACTTTCCCGATCATCCCACCAATCTCTTTAAGAATT
*
37923845 TTTCTCCTATAAAAATATCCTGGTAATCTCGGTAGTCTTATCCAGGCCATCACGGTGCTCGGATA
131 TTTCTCCTATAAAAATATCCTGGTAATCCCGGTAGTCTTATCCAGGCCATCACGGTGCTCGGATA
* *
37923910 AGCTTGTAATGGGTTAAAGTTTATTGTCCATGGTTGAATAGTTAAATACTGTCCGAACACTATCC
196 AGCTTGTAATGGGTTAAAGTTTATTGTCCATGGTTGAACAGTTAAATACTGTCCAAACACTATCC
37923975 ATGGACCCTCGAGCTCTA
261 ATGGACCCTCGAGCTCTA
* * * * *
37923993 TTGGGATATCAGAGGTACTTCCAGGTTGATATGGACGGTCATACGAGCAAATTTCCCTCGAGCTC
1 TTGGGATATCAGAGGTACGTCCAGGTTGATATAGACGATCATACGAGCAAATTTCCCCCAAGCTC
* **
37924058 TATTGTCTGCATTCAGGCCCAGTTTAGTGACTTTCCCGATCATCCCACCAATCTCTTTAAGAATT
66 TATTGTCTACATTCAGGCCCAGTTTAGCAACTTTCCCGATCATCCCACCAATCTCTTTAAGAATT
*
37924123 TTTCTCCTATAAAAATATCCTGGTAGTCCCGGTAGTCTTATCCAGGCCATCACGGTGCTCGGATA
131 TTTCTCCTATAAAAATATCCTGGTAATCCCGGTAGTCTTATCCAGGCCATCACGGTGCTCGGATA
37924188 AGCTTGTAATGGGTTAAAGTTTATTGTCCATGGTTGAACAGTTAAATACTGTCCAAACACTATCC
196 AGCTTGTAATGGGTTAAAGTTTATTGTCCATGGTTGAACAGTTAAATACTGTCCAAACACTATCC
37924253 ATGGACCCTC
261 ATGGACCCTC
37924263 TGATAGCACT
Statistics
Matches: 255, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
278 255 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (278 bp):
TTGGGATATCAGAGGTACGTCCAGGTTGATATAGACGATCATACGAGCAAATTTCCCCCAAGCTC
TATTGTCTACATTCAGGCCCAGTTTAGCAACTTTCCCGATCATCCCACCAATCTCTTTAAGAATT
TTTCTCCTATAAAAATATCCTGGTAATCCCGGTAGTCTTATCCAGGCCATCACGGTGCTCGGATA
AGCTTGTAATGGGTTAAAGTTTATTGTCCATGGTTGAACAGTTAAATACTGTCCAAACACTATCC
ATGGACCCTCGAGCTCTA
Found at i:37924642 original size:55 final size:55
Alignment explanation
Indices: 37924558--37924664 Score: 205
Period size: 55 Copynumber: 1.9 Consensus size: 55
37924548 CTTATTAGAA
*
37924558 TCCATAATATTGGAATTCCCCACTAGTTTGTCCTTCTAGGACACTTTTGGAAAGG
1 TCCATAATATTGGAATTCCCCACTAGTTTGTCCTTCCAGGACACTTTTGGAAAGG
37924613 TCCATAATATTGGAATTCCCCACTAGTTTGTCCTTCCAGGACACTTTTGGAA
1 TCCATAATATTGGAATTCCCCACTAGTTTGTCCTTCCAGGACACTTTTGGAA
37924665 CGGTGACTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (55 bp):
TCCATAATATTGGAATTCCCCACTAGTTTGTCCTTCCAGGACACTTTTGGAAAGG
Found at i:37925202 original size:21 final size:19
Alignment explanation
Indices: 37925159--37925210 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
37925149 GAAATTATAA
*
37925159 ATTATAAAATTTATTAAAT
1 ATTATAAAATTGATTAAAT
*
37925178 ATTATAAAATATGGTTAATAT
1 ATTATAAAAT-TGATTAA-AT
37925199 ATTATGAAAATT
1 ATTAT-AAAATT
37925211 ATGAAAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
20 5 0.18
21 8 0.29
22 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
ATTATAAAATTGATTAAAT
Found at i:37925228 original size:20 final size:21
Alignment explanation
Indices: 37925199--37925238 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
37925189 TGGTTAATAT
*
37925199 ATTATGAAAATTAT-GAAAGA
1 ATTATAAAAATTATAGAAAGA
37925219 ATTATAAAAATTATAGAAAG
1 ATTATAAAAATTATAGAAAG
37925239 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
ATTATAAAAATTATAGAAAGA
Found at i:37925280 original size:11 final size:11
Alignment explanation
Indices: 37925266--37925302 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37925256 AAATGATTAA
37925266 AAAAACTTATT
1 AAAAACTTATT
37925277 AAAAA-TT-TT
1 AAAAACTTATT
37925286 ATAAAACTTATT
1 A-AAAACTTATT
37925298 AAAAA
1 AAAAA
37925303 TTTACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.13
10 6 0.26
11 11 0.48
12 3 0.13
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAACTTATT
Found at i:37925293 original size:21 final size:20
Alignment explanation
Indices: 37925267--37925320 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
37925257 AATGATTAAA
*
37925267 AAAACTTATTAAAAATTTTAT
1 AAAACTTATTAAAAA-TTTAC
37925288 AAAACTTATTAAAAATTTAC
1 AAAACTTATTAAAAATTTAC
37925308 AAAA-TTA-TAAAAA
1 AAAACTTATTAAAAA
37925321 AATTATACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 6 0.19
19 3 0.09
20 8 0.25
21 15 0.47
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAACTTATTAAAAATTTAC
Found at i:37925320 original size:9 final size:9
Alignment explanation
Indices: 37925157--37925320 Score: 53
Period size: 9 Copynumber: 16.3 Consensus size: 9
37925147 GAGAAATTAT
37925157 AAATTATAA
1 AAATTATAA
*
37925166 AATTTATTAA
1 AAATTA-TAA
*
37925176 ATATTATAA
1 AAATTATAA
37925185 AATATGGT-TAA
1 AA-AT--TATAA
* *
37925196 TATATTATGA
1 -AAATTATAA
37925206 AAATTATGAA
1 AAATTAT-AA
37925216 AGAATTATAA
1 A-AATTATAA
37925226 AAATTATAGA
1 AAATTATA-A
*
37925236 AAGTATATATA
1 AAAT-TATA-A
* **
37925247 TACGTATTAA
1 AAATTA-TAA
*
37925257 AATGATTAAAA
1 AA--ATTATAA
37925268 AAACTTATTAA
1 AAA-TTA-TAA
37925279 AAATTTTATAA
1 AAA--TTATAA
*
37925290 AACTTATTAA
1 AAATTA-TAA
37925300 AAATT-TACA
1 AAATTATA-A
37925309 AAATTATAA
1 AAATTATAA
37925318 AAA
1 AAA
37925321 AATTATACAT
Statistics
Matches: 115, Mismatches: 21, Indels: 38
0.66 0.12 0.22
Matches are distributed among these distances:
8 2 0.02
9 37 0.32
10 36 0.31
11 33 0.29
12 7 0.06
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.37
Consensus pattern (9 bp):
AAATTATAA
Found at i:37925609 original size:11 final size:10
Alignment explanation
Indices: 37925587--37925657 Score: 74
Period size: 10 Copynumber: 7.1 Consensus size: 10
37925577 AAGCTTTTAG
37925587 AAATTATTAAA
1 AAATTA-TAAA
*
37925598 ATATTAT-AA
1 AAATTATAAA
*
37925607 AAATTTTAAA
1 AAATTATAAA
*
37925617 AAATTATAGA
1 AAATTATAAA
*
37925627 AAATTATAGA
1 AAATTATAAA
37925637 AAATTATTAAA
1 AAATTA-TAAA
37925648 AAATTA-AAA
1 AAATTATAAA
37925657 A
1 A
37925658 CTATTACTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
9 11 0.21
10 27 0.52
11 14 0.27
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
AAATTATAAA
Found at i:37925610 original size:20 final size:20
Alignment explanation
Indices: 37925587--37925653 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 20
37925577 AAGCTTTTAG
37925587 AAATTATTAAAATATTATAA
1 AAATTATTAAAATATTATAA
*
37925607 AAATT-TTAAAAAATTATAGA
1 AAATTATTAAAATATTATA-A
*
37925627 AAATTATAGAAAATTATTA-AA
1 AAATTAT-TAAAA-TATTATAA
37925648 AAATTA
1 AAATTA
37925654 AAAACTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 12 0.30
20 11 0.28
21 8 0.20
22 5 0.12
23 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AAATTATTAAAATATTATAA
Found at i:37925613 original size:29 final size:30
Alignment explanation
Indices: 37925587--37925653 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
37925577 AAGCTTTTAG
37925587 AAATTATTA-AAATATTATA-AAAATTTTAAA
1 AAATTA-TAGAAA-ATTATAGAAAATTTTAAA
37925617 AAATTATAGAAAATTATAGAAAATTATTAAA
1 AAATTATAGAAAATTATAGAAAATT-TTAAA
37925648 AAATTA
1 AAATTA
37925654 AAAACTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.24
30 15 0.44
31 11 0.32
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATTATAGAAAATTATAGAAAATTTTAAA
Found at i:37926298 original size:107 final size:107
Alignment explanation
Indices: 37926169--37926363 Score: 309
Period size: 107 Copynumber: 1.8 Consensus size: 107
37926159 AAAAGTATTA
* * *
37926169 AATTTCTGAAAATAAAAGGAGAAAAATTAAATTTCGAAAGGCCAAAAAATATATAAAGGAGTGGG
1 AATTTCTGAAAATAAAAGGAGAAAAATTAAATTTCAAAAAGCCAAAAAATATATAAAGGAATGGG
**
37926234 GTTTATTTATGTTCTTTGCCTTTTTGTGGTATAGAAGTACTC
66 ACTTATTTATGTTCTTTGCCTTTTTGTGGTATAGAAGTACTC
* * *
37926276 AATTTCTTAAAATAAAAGGAGAAAAATTAAATTTCAAAAATCTAAAAAATATATAAAGGAATGGG
1 AATTTCTGAAAATAAAAGGAGAAAAATTAAATTTCAAAAAGCCAAAAAATATATAAAGGAATGGG
*
37926341 ACTTATTTATGTTGTTTGCCTTT
66 ACTTATTTATGTTCTTTGCCTTT
37926364 CCTAGCTCTA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 79 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (107 bp):
AATTTCTGAAAATAAAAGGAGAAAAATTAAATTTCAAAAAGCCAAAAAATATATAAAGGAATGGG
ACTTATTTATGTTCTTTGCCTTTTTGTGGTATAGAAGTACTC
Found at i:37927398 original size:12 final size:11
Alignment explanation
Indices: 37927373--37927397 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37927363 TTTCCAACTA
37927373 TTTAACAATTT
1 TTTAACAATTT
37927384 TTTAACAATTT
1 TTTAACAATTT
37927395 TTT
1 TTT
37927398 TCATGTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAACAATTT
Found at i:37927566 original size:35 final size:35
Alignment explanation
Indices: 37927521--37927609 Score: 85
Period size: 35 Copynumber: 2.5 Consensus size: 35
37927511 CCAAACCCTC
* *
37927521 AAACTTTAAACTCGAACCCTAAA-C-TTATAA-TGTT
1 AAACCTTAAACTCGAACCCCAAATCATTA-AACT-TT
* *
37927555 AAACCCTTAAACCCAAACCCCAAATCATTAAACTTT
1 AAA-CCTTAAACTCGAACCCCAAATCATTAAACTTT
37927591 AAACCTTAAATCTCGAACC
1 AAACCTTAAA-CTCGAACC
37927610 TTGAACCTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
34 3 0.07
35 23 0.52
36 14 0.32
37 4 0.09
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.26
Consensus pattern (35 bp):
AAACCTTAAACTCGAACCCCAAATCATTAAACTTT
Found at i:37932774 original size:17 final size:17
Alignment explanation
Indices: 37932752--37932785 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37932742 TTTATAAGCA
37932752 GAACCATAAAAAACTTT
1 GAACCATAAAAAACTTT
37932769 GAACCATAAAAAACTTT
1 GAACCATAAAAAACTTT
37932786 TAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
GAACCATAAAAAACTTT
Found at i:37942577 original size:30 final size:31
Alignment explanation
Indices: 37942522--37942580 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
37942512 GCCATAAATA
37942522 TTTATATTTTATACAAATTTAAAATTTAATT
1 TTTATATTTTATACAAATTTAAAATTTAATT
*
37942553 TTTATATTTT-T-CAGATTATAAAATTTAA
1 TTTATATTTTATACAAATT-TAAAATTTAA
37942581 ATTCAATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 11 0.42
31 10 0.38
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (31 bp):
TTTATATTTTATACAAATTTAAAATTTAATT
Found at i:37948547 original size:14 final size:15
Alignment explanation
Indices: 37948521--37948549 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37948511 AAGTTTGAAT
37948521 ATGTTTATATTTTTA
1 ATGTTTATATTTTTA
37948536 ATGTTT-TATTTTTA
1 ATGTTTATATTTTTA
37948550 TATTTGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
ATGTTTATATTTTTA
Found at i:37950598 original size:42 final size:44
Alignment explanation
Indices: 37950517--37950599 Score: 100
Period size: 42 Copynumber: 1.9 Consensus size: 44
37950507 ATAGATAATC
* * *
37950517 ATAACATAATAATAGAACTCTCCAGTGAAGAGAATATAATTATA
1 ATAAAATAATAATAGAACTCCCCAATGAAGAGAATATAATTATA
*
37950561 ATAAAATAAT-ATA-AACTCCCCAATGATGAGCAA-ATAATT
1 ATAAAATAATAATAGAACTCCCCAATGAAGAG-AATATAATT
37950600 TCATCAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 20 0.59
43 5 0.15
44 9 0.26
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.27
Consensus pattern (44 bp):
ATAAAATAATAATAGAACTCCCCAATGAAGAGAATATAATTATA
Found at i:37953173 original size:32 final size:33
Alignment explanation
Indices: 37953135--37953208 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
37953125 TCATAAACTT
* *
37953135 ATAAATTGATTACTTGAATTT-AGTAACTTA-TG
1 ATAAATTGATTAATTGAATTTGA-TAACTCATTG
* *
37953167 ATAAATTAATTAATTTAATTTGATAACTCATTG
1 ATAAATTGATTAATTGAATTTGATAACTCATTG
37953200 ATAAATTGA
1 ATAAATTGA
37953209 ACTTGTTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (33 bp):
ATAAATTGATTAATTGAATTTGATAACTCATTG
Found at i:37958405 original size:9 final size:9
Alignment explanation
Indices: 37958393--37958423 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
37958383 AGTTTTTTTT
37958393 ATTTTTAAA
1 ATTTTTAAA
37958402 ATTTTTAAA
1 ATTTTTAAA
37958411 ATTTTTAAA
1 ATTTTTAAA
37958420 ATTT
1 ATTT
37958424 AGGTTCAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:37960658 original size:94 final size:94
Alignment explanation
Indices: 37960487--37960696 Score: 294
Period size: 94 Copynumber: 2.2 Consensus size: 94
37960477 CATACTCTCA
* * * * *
37960487 ACAGTTCGAGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAGGTAGGCACCATACCGATGGT
1 ACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAAGTAGGCACCATACCAATGGC
* *
37960552 TGGGGTACCGCATATGTTATGAGGCCTCG
66 TGGGGTACCGCATATGTTACGAGGCATCG
* * *
37960581 ACAGCTTGTGTGAGTAGCATCGTTAGGGAACAGTTTATAGTACAAGTAGGCACCATATCAATGGC
1 ACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAAGTAGGCACCATACCAATGGC
* * *
37960646 TGGGGTATCGCATATGTTGCGAGTCATCG
66 TGGGGTACCGCATATGTTACGAGGCATCG
*
37960675 ACAGCTCGTATGAGCAGCATCG
1 ACAGCTCGTGTGAGCAGCATCG
37960697 GGTACTGGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 100 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
ACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAAGTAGGCACCATACCAATGGC
TGGGGTACCGCATATGTTACGAGGCATCG
Found at i:37964617 original size:19 final size:18
Alignment explanation
Indices: 37964604--37964650 Score: 80
Period size: 17 Copynumber: 2.7 Consensus size: 18
37964594 TTTATGCTTC
37964604 TTTTTA-ATTTTTATGAT
1 TTTTTATATTTTTATGAT
37964621 TTTTTATATTTTTAT-AT
1 TTTTTATATTTTTATGAT
37964638 TTTTTATATTTTT
1 TTTTTATATTTTT
37964651 TTAAATGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTATATTTTTATGAT
Found at i:37964625 original size:18 final size:19
Alignment explanation
Indices: 37964593--37964650 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 19
37964583 TACACATGTA
*
37964593 TTTTATGCTTCTTTTTA-AT
1 TTTTATGATT-TTTTTATAT
37964612 TTTTATGA-TTTTTTATAT
1 TTTTATGATTTTTTTATAT
37964630 TTTTAT-A-TTTTTTATAT
1 TTTTATGATTTTTTTATAT
37964647 TTTT
1 TTTT
37964651 TTAAATGGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 21 0.57
18 9 0.24
19 7 0.19
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTATGATTTTTTTATAT
Found at i:37964649 original size:7 final size:8
Alignment explanation
Indices: 37964604--37964650 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
37964594 TTTATGCTTC
37964604 TTTTTA-A
1 TTTTTATA
37964611 TTTTTATGA
1 TTTTTAT-A
37964620 TTTTTTATA
1 -TTTTTATA
37964629 TTTTTATA
1 TTTTTATA
37964637 TTTTTTATA
1 -TTTTTATA
37964646 TTTTT
1 TTTTT
37964651 TTAAATGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.17
8 13 0.36
9 10 0.28
10 7 0.19
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:37964653 original size:10 final size:9
Alignment explanation
Indices: 37964611--37964651 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
37964601 TTCTTTTTAA
37964611 TTTTTATGAT
1 TTTTTAT-AT
37964621 TTTTTATA-
1 TTTTTATAT
37964629 TTTTTATAT
1 TTTTTATAT
37964638 TTTTTATAT
1 TTTTTATAT
37964647 TTTTT
1 TTTTT
37964652 TAAATGGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.27
9 15 0.50
10 7 0.23
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTATAT
Found at i:37966710 original size:29 final size:29
Alignment explanation
Indices: 37966678--37966910 Score: 194
Period size: 28 Copynumber: 8.0 Consensus size: 29
37966668 TTTTGGGCAC
37966678 TCGGGGT-AAAATGGTAATTTTTGAAAGTT
1 TCGGGGTAAAAATGG-AATTTTTGAAAGTT
* * *
37966707 TC-GGGTCAAAATGGAGTTTTTGGAAGTT
1 TCGGGGTAAAAATGGAATTTTTGAAAGTT
* *
37966735 TGGGGGT-AAAATGGTAATTTTTAAAAGTTT
1 TCGGGGTAAAAATGG-AATTTTTGAAAG-TT
*
37966765 TAGGGGTCAAAAATGGAATTTTTGGAAA-TT
1 TCGGGGT-AAAAATGGAATTTTT-GAAAGTT
* *
37966795 T-GGGGTAAAAATGGAAGTTTTGGAAGTT
1 TCGGGGTAAAAATGGAATTTTTGAAAGTT
* *
37966823 T-GAGGGT-AAAATGTAATTTTTGGAAGTT
1 TCG-GGGTAAAAATGGAATTTTTGAAAGTT
** *
37966851 TTAGGGTCAAAATGGAATTTTTGGAAA-TT
1 TCGGGGTAAAAATGGAATTTTT-GAAAGTT
* * *
37966880 TCAGAGTAAAAATGTAATTTTTGAACAGTT
1 TCGGGGTAAAAATGGAATTTTTGAA-AGTT
37966910 T
1 T
37966911 AGGGACTTAC
Statistics
Matches: 171, Mismatches: 19, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
27 3 0.02
28 69 0.40
29 65 0.38
30 17 0.10
31 7 0.04
32 10 0.06
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
TCGGGGTAAAAATGGAATTTTTGAAAGTT
Found at i:37966746 original size:57 final size:57
Alignment explanation
Indices: 37966658--37966873 Score: 210
Period size: 57 Copynumber: 3.8 Consensus size: 57
37966648 ATCGGGATCA
* * *
37966658 AAAATGGAATTTTTGGGCA-CTCGGGGT-AAAATGGTAATTTTTGAAAGTTT-CGGGTC
1 AAAATGGAATTTTT-GGAAGTTTGGGGTAAAAATGG-AATTTTTGAAAGTTTACGGGTC
* * *
37966714 AAAATGGAGTTTTTGGAAGTTTGGGGGT-AAAATGGTAATTTTTAAAAGTTTTAGGGGTC
1 AAAATGGAATTTTTGGAAGTTT-GGGGTAAAAATGG-AATTTTTGAAAG-TTTACGGGTC
* * *
37966773 AAAAATGGAATTTTTGGAAATTTGGGGTAAAAATGGAAGTTTTGGAAGTTTGA-GGGT-
1 -AAAATGGAATTTTTGGAAGTTTGGGGTAAAAATGGAATTTTTGAAAGTTT-ACGGGTC
* * *
37966830 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATGGAATTTTTG
1 AAAATGGAATTTTTGGAAG-TTTGGGGTAAAAATGGAATTTTTG
37966874 GAAATTTCAG
Statistics
Matches: 136, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
55 3 0.02
56 31 0.23
57 45 0.33
58 10 0.07
59 20 0.15
60 27 0.20
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (57 bp):
AAAATGGAATTTTTGGAAGTTTGGGGTAAAAATGGAATTTTTGAAAGTTTACGGGTC
Found at i:37966777 original size:116 final size:116
Alignment explanation
Indices: 37966655--37966872 Score: 289
Period size: 116 Copynumber: 1.9 Consensus size: 116
37966645 AAAATCGGGA
** * *
37966655 TCAAAAATGGAATTTTTGGGCACTCGGGGT-AAAATGGTAATTTTTGAAAGTTT-CGGGTCAAAA
1 TCAAAAATGGAATTTTTGGAAACTCGGGGTAAAAATGG-AAGTTTTGAAAGTTTGAGGGT-AAAA
* *
37966718 TGGAGTTTTTGGAAGTTTGGGGGT-AAAATGGTAATTTTTAAAAGTTTTAGGGG
64 TGGAATTTTTGGAAGTTTGAGGGTCAAAATGG-AATTTTTAAAAGTTTTAGGGG
* * *
37966771 TCAAAAATGGAATTTTTGGAAATTTGGGGTAAAAATGGAAGTTTTGGAAGTTTGAGGGTAAAATG
1 TCAAAAATGGAATTTTTGGAAACTCGGGGTAAAAATGGAAGTTTTGAAAGTTTGAGGGTAAAATG
* *
37966836 TAATTTTTGGAAGTTTTAGGGTCAAAATGGAATTTTT
66 GAATTTTTGGAAGTTTGAGGGTCAAAATGGAATTTTT
37966873 GGAAATTTCA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 70 0.80
117 18 0.20
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (116 bp):
TCAAAAATGGAATTTTTGGAAACTCGGGGTAAAAATGGAAGTTTTGAAAGTTTGAGGGTAAAATG
GAATTTTTGGAAGTTTGAGGGTCAAAATGGAATTTTTAAAAGTTTTAGGGG
Found at i:37966785 original size:88 final size:85
Alignment explanation
Indices: 37966681--37966902 Score: 288
Period size: 88 Copynumber: 2.6 Consensus size: 85
37966671 TGGGCACTCG
* *
37966681 GGGT-AAAATGGTAATTTTT-GAAAGTTTCGGGTCAAAATGG-AGTTTTTGGAAGTTTGGGGGTA
1 GGGTCAAAATGG-AATTTTTGGAAA-TTTCGGGTAAAAATGGAAG-TTTTGGAAGTTTGAGGGTA
37966743 AAATGGTAATTTTTAAAAGTTTTA
63 AAAT-GTAATTTTTAAAAGTTTTA
*
37966767 GGGGTCAAAAATGGAATTTTTGGAAATTTGGGGTAAAAATGGAAGTTTTGGAAGTTTGAGGGTAA
1 -GGGTC-AAAATGGAATTTTTGGAAATTTCGGGTAAAAATGGAAGTTTTGGAAGTTTGAGGGTAA
**
37966832 AATGTAATTTTTGGAAGTTTTA
64 AATGTAATTTTTAAAAGTTTTA
* * *
37966854 GGGTCAAAATGGAATTTTTGGAAATTTCAGAGTAAAAATGTAATTTTTG
1 GGGTCAAAATGGAATTTTTGGAAATTTC-GGGTAAAAATGGAAGTTTTG
37966903 AACAGTTTAG
Statistics
Matches: 121, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
85 22 0.18
86 22 0.18
87 21 0.17
88 43 0.36
89 13 0.11
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.37
Consensus pattern (85 bp):
GGGTCAAAATGGAATTTTTGGAAATTTCGGGTAAAAATGGAAGTTTTGGAAGTTTGAGGGTAAAA
TGTAATTTTTAAAAGTTTTA
Found at i:37966876 original size:57 final size:57
Alignment explanation
Indices: 37966680--37966902 Score: 231
Period size: 57 Copynumber: 3.9 Consensus size: 57
37966670 TTGGGCACTC
* * * *
37966680 GGGGTAAAATGGTAATTTTTGAAAGTTTCGGGTCAAAATGGAGTTTTTGGAAGTTTG
1 GGGGTAAAATGGTAATTTTTGAAAGTTTAGGGTAAAAATGGAATTTTTGGAAGTTTT
* *
37966737 GGGGTAAAATGGTAATTTTTAAAAGTTTTAGGGGTCAAAAATGGAATTTTTGGAA-ATTT
1 GGGGTAAAATGGTAATTTTTGAAAG-TTTA-GGGT-AAAAATGGAATTTTTGGAAGTTTT
* * *
37966796 GGGGTAAAAATGG-AAGTTTTGGAAGTTTGAGGGT-AAAATGTAATTTTTGGAAGTTTT
1 GGGGT-AAAATGGTAATTTTTGAAAGTTT-AGGGTAAAAATGGAATTTTTGGAAGTTTT
* * *
37966853 AGGGTCAAAATGG-AATTTTTGGAAA-TTTCAGAGTAAAAATGTAATTTTTG
1 GGGGT-AAAATGGTAATTTTT-GAAAGTTT-AGGGTAAAAATGGAATTTTTG
37966903 AACAGTTTAG
Statistics
Matches: 141, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
56 17 0.12
57 51 0.36
58 28 0.20
59 21 0.15
60 24 0.17
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTTGAAAGTTTAGGGTAAAAATGGAATTTTTGGAAGTTTT
Found at i:37968736 original size:17 final size:17
Alignment explanation
Indices: 37968700--37968778 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
37968690 TTTGGACATT
* *
37968700 AATTTAATTTTAAATTTA
1 AATTTAAATTTAAA-ATA
* **
37968718 AATTTAAATTTTATGTA
1 AATTTAAATTTAAAATA
*
37968735 AATTTTAATTTAAAATA
1 AATTTAAATTTAAAATA
*
37968752 AATTTAACTTTAAAATA
1 AATTTAAATTTAAAATA
37968769 AATTTAAATT
1 AATTTAAATT
37968779 CTGTTGGGCC
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
17 39 0.78
18 11 0.22
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:37968765 original size:12 final size:12
Alignment explanation
Indices: 37968700--37968778 Score: 74
Period size: 11 Copynumber: 6.8 Consensus size: 12
37968690 TTTGGACATT
*
37968700 AATTTAATTTTA
1 AATTTAAATTTA
37968712 AATTTAAATTTA
1 AATTTAAATTTA
* *
37968724 AATTT-TATGTA
1 AATTTAAATTTA
*
37968735 AATTTTAATTTA
1 AATTTAAATTTA
*
37968747 AA-ATAAATTTA
1 AATTTAAATTTA
* *
37968758 ACTTTAAA-ATA
1 AATTTAAATTTA
37968769 AATTTAAATT
1 AATTTAAATT
37968779 CTGTTGGGCC
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
11 26 0.50
12 26 0.50
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
AATTTAAATTTA
Found at i:37968776 original size:6 final size:6
Alignment explanation
Indices: 37968700--37968778 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
37968690 TTTGGACATT
* * * *
37968700 AATTTA ATTTTA AATTTA AATTTA AATTT- TATGTA AATTTT AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
37968747 AA-ATA AATTTA ACTTTA AA-ATA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
37968779 CTGTTGGGCC
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
5 11 0.20
6 45 0.80
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (6 bp):
AATTTA
Found at i:37970270 original size:22 final size:21
Alignment explanation
Indices: 37970229--37970270 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
37970219 TAAAAATAAA
*
37970229 ATATTAATTTTTTTTGAATTT
1 ATATTAATTTTTTATGAATTT
37970250 ATATTATATATTTTTAT-AATT
1 ATATTA-AT-TTTTTATGAATT
37970271 AATTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATATTAATTTTTTATGAATTT
Found at i:37971139 original size:16 final size:16
Alignment explanation
Indices: 37971118--37971149 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37971108 AAAATTAAAT
*
37971118 ATTTTTTTAAAATATA
1 ATTTTTTAAAAATATA
37971134 ATTTTTTAAAAATATA
1 ATTTTTTAAAAATATA
37971150 TTAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTTTAAAAATATA
Found at i:37973588 original size:11 final size:11
Alignment explanation
Indices: 37973574--37973621 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
37973564 ATATCTAAAC
37973574 AATAATAACAA
1 AATAATAACAA
*
37973585 AATAATAGCAA
1 AATAATAACAA
* *
37973596 TATAATAACGA
1 AATAATAACAA
**
37973607 AATGGTAACAA
1 AATAATAACAA
37973618 AATA
1 AATA
37973622 GTTGCAAAAC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.21
Consensus pattern (11 bp):
AATAATAACAA
Found at i:37976899 original size:76 final size:73
Alignment explanation
Indices: 37976750--37976912 Score: 204
Period size: 77 Copynumber: 2.2 Consensus size: 73
37976740 TATATACATA
** *
37976750 CTATATATATATATAAAAGTTAAGGAAGTGGAATACGTGGTGAATATACATACTATGTATAAAAA
1 CTATATATATATATAAAAGTTAAGGAAACGGAATACGAGGTGAATATACATACTA-GTATAAAAA
37976815 AAATTCTAG
65 AAATTCTAG
*
37976824 CTATATATATATATAAAAAGTTAAGGAAACGGAATATATGAGGTGAGTATATACATACTA-TATA
1 CTATATATATATAT-AAAAGTTAAGGAAACGG-A-ATACGAGGTGA--ATATACATACTAGTATA
*
37976888 TAAAAAA-TCTAG
61 AAAAAAATTCTAG
*
37976900 CCATATATATATA
1 CTATATATATATA
37976913 AGTTAAGGAA
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
74 14 0.18
75 15 0.19
76 18 0.23
77 19 0.24
79 12 0.15
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.31
Consensus pattern (73 bp):
CTATATATATATATAAAAGTTAAGGAAACGGAATACGAGGTGAATATACATACTAGTATAAAAAA
AATTCTAG
Found at i:37977536 original size:18 final size:16
Alignment explanation
Indices: 37977504--37977554 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
37977494 ATTTATTTCG
*
37977504 AAAATAGAAATATATAT
1 AAAATA-AAAAATATAT
37977521 ATAAATATAAAAATATAT
1 A-AAATA-AAAAATATAT
37977539 AAAATAAATAAATATA
1 AAAATAAA-AAATATA
37977555 CAAATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 13 0.43
18 15 0.50
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATAAAAAATATAT
Found at i:37982949 original size:20 final size:21
Alignment explanation
Indices: 37982924--37982962 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
37982914 GACTTGAAAA
37982924 TAAATATAATTAA-TTTTATT
1 TAAATATAATTAAGTTTTATT
37982944 TAAATATAATTAAGTTTTA
1 TAAATATAATTAAGTTTTA
37982963 ATTATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
TAAATATAATTAAGTTTTATT
Found at i:37985610 original size:15 final size:13
Alignment explanation
Indices: 37985592--37985636 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
37985582 CAGCAGCAGC
37985592 AGCAGCCACAACAA
1 AGCAGCCACAAC-A
37985606 GAGCAGCCACAAC-
1 -AGCAGCCACAACA
37985619 AGCAGCCACAAC-
1 AGCAGCCACAACA
37985631 AGCAGC
1 AGCAGC
37985637 TGCCGCGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.60
15 12 0.40
ACGTcount: A:0.42, C:0.38, G:0.20, T:0.00
Consensus pattern (13 bp):
AGCAGCCACAACA
Found at i:38003773 original size:41 final size:40
Alignment explanation
Indices: 38003728--38003812 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
38003718 TATTTTTAAT
*
38003728 GGCGTTTGGACAGAAAACGCCACAAAAGGTAAAGCAATAGC
1 GGCGTTTGGACA-AAAACGCCACAAAAGGTAAAGAAATAGC
** * * *
38003769 GGCGTTTTTACATAAACGCCGCAAAAGGTAGAGAAATAGC
1 GGCGTTTGGACAAAAACGCCACAAAAGGTAAAGAAATAGC
38003809 GGCG
1 GGCG
38003813 CTTATGGGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 28 0.74
41 10 0.26
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (40 bp):
GGCGTTTGGACAAAAACGCCACAAAAGGTAAAGAAATAGC
Found at i:38003855 original size:41 final size:41
Alignment explanation
Indices: 38003785--38004081 Score: 368
Period size: 41 Copynumber: 7.3 Consensus size: 41
38003775 TTTACATAAA
* * *
38003785 CGCCGCAAAAGGT-AGAGAAATAGCGGCGCTTATGGGAAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
* * * * *
38003825 CGCTGCTAAAGGTTAGAGCAATAGCAGCGCTTATGGGAAAA
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
* *
38003866 CGCCGCTAAAGGTCAGAGCAATAGCAGTGCTTATGGGCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
*
38003907 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTGGGCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
* * *
38003948 CGCCACTAAAGGTTAGAGCAATAGCGACGCTTATGTGG--AG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATG-GGCAAG
38003988 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
* * * *
38004029 TGTCGCTAAAGGTCAAAGCAATAGCGGCGTTTATGGTAG-AAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGG--GCAAG
*
38004071 TGCCGCTAAAG
1 CGCCGCTAAAG
38004082 ACCATGTTCT
Statistics
Matches: 226, Mismatches: 25, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 45 0.20
41 163 0.72
42 15 0.07
43 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (41 bp):
CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
Found at i:38004025 original size:122 final size:122
Alignment explanation
Indices: 38003785--38004064 Score: 395
Period size: 122 Copynumber: 2.3 Consensus size: 122
38003775 TTTACATAAA
* * **
38003785 CGCCGCAAAAGGT-AGAGAAATAGCGGCGCTTATGGGAAAGCGCTGCTAAAGGTTAGAGCAATAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCACTAAAGGTTAGAGCAATAG
*
38003849 CAGCGCTTATGGGAAAACGCCGCTAAAGGTCAGAGCAATAGCAGTGCTTATGGGCAAG
66 CAGCGCTTATGGG-AAACGCCGCTAAAGGTCAGAGCAATAGCAGCGCTTATGGGCAAG
* *
38003907 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTGGGCAAGCGCCACTAAAGGTTAGAGCAATAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCACTAAAGGTTAGAGCAATAG
* *
38003972 C-GACGCTTATGTGG-AGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGCAAG
66 CAG-CGCTTATG-GGAAACGCCGCTAAAGGTCAGAGCAATAGCAGCGCTTATGGGCAAG
* * * *
38004029 TGTCGCTAAAGGTCAAAGCAATAGCGGCGTTTATGG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGG
38004065 TAGAAGTGCC
Statistics
Matches: 141, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
122 84 0.60
123 55 0.39
124 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (122 bp):
CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCACTAAAGGTTAGAGCAATAG
CAGCGCTTATGGGAAACGCCGCTAAAGGTCAGAGCAATAGCAGCGCTTATGGGCAAG
Found at i:38007865 original size:23 final size:23
Alignment explanation
Indices: 38007849--38007905 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
38007839 TTTAATTTTT
*
38007849 TAAAAATTATATTTTTATTATCA
1 TAAAAATTATATTTTTATTATTA
*
38007872 TAAAAATTATATTTTTATTATAA
1 TAAAAATTATATTTTTATTATTA
38007895 TAAAAATTATA
1 TAAAAATTATA
38007906 ATTTAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATTATATTTTTATTATTA
Found at i:38009091 original size:16 final size:16
Alignment explanation
Indices: 38009070--38009100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38009060 CATGTTAGAG
38009070 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
38009086 CATATATATTTGAAA
1 CATATAAATTTGAAA
38009101 ACTTTTTCAA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:38009294 original size:19 final size:20
Alignment explanation
Indices: 38009270--38009315 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38009260 TTATAAATAA
38009270 TTTGAA-ATTTAAAAATTAT
1 TTTGAATATTTAAAAATTAT
* *
38009289 TTTGAATTTTTGAAAATTAT
1 TTTGAATATTTAAAAATTAT
38009309 TTTGAAT
1 TTTGAAT
38009316 TTTTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTGAATATTTAAAAATTAT
Found at i:38009306 original size:20 final size:20
Alignment explanation
Indices: 38009281--38009319 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
38009271 TTGAAATTTA
38009281 AAAATTATTTTGAATTTTTG
1 AAAATTATTTTGAATTTTTG
38009301 AAAATTATTTTGAATTTTT
1 AAAATTATTTTGAATTTTT
38009320 TTTATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
AAAATTATTTTGAATTTTTG
Found at i:38014515 original size:20 final size:20
Alignment explanation
Indices: 38014476--38014529 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
38014466 AGTCTTCAAG
* * *
38014476 GTATCGATAGAACTGTAGTT
1 GTATCGGTAGAAGTGGAGTT
38014496 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
* *
38014516 CTACCGGTAGAAGT
1 GTATCGGTAGAAGT
38014530 CTAACTGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:38015224 original size:21 final size:21
Alignment explanation
Indices: 38015199--38015242 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38015189 TTTATAAATA
*
38015199 ATTTTT-TTAAATAA-ACTTTT
1 ATTTTTATAAAATAATA-TTTT
38015219 ATTTTTATAAAATAATATTTT
1 ATTTTTATAAAATAATATTTT
38015240 ATT
1 ATT
38015243 ATATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 14 0.67
22 1 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTATAAAATAATATTTT
Found at i:38015470 original size:15 final size:17
Alignment explanation
Indices: 38015452--38015483 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38015442 TGTATATCGA
38015452 ATTATT-AT-ATATTAT
1 ATTATTAATAATATTAT
38015467 ATTATTAATAATATTAT
1 ATTATTAATAATATTAT
38015484 CGAATTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTAATAATATTAT
Found at i:38017045 original size:21 final size:22
Alignment explanation
Indices: 38017002--38017045 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
38016992 TCCAAAATAC
*
38017002 TATTTAATTATATATAGATAAT
1 TATTTAATTATATATAGAAAAT
38017024 TATTTAA-TATATA-AGAGAAAT
1 TATTTAATTATATATAGA-AAAT
38017045 T
1 T
38017046 TTAACTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 10 0.50
22 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TATTTAATTATATATAGAAAAT
Found at i:38017099 original size:9 final size:9
Alignment explanation
Indices: 38017085--38017109 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38017075 CTATTAATTT
38017085 ATTTTTTTA
1 ATTTTTTTA
38017094 ATTTTTTTA
1 ATTTTTTTA
38017103 ATTTTTT
1 ATTTTTT
38017110 AAATACAATT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:38022116 original size:14 final size:14
Alignment explanation
Indices: 38022093--38022122 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38022083 TTCGTATGTG
*
38022093 TGTGCGTGCGTGCA
1 TGTGCATGCGTGCA
38022107 TGTGCATGCGTGCA
1 TGTGCATGCGTGCA
38022121 TG
1 TG
38022123 GATGGATGGA
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:0.10, C:0.20, G:0.40, T:0.30
Consensus pattern (14 bp):
TGTGCATGCGTGCA
Found at i:38029275 original size:17 final size:18
Alignment explanation
Indices: 38029242--38029280 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
38029232 AAAACGTCGT
*
38029242 ATAA-AATATTATACAAC
1 ATAATAATAATATACAAC
38029259 ATAATAATAATAT-CAAC
1 ATAATAATAATATACAAC
38029276 ATAAT
1 ATAAT
38029281 GAGAAGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATAATAATATACAAC
Found at i:38033388 original size:8 final size:7
Alignment explanation
Indices: 38033373--38033435 Score: 64
Period size: 8 Copynumber: 9.3 Consensus size: 7
38033363 CATTTTCTTA
38033373 TTAAATT
1 TTAAATT
38033380 TTGAAATT
1 TT-AAATT
38033388 TT-AA-T
1 TTAAATT
38033393 TTAAATT
1 TTAAATT
38033400 TTGAAATT
1 TT-AAATT
38033408 TT-AA-T
1 TTAAATT
38033413 TTAAATT
1 TTAAATT
38033420 TTGAAATT
1 TT-AAATT
38033428 TT-AATT
1 TTAAATT
38033434 TT
1 TT
38033436 GGTTCAGAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
5 6 0.12
6 14 0.29
7 8 0.16
8 21 0.43
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (7 bp):
TTAAATT
Found at i:38033398 original size:20 final size:20
Alignment explanation
Indices: 38033373--38033434 Score: 124
Period size: 20 Copynumber: 3.1 Consensus size: 20
38033363 CATTTTCTTA
38033373 TTAAATTTTGAAATTTTAAT
1 TTAAATTTTGAAATTTTAAT
38033393 TTAAATTTTGAAATTTTAAT
1 TTAAATTTTGAAATTTTAAT
38033413 TTAAATTTTGAAATTTTAAT
1 TTAAATTTTGAAATTTTAAT
38033433 TT
1 TT
38033435 TGGTTCAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTAAATTTTGAAATTTTAAT
Found at i:38033407 original size:14 final size:14
Alignment explanation
Indices: 38033373--38033436 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
38033363 CATTTTCTTA
38033373 TTAAATTTTGAAAT
1 TTAAATTTTGAAAT
*
38033387 TTTAA-TTT-AAATT
1 TTAAATTTTGAAA-T
38033400 TTGAAATTTT--AAT
1 TT-AAATTTTGAAAT
38033413 TTAAATTTTGAAAT
1 TTAAATTTTGAAAT
*
38033427 TTTAATTTTG
1 TTAAATTTTG
38033437 GTTCAGAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
12 10 0.24
13 9 0.21
14 20 0.48
15 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TTAAATTTTGAAAT
Found at i:38033435 original size:6 final size:6
Alignment explanation
Indices: 38033384--38033435 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
38033374 TAAATTTTGA
* *
38033384 AATTTT AATTTA AATTTT GAAATTTT AATTTA AATTTT GAAATTTT AATTTT
1 AATTTT AATTTT AATTTT --AATTTT AATTTT AATTTT --AATTTT AATTTT
38033436 GGTTCAGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 26 0.68
8 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (6 bp):
AATTTT
Found at i:38040954 original size:27 final size:29
Alignment explanation
Indices: 38040924--38040978 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
38040914 AATTTGATCA
* *
38040924 AATT-AATCTTT-TATTATTAAATAAATC
1 AATTAAATCTTTGTACTATTAAAAAAATC
38040951 AATTAAATCTTTGTACTATTAAAAAAAT
1 AATTAAATCTTTGTACTATTAAAAAAAT
38040979 AAAATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 7 0.29
29 13 0.54
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (29 bp):
AATTAAATCTTTGTACTATTAAAAAAATC
Found at i:38042835 original size:120 final size:120
Alignment explanation
Indices: 38042595--38042980 Score: 483
Period size: 123 Copynumber: 3.2 Consensus size: 120
38042585 TTTTTGCGGA
* ** * *
38042595 GAAGCTGCAGCAGTTTGAGATTGAGGAGCCGCCGTCGTCATTGGTGGTTTAGGCTCAGTTACAGC
1 GAAGCTACAGCAGTTTGAGCCTGAGGAACCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGC
* *
38042660 C-TT--TGGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCGATACCGGAGGCT
66 CTTTGGTGGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAACACCGGAGGCT
* * *
38042712 GAAGCTACAGTAGTTTGGGCCTGAGGAACCGCCGTCGCCATTTGTGGTTTAGGCTCAGTTACAGC
1 GAAGCTACAGCAGTTTGAGCCTGAGGAACCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGC
*
38042777 CTTTGGTGGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAACACCGGAGGTT
66 CTTTGGTGGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAACACCGGAGGCT
* * * * * *
38042832 GAAGGTAGAGCAGTTTGATCCTGAGGAGGAGCCGTCGTCGCCATTGGTGGTTTAGGCTCAGATGC
1 GAAGCTACAGCAGTTTGAGCCTGAGGA--A-CCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTAC
* * * * * * *
38042897 AGACTTCGGTGGAGGTGACGGTACTTTTTGGCCTCTCTGTTTTTCCACAGCGGAGGCT
63 AGCCTTTGGTGGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAACACCGGAGGCT
*
38042955 GAAGC-AGCAGCAGGTTGAGCCTGAGG
1 GAAGCTA-CAGCAGTTTGAGCCTGAGG
38042981 TGGAGAAGGG
Statistics
Matches: 230, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
117 58 0.25
118 2 0.01
120 68 0.30
122 2 0.01
123 100 0.43
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (120 bp):
GAAGCTACAGCAGTTTGAGCCTGAGGAACCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGC
CTTTGGTGGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAACACCGGAGGCT
Found at i:38057550 original size:12 final size:12
Alignment explanation
Indices: 38057533--38057557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38057523 AGTTATCCAC
38057533 TGGCTAAAGTTT
1 TGGCTAAAGTTT
38057545 TGGCTAAAGTTT
1 TGGCTAAAGTTT
38057557 T
1 T
38057558 TGATTCATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TGGCTAAAGTTT
Found at i:38065118 original size:12 final size:12
Alignment explanation
Indices: 38065101--38065131 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38065091 TTTTGAACTT
38065101 TTTTATTTTATA
1 TTTTATTTTATA
*
38065113 TTTTATTTTATT
1 TTTTATTTTATA
38065125 TTTTATT
1 TTTTATT
38065132 CTAGTCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:38068103 original size:76 final size:76
Alignment explanation
Indices: 38068012--38068167 Score: 224
Period size: 76 Copynumber: 2.1 Consensus size: 76
38068002 AACCACTTAA
* * **
38068012 TTAAGAATTTTCAAGTTAAATCAATTCAAGGAAAAATAAGTTTTT-TTAGTTGCATTTATCTCAA
1 TTAAGAATTCTCAAGTTAAATCAATTCAAGGAAAAATAAGTTTTTGTT-GTTACATAAATCTCAA
38068076 ATATTTTCCTTT
65 ATATTTTCCTTT
* * * *
38068088 TTAAGAATTCTCAAGTTAAATCAATTTAAGGAAAGATATGTTTTTGTTGTTATATAAATCTCAAA
1 TTAAGAATTCTCAAGTTAAATCAATTCAAGGAAAAATAAGTTTTTGTTGTTACATAAATCTCAAA
38068153 TATTTTCCTTT
66 TATTTTCCTTT
38068164 TTAA
1 TTAA
38068168 ATTTTACCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 69 0.97
77 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (76 bp):
TTAAGAATTCTCAAGTTAAATCAATTCAAGGAAAAATAAGTTTTTGTTGTTACATAAATCTCAAA
TATTTTCCTTT
Found at i:38074794 original size:13 final size:13
Alignment explanation
Indices: 38074776--38074800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38074766 TGATCAACTA
38074776 AAATTAAATTAAT
1 AAATTAAATTAAT
38074789 AAATTAAATTAA
1 AAATTAAATTAA
38074801 AATTAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTAAATTAAT
Found at i:38075286 original size:29 final size:30
Alignment explanation
Indices: 38075214--38075287 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
38075204 ATAAAATTCA
*
38075214 AAATTAT--ACATGAACTTTAATTTAATGTG
1 AAATTATACACATGAACTTTAATTT-AGGTG
* *
38075243 AAATTGTATACATGAACTTTAATTT-GGT-
1 AAATTATACACATGAACTTTAATTTAGGTG
38075271 ATAATTATACACATGAA
1 A-AATTATACACATGAA
38075288 ATTCTATTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 1 0.03
29 21 0.55
31 16 0.42
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (30 bp):
AAATTATACACATGAACTTTAATTTAGGTG
Found at i:38082055 original size:12 final size:12
Alignment explanation
Indices: 38082038--38082077 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
38082028 AGGTTTCTTT
38082038 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
38082050 TTTTCTTTTTCC
1 TTTTCTTTTTTC
* *
38082062 TTTTTTTTTTTG
1 TTTTCTTTTTTC
38082074 TTTT
1 TTTT
38082078 GGTAATTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:38082064 original size:19 final size:19
Alignment explanation
Indices: 38082031--38082077 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
38082021 AGGAAAGAGG
*
38082031 TTTCTTTTTTTCTTTTTTCT
1 TTTC-TTTTTCCTTTTTTCT
*
38082051 TTTCTTTTTCCTTTTTTTT
1 TTTCTTTTTCCTTTTTTCT
*
38082070 TTTGTTTT
1 TTTCTTTT
38082078 GGTAATTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTCTTTTTCCTTTTTTCT
Found at i:38093124 original size:5 final size:5
Alignment explanation
Indices: 38093111--38093163 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
38093101 CTGCGAAGCC
* *
38093111 AAAAG AAAAT AAAAG AACAA- AAATG AAAAAG AAAAG AAAAG AAAAG -AAAG
1 AAAAG AAAAG AAAAG AA-AAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG
38093161 AAA
1 AAA
38093164 GTGAAAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 5 0.12
5 29 0.73
6 6 0.15
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:38093162 original size:14 final size:14
Alignment explanation
Indices: 38093112--38093186 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
38093102 TGCGAAGCCA
*
38093112 AAAGAAAATAAAAG
1 AAAGAAAAGAAAAG
38093126 AACA-AAAATGAAAAAG
1 AA-AGAAAA-G-AAAAG
38093142 AAAAGAAAAGAAAAG
1 -AAAGAAAAGAAAAG
*
38093157 AAAG-AAAGTGAAAG
1 AAAGAAAAG-AAAAG
*
38093171 AATGAAAGAGAAAAG
1 AAAGAAA-AGAAAAG
38093186 A
1 A
38093187 CCAATTGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
13 4 0.08
14 17 0.35
15 13 0.27
16 9 0.18
17 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.05
Consensus pattern (14 bp):
AAAGAAAAGAAAAG
Found at i:38093269 original size:18 final size:17
Alignment explanation
Indices: 38093237--38093270 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38093227 GGCGTGAAAA
*
38093237 CAAAATTGGCTTAAATG
1 CAAAATTGCCTTAAATG
38093254 CAAAATTGACCTTAAAT
1 CAAAATTG-CCTTAAAT
38093271 TGTACTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (17 bp):
CAAAATTGCCTTAAATG
Found at i:38094969 original size:27 final size:25
Alignment explanation
Indices: 38094929--38094982 Score: 90
Period size: 27 Copynumber: 2.1 Consensus size: 25
38094919 TTAAAGAAAA
38094929 AAGATGAGAAAAGTGGTAGTGGATG
1 AAGATGAGAAAAGTGGTAGTGGATG
38094954 AAGATGAGGAATAAGTGGTAGTGGATG
1 AAGATGA-GAA-AAGTGGTAGTGGATG
38094981 AA
1 AA
38094983 AAAGGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 7 0.26
26 3 0.11
27 17 0.63
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (25 bp):
AAGATGAGAAAAGTGGTAGTGGATG
Found at i:38096055 original size:16 final size:19
Alignment explanation
Indices: 38096036--38096076 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
38096026 TTACATTTAC
38096036 AAATA-TAT-AAAAT-AAT
1 AAATATTATAAAAATAAAT
38096052 AAATCATTATAAAAATAAAT
1 AAAT-ATTATAAAAATAAAT
38096072 AAATA
1 AAATA
38096077 ATTTAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 1 0.05
18 3 0.14
19 6 0.29
20 7 0.33
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATATTATAAAAATAAAT
Found at i:38112992 original size:20 final size:20
Alignment explanation
Indices: 38112967--38113006 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38112957 TTAAGCTAAC
*
38112967 TTTTAAGAGAAAAAAATCTT
1 TTTTAAGACAAAAAAATCTT
*
38112987 TTTTAAGACATAAAAATCTT
1 TTTTAAGACAAAAAAATCTT
38113007 CTCATATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
TTTTAAGACAAAAAAATCTT
Found at i:38123368 original size:17 final size:16
Alignment explanation
Indices: 38123348--38123390 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
38123338 TATTAAGAAT
38123348 ATAATTTTATTATTTTA
1 ATAATTTTATT-TTTTA
*
38123365 ATAATTTATATTTTTTT
1 ATAATTT-TATTTTTTA
38123382 ATAATTTTA
1 ATAATTTTA
38123391 AAGGTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTATTTTTTA
Found at i:38123932 original size:22 final size:23
Alignment explanation
Indices: 38123881--38123933 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
38123871 TTAATTTAAG
* *
38123881 TATTTT-ATAATTTATAAAATTT
1 TATTTTAATAATTGATAAAATTA
**
38123903 TAAATTAATAA-TGATAAAATTA
1 TATTTTAATAATTGATAAAATTA
38123925 TATTTTAAT
1 TATTTTAAT
38123934 CACTCAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTTAATAATTGATAAAATTA
Found at i:38133216 original size:22 final size:23
Alignment explanation
Indices: 38133191--38133235 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
38133181 GAATTAAAAA
38133191 TTATAATTAAT-TAAAAGAATTC
1 TTATAATTAATATAAAAGAATTC
*
38133213 TTATATTTAATGATAAAAGAATT
1 TTATAATTAAT-ATAAAAGAATT
38133236 ATTGGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
24 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (23 bp):
TTATAATTAATATAAAAGAATTC
Found at i:38143393 original size:31 final size:31
Alignment explanation
Indices: 38143353--38143411 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
38143343 AAAATAATAT
*
38143353 TGAATTATTCAAAAATTTTCATTTAAGTCAC
1 TGAACTATTCAAAAATTTTCATTTAAGTCAC
* * *
38143384 TGAACTATTCGAAAGTTTTTATTTAAGT
1 TGAACTATTCAAAAATTTTCATTTAAGT
38143412 TACTAAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (31 bp):
TGAACTATTCAAAAATTTTCATTTAAGTCAC
Found at i:38152549 original size:23 final size:23
Alignment explanation
Indices: 38152523--38152568 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38152513 TAGGAAGGGT
*
38152523 TAAAACAAAATTATTTATATTTA
1 TAAAACAAAATTATATATATTTA
* **
38152546 TAAAATAGTATTATATATATTTA
1 TAAAACAAAATTATATATATTTA
38152569 CAAGATGGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TAAAACAAAATTATATATATTTA
Found at i:38154402 original size:30 final size:29
Alignment explanation
Indices: 38154358--38154419 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
38154348 AGTTAATACA
*
38154358 ATTTTAAACTTAAAATTAAAAAGATTGAAT
1 ATTTGAAACTTAAAATTAAAAAGA-TGAAT
* *
38154388 ATTTGAAATTTAAAATTAGAAAGATGAAT
1 ATTTGAAACTTAAAATTAAAAAGATGAAT
38154417 ATT
1 ATT
38154420 AATTTTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (29 bp):
ATTTGAAACTTAAAATTAAAAAGATGAAT
Found at i:38155009 original size:21 final size:22
Alignment explanation
Indices: 38154976--38155017 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38154966 AGATAAAGCA
*
38154976 AGGGAAATGGAAGGAAAAGAGG
1 AGGGAAATCGAAGGAAAAGAGG
*
38154998 AGGG-AATCGAAGGGAAAGAG
1 AGGGAAATCGAAGGAAAAGAG
38155018 AACAAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.48, C:0.02, G:0.45, T:0.05
Consensus pattern (22 bp):
AGGGAAATCGAAGGAAAAGAGG
Found at i:38155797 original size:210 final size:210
Alignment explanation
Indices: 38155435--38156065 Score: 1138
Period size: 210 Copynumber: 3.0 Consensus size: 210
38155425 AGGTCAGGAA
38155435 GATGGTTTTATTAGTGAGAATGGTGATAATACGGTGCATGCAAAGAAACGAGGAAGGGGTAGGCC
1 GATGGTTTTATTAGTGAGAATGGTGATAATACGGTGCATGCAAAGAAACGAGGAAGGGGTAGGCC
* *
38155500 AAAGAAACAAGTTACCGAAAGTGAAGCCATTGAAGGGACAGATACAGATAAGAGTCGAAGAAGGG
66 AAGGAAACAAGTTACTGAAAGTGAAGCCATTGAAGGGACAGATACAGATAAGAGTCGAAGAAGGG
*
38155565 CGAAAAATGGGTCTTCGGGAATGAATGAGTCAGAAAATTTGGTTAAGCCCTTAAGGGTTCCCGAG
131 CGAAAAATGGGTCTTCGGGAATGAATGAGTCAGAAAATTTGGTTAAGCCCTTAAGGGTTCCCGGG
*
38155630 GAAGAAGAAGAACCT
196 GAAGAAGAAGAGCCT
*
38155645 GATGGTTTTATTAGCGAGAATGGTGATAATACGGTGCATGCAAAGAAACGAGGAAGGGGTAGGCC
1 GATGGTTTTATTAGTGAGAATGGTGATAATACGGTGCATGCAAAGAAACGAGGAAGGGGTAGGCC
38155710 AAGGAAACAAGTTACTGAAAGTGAAGCCATTGAAGGGACAGATACAGATAAGAGTCGAAGAAGGG
66 AAGGAAACAAGTTACTGAAAGTGAAGCCATTGAAGGGACAGATACAGATAAGAGTCGAAGAAGGG
* *
38155775 CGATAATTGGGTCTTCGGGAATGAATGAGTCAGAAAATTTGGTTAAGCCCTTAAGGGTTCCCGGG
131 CGAAAAATGGGTCTTCGGGAATGAATGAGTCAGAAAATTTGGTTAAGCCCTTAAGGGTTCCCGGG
38155840 GAAGAAGAAGAGCCT
196 GAAGAAGAAGAGCCT
* * *
38155855 GATGATTTTATTAGTGAGAGTGGTCATAATACGGTGCATGCAAAGAAACGAGGAAGGGGTAGGCC
1 GATGGTTTTATTAGTGAGAATGGTGATAATACGGTGCATGCAAAGAAACGAGGAAGGGGTAGGCC
*
38155920 AAGGAAACAAGTTACTGAAAGTGAAGCCATTGAAGGGAC-GTACACAGATAAGAGTCGAAGAAGG
66 AAGGAAACAAGTTACTGAAAGTGAAGCCATTGAAGGGACAG-ATACAGATAAGAGTCGAAGAAGG
*
38155984 GCGAAAAATGGGTCTTCGGGAATGAATGAGTCAGAAAATTTGGTTAAGCCTTTAAGGGTTCCCGG
130 GCGAAAAATGGGTCTTCGGGAATGAATGAGTCAGAAAATTTGGTTAAGCCCTTAAGGGTTCCCGG
38156049 GGAAGAAGAAGAGCCT
195 GGAAGAAGAAGAGCCT
38156065 G
1 G
38156066 TGCCTGGTTC
Statistics
Matches: 405, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
209 1 0.00
210 404 1.00
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (210 bp):
GATGGTTTTATTAGTGAGAATGGTGATAATACGGTGCATGCAAAGAAACGAGGAAGGGGTAGGCC
AAGGAAACAAGTTACTGAAAGTGAAGCCATTGAAGGGACAGATACAGATAAGAGTCGAAGAAGGG
CGAAAAATGGGTCTTCGGGAATGAATGAGTCAGAAAATTTGGTTAAGCCCTTAAGGGTTCCCGGG
GAAGAAGAAGAGCCT
Found at i:38170141 original size:6 final size:6
Alignment explanation
Indices: 38170106--38170152 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
38170096 CTCTTCCTCT
* * *
38170106 TCATCT TCATCC TCCTGC TCA-CC ATCATCC TCATCC TCATCC TCATC
1 TCATCC TCATCC TCATCC TCATCC -TCATCC TCATCC TCATCC TCATC
38170153 ATCGCCGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
5 1 0.03
6 31 0.91
7 2 0.06
ACGTcount: A:0.17, C:0.47, G:0.02, T:0.34
Consensus pattern (6 bp):
TCATCC
Found at i:38170150 original size:24 final size:24
Alignment explanation
Indices: 38170106--38170155 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
38170096 CTCTTCCTCT
* * *
38170106 TCATCTTCATCCTCCTGCTCACCA
1 TCATCCTCATCCTCATCCTCACCA
*
38170130 TCATCCTCATCCTCATCCTCATCA
1 TCATCCTCATCCTCATCCTCACCA
38170154 TC
1 TC
38170156 GCCGTCAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.02, T:0.34
Consensus pattern (24 bp):
TCATCCTCATCCTCATCCTCACCA
Found at i:38178227 original size:18 final size:17
Alignment explanation
Indices: 38178187--38178227 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
38178177 AAAAATAGCA
38178187 TAAATGCTTAACTTATC
1 TAAATGCTTAACTTATC
* *
38178204 TTAATGCTTAAACTTCTC
1 TAAATGCTT-AACTTATC
38178222 TAAATG
1 TAAATG
38178228 TTTTTCGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (17 bp):
TAAATGCTTAACTTATC
Found at i:38182294 original size:23 final size:22
Alignment explanation
Indices: 38182202--38182291 Score: 135
Period size: 22 Copynumber: 4.0 Consensus size: 22
38182192 AGGCAACAAT
38182202 AAGCACACACAGTGCTAAACAG
1 AAGCACACACAGTGCTAAACAG
38182224 AAGCACACACAGTGCTAAACAG
1 AAGCACACACAGTGCTAAACAG
38182246 AAGCACACACAGTGCTAAACAG
1 AAGCACACACAGTGCTAAACAG
* * * *
38182268 AGGGCACACATAGTGTTGAACAG
1 A-AGCACACACAGTGCTAAACAG
38182291 A
1 A
38182292 GGGAGCGCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
22 45 0.71
23 18 0.29
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.11
Consensus pattern (22 bp):
AAGCACACACAGTGCTAAACAG
Found at i:38191282 original size:57 final size:57
Alignment explanation
Indices: 38191213--38191327 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
38191203 GGAGAAGATA
38191213 TCTGACCTTGGTTAGGCATCACAAGATTTCTTGTTATGCTCTTTCAAAGAACTAAAT
1 TCTGACCTTGGTTAGGCATCACAAGATTTCTTGTTATGCTCTTTCAAAGAACTAAAT
38191270 TCTGACCTTGGTTAGGCATCACAAGATTTCTTGTTATGCTCTTTCAAAGAACTAAAT
1 TCTGACCTTGGTTAGGCATCACAAGATTTCTTGTTATGCTCTTTCAAAGAACTAAAT
38191327 T
1 T
38191328 TGGATTTTCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (57 bp):
TCTGACCTTGGTTAGGCATCACAAGATTTCTTGTTATGCTCTTTCAAAGAACTAAAT
Found at i:38196998 original size:15 final size:17
Alignment explanation
Indices: 38196977--38197017 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
38196967 AAACCCTTTA
38196977 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
38196993 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
38197009 AAAATTATA
1 AAAATTATA
38197018 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:38197252 original size:23 final size:25
Alignment explanation
Indices: 38197209--38197254 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38197199 TGTGCTAATC
38197209 AAATATATTCTATTATATTTATTCA
1 AAATATATTCTATTATATTTATTCA
*
38197234 AAATATATT-TTTTAT-TTTATT
1 AAATATATTCTATTATATTTATT
38197255 ATATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
AAATATATTCTATTATATTTATTCA
Found at i:38199809 original size:4 final size:4
Alignment explanation
Indices: 38199800--38199842 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
38199790 ACAACGGTAG
38199800 GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTG
1 GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTG
38199843 CACTCTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (4 bp):
GTGA
Found at i:38200008 original size:29 final size:29
Alignment explanation
Indices: 38199975--38200039 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
38199965 TATTTAAAAC
38199975 TTTTAAAAGATT-AAATCA-AATTTTTATCA
1 TTTTAAAAGATTAAAAT-ATAA-TTTTATCA
*
38200004 TTTTAAAAGGTTAAAATATAATTTTATCA
1 TTTTAAAAGATTAAAATATAATTTTATCA
38200033 TTATTAA
1 TT-TTAA
38200040 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTTAAAAGATTAAAATATAATTTTATCA
Found at i:38205647 original size:6 final size:6
Alignment explanation
Indices: 38205636--38205661 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38205626 GAAATTAAAT
38205636 GGGAAG GGGAAG GGGAAG GGGAAG GG
1 GGGAAG GGGAAG GGGAAG GGGAAG GG
38205662 TTGGGAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:38223728 original size:28 final size:28
Alignment explanation
Indices: 38223676--38223731 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
38223666 ATACTTTAAT
*
38223676 TTGGTCAATTGTATTCTTATATTTTTTA
1 TTGGTCAATTGTAATCTTATATTTTTTA
*
38223704 TTGGTCAATTTTAAT-TTATACTTTTTTA
1 TTGGTCAATTGTAATCTTATA-TTTTTTA
38223732 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (28 bp):
TTGGTCAATTGTAATCTTATATTTTTTA
Found at i:38226475 original size:18 final size:19
Alignment explanation
Indices: 38226440--38226477 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
38226430 CTAATAAAAT
*
38226440 ATTTGAATTGACTCGAATA
1 ATTTGAATTAACTCGAATA
*
38226459 ATTTG-ATTAACTTGAATA
1 ATTTGAATTAACTCGAATA
38226477 A
1 A
38226478 CTCGATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (19 bp):
ATTTGAATTAACTCGAATA
Found at i:38227025 original size:32 final size:32
Alignment explanation
Indices: 38226959--38227029 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
38226949 TTTTTAGACG
* * * **
38226959 TTGATTAGTACAAATCCTTGAAAAAAATGGGA
1 TTGATTAATACAAACCCATGAAAAAAATAAGA
*
38226991 TTGATTAATACAAACCCATGAAAAAATTAAGA
1 TTGATTAATACAAACCCATGAAAAAAATAAGA
38227023 TTGATTA
1 TTGATTA
38227030 GAAATTTAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (32 bp):
TTGATTAATACAAACCCATGAAAAAAATAAGA
Found at i:38227429 original size:17 final size:16
Alignment explanation
Indices: 38227385--38227429 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
38227375 CTCTTATCTA
38227385 AAATAATTTAAACTTG
1 AAATAATTTAAACTTG
*
38227401 AAACAATTTAAACTTG
1 AAATAATTTAAACTTG
*
38227417 GAATAACTTTAAA
1 AAATAA-TTTAAA
38227430 TCAAGACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (16 bp):
AAATAATTTAAACTTG
Found at i:38232695 original size:30 final size:29
Alignment explanation
Indices: 38232628--38232697 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
38232618 TATGGTTTAA
*
38232628 TGTCTAATTGTATACATGAACTTTGATTT
1 TGTCTAATTTTATACATGAACTTTGATTT
* *
38232657 TGTGTAATTTTATACATGAAATTTTGA-TT
1 TGTCTAATTTTATACATG-AACTTTGATTT
38232686 TGATCTAATTTT
1 TG-TCTAATTTT
38232698 TGTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (29 bp):
TGTCTAATTTTATACATGAACTTTGATTT
Found at i:38233783 original size:20 final size:20
Alignment explanation
Indices: 38233760--38233802 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38233750 ATGTTGATCG
*
38233760 ATGATGTGACATGTTAACTA
1 ATGATGTGACAAGTTAACTA
* *
38233780 ATGATGTGATAAGTTGACTA
1 ATGATGTGACAAGTTAACTA
38233800 ATG
1 ATG
38233803 TTGACCCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (20 bp):
ATGATGTGACAAGTTAACTA
Found at i:38233851 original size:16 final size:15
Alignment explanation
Indices: 38233819--38233862 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
38233809 CGTTAAAATC
38233819 ATTAAAAATATTAAAA
1 ATTAAAAAT-TTAAAA
*
38233835 ATTATAAAATTTTAAA
1 ATTA-AAAATTTAAAA
38233851 ATGTAAAAATTT
1 AT-TAAAAATTT
38233863 GTGAGAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
ATTAAAAATTTAAAA
Found at i:38234214 original size:21 final size:21
Alignment explanation
Indices: 38234188--38234229 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
38234178 TATAATAATT
*
38234188 TTTAATTTTTTTAAAAATTAA
1 TTTAATATTTTTAAAAATTAA
*
38234209 TTTAATATTTTTAAAATTTAA
1 TTTAATATTTTTAAAAATTAA
38234230 AAAATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAATATTTTTAAAAATTAA
Found at i:38234227 original size:9 final size:9
Alignment explanation
Indices: 38234184--38234292 Score: 53
Period size: 9 Copynumber: 11.7 Consensus size: 9
38234174 TTGTTATAAT
38234184 AATTTTTAA
1 AATTTTTAA
**
38234193 TTTTTTTAAA
1 AATTTTT-AA
38234203 AATTAATTTAA
1 AATT--TTTAA
*
38234214 TATTTTTAA
1 AATTTTTAA
*
38234223 AA-TTTAAA
1 AATTTTTAA
* *
38234231 AAATTAT-A
1 AATTTTTAA
*
38234239 TATTTTTAA
1 AATTTTTAA
*
38234248 CAATTTTTCA
1 -AATTTTTAA
38234258 AA-TTTTAA
1 AATTTTTAA
38234266 GAATTTTTTAA
1 -AA-TTTTTAA
38234277 GAATTTTTAA
1 -AATTTTTAA
*
38234287 TATTTT
1 AATTTT
38234293 AATATCTTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
8 17 0.23
9 23 0.31
10 18 0.24
11 14 0.19
12 3 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (9 bp):
AATTTTTAA
Found at i:38234274 original size:11 final size:11
Alignment explanation
Indices: 38234260--38234284 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38234250 ATTTTTCAAA
38234260 TTTTAAGAATT
1 TTTTAAGAATT
38234271 TTTTAAGAATT
1 TTTTAAGAATT
38234282 TTT
1 TTT
38234285 AATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTTAAGAATT
Found at i:38236610 original size:16 final size:15
Alignment explanation
Indices: 38236594--38236635 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
38236584 CATTATTAAT
38236594 TTAAAATTTTATAAA
1 TTAAAATTTTATAAA
* *
38236609 TTATAAATTATCTAAA
1 TTA-AAATTTTATAAA
38236625 TTAAAATTTTA
1 TTAAAATTTTA
38236636 CCATTTTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATTTTATAAA
Done.