Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 220 of 253
Found at i:72236523 original size:19 final size:20
Alignment explanation
Indices: 72236499--72236539 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
72236489 GAATTTAGGC
*
72236499 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
72236518 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
72236538 AA
1 AA
72236540 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:72245603 original size:41 final size:40
Alignment explanation
Indices: 72245557--72245656 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 40
72245547 TCGATCTCGA
* *
72245557 GTCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** * *
72245597 ATTCGATGAGGTACT-GG-GT-ACCGCTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
72245635 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
72245657 ACTTTGCTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.38
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:72251054 original size:28 final size:27
Alignment explanation
Indices: 72251012--72251088 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 27
72251002 TTATAGTAAT
* *
72251012 AAAAGAAAAAAAAAGAAAGACAAAAGCA
1 AAAAGAAAAAGAAAGAAAGA-AAAAGAA
*
72251040 AAAAGAAACAGAAAGAAAGAAAAAGAA
1 AAAAGAAAAAGAAAGAAAGAAAAAGAA
*
72251067 AAAGAGAAAGAGAAAGAAAGAA
1 AAA-AGAAAAAGAAAGAAAGAA
72251089 GAACCCACGG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.20
28 35 0.80
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (27 bp):
AAAAGAAAAAGAAAGAAAGAAAAAGAA
Found at i:72251064 original size:6 final size:6
Alignment explanation
Indices: 72251012--72251091 Score: 61
Period size: 6 Copynumber: 12.2 Consensus size: 6
72251002 TTATAGTAAT
* *
72251012 AAAAGAA AAAAAA AGAAAGA CAAAAGCA AAAAGA AACAGAA AGAAAGA
1 AAAAG-A AAAAGA A-AAAGA -AAAAG-A AAAAGA AAAAG-A A-AAAGA
* *
72251060 AAAAGA AAAAGA GAAAGA GAAAGA AAGAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA A
72251092 CCCACGGCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
6 30 0.49
7 26 0.43
8 5 0.08
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:72251074 original size:8 final size:7
Alignment explanation
Indices: 72251012--72251088 Score: 54
Period size: 7 Copynumber: 11.0 Consensus size: 7
72251002 TTATAGTAAT
72251012 AAAAGAA
1 AAAAGAA
72251019 AAAA-AA
1 AAAAGAA
*
72251025 AGAAAGAC
1 A-AAAGAA
*
72251033 AAAAGCA
1 AAAAGAA
72251040 AAAAG-A
1 AAAAGAA
*
72251046 AACAGAA
1 AAAAGAA
72251053 AGAAAG-A
1 A-AAAGAA
72251060 AAAAG-A
1 AAAAGAA
72251066 AAAAGAGA
1 AAAAGA-A
*
72251074 AAGAGAA
1 AAAAGAA
72251081 AGAAAGAA
1 A-AAAGAA
72251089 GAACCCACGG
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
6 18 0.32
7 22 0.39
8 16 0.29
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:72251515 original size:19 final size:20
Alignment explanation
Indices: 72251491--72251531 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
72251481 GAATTTAGGC
*
72251491 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
72251510 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
72251530 AA
1 AA
72251532 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:72253665 original size:17 final size:17
Alignment explanation
Indices: 72253626--72253669 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
72253616 TTTATTGCTC
*
72253626 TATTAACTAT-TAAAAT
1 TATTAAATATATAAAAT
72253642 T-TTAAATATATAAAAT
1 TATTAAATATATAAAAT
72253658 TATTAAATATAT
1 TATTAAATATAT
72253670 TTAAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAATATATAAAAT
Found at i:72253674 original size:19 final size:17
Alignment explanation
Indices: 72253633--72253676 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
72253623 CTCTATTAAC
72253633 TATTAAAATTTTAAATA
1 TATTAAAATTTTAAATA
72253650 TA-TAAAATTATTAAATA
1 TATTAAAATT-TTAAATA
72253667 TATTTAAAAT
1 TA-TTAAAAT
72253677 GAAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 11 0.46
19 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAAATTTTAAATA
Found at i:72255271 original size:142 final size:142
Alignment explanation
Indices: 72255015--72255301 Score: 556
Period size: 142 Copynumber: 2.0 Consensus size: 142
72255005 ACTCCCAACA
*
72255015 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAGCAATTACATC
1 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAACAATTACATC
72255080 TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
66 TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
72255145 CCCAATAAGCAT
131 CCCAATAAGCAT
72255157 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAACAATTACATC
1 CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAACAATTACATC
*
72255222 TCATCAAGTTGCTAGGGAAATTTTTATATATATGCATATATTATATTTAGACCTTAAGACTTGTA
66 TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
72255287 CCCAATAAGCAT
131 CCCAATAAGCAT
72255299 CAT
1 CAT
72255302 GGTTGGCCAT
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 143 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (142 bp):
CATATTCTCTCTAATGTTCGCCCAAACCTTCGAGAAGGAACACTATACATAGGAACAATTACATC
TCATCAAGTTGCTAGGGAAATTTTTATATATATACATATATTATATTTAGACCTTAAGACTTGTA
CCCAATAAGCAT
Found at i:72256090 original size:33 final size:33
Alignment explanation
Indices: 72256053--72256120 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
72256043 TCCTTTGTGT
72256053 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
72256086 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
1 TAGTACGAATAACATATAAGTTGTTCAAAGTAG
72256119 TA
1 TA
72256121 ATAGAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.31
Consensus pattern (33 bp):
TAGTACGAATAACATATAAGTTGTTCAAAGTAG
Found at i:72256212 original size:110 final size:110
Alignment explanation
Indices: 72256081--72256309 Score: 440
Period size: 110 Copynumber: 2.1 Consensus size: 110
72256071 AGTTGTTCAA
72256081 AGTAGTAGTACGAATAACATATAAGTTGTTCAAAGTAGTAATAGAAAGAAGTCCATCAAATAAAT
1 AGTAGTA-TACGAATAACATATAAGTTGTTCAAAGTAGTAATAGAAAGAAGTCCATCAAATAAAT
*
72256146 AAGGCCTTGCAAAGGAATTGCAAATAAGTTGCAATTATGGAAACCT
65 AAAGCCTTGCAAAGGAATTGCAAATAAGTTGCAATTATGGAAACCT
72256192 AGTAGTATACGAATAACATATAAGTTGTTCAAAGTAGTAATAGAAAGAAGTCCATCAAATAAATA
1 AGTAGTATACGAATAACATATAAGTTGTTCAAAGTAGTAATAGAAAGAAGTCCATCAAATAAATA
72256257 AAGCCTTGCAAAGGAATTGCAAATAAGTTGCAATTATGGAAACCT
66 AAGCCTTGCAAAGGAATTGCAAATAAGTTGCAATTATGGAAACCT
72256302 AGTAGTAT
1 AGTAGTAT
72256310 TGCAAAAGTT
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 110 0.94
111 7 0.06
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (110 bp):
AGTAGTATACGAATAACATATAAGTTGTTCAAAGTAGTAATAGAAAGAAGTCCATCAAATAAATA
AAGCCTTGCAAAGGAATTGCAAATAAGTTGCAATTATGGAAACCT
Found at i:72258993 original size:12 final size:12
Alignment explanation
Indices: 72258973--72259001 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
72258963 GGTTTTCTCA
72258973 AAAAT-TAAATG
1 AAAATGTAAATG
72258984 AAAATGTAAATG
1 AAAATGTAAATG
72258996 AAAATG
1 AAAATG
72259002 AGAAATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (12 bp):
AAAATGTAAATG
Found at i:72265173 original size:204 final size:206
Alignment explanation
Indices: 72264763--72265211 Score: 724
Period size: 204 Copynumber: 2.2 Consensus size: 206
72264753 AAATATGCTT
*
72264763 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * * *
72264828 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGTCAAATCATTTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTATAAGCACAAGAATGCCAAATCATCTT
* ** *
72264893 GGATCTTGTTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTAAAGTG
131 GGATCTTGCTTCAGTGAAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAGTG
72264958 GAGATGCCAGA
196 GAGATGCCAGA
* *
72264969 CTTCGATTCGTTCTGTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC-TAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
72265033 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTATAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTATAAGCACAAGAATGCCAAATCATCTT
*
72265098 GGATC-TGCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGT
131 GGATCTTGCTTCAGTGA-AAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAGT
72265161 GGAGATGCCAGA
195 GGAGATGCCAGA
*
72265173 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCA
72265212 GCTATGTCTT
Statistics
Matches: 224, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
203 1 0.00
204 99 0.44
205 69 0.31
206 55 0.25
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTATAAGCACAAGAATGCCAAATCATCTT
GGATCTTGCTTCAGTGAAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAGTG
GAGATGCCAGA
Found at i:72294639 original size:24 final size:25
Alignment explanation
Indices: 72294607--72294667 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
72294597 CGTAATGGAT
*
72294607 TAATTATTATATTGTTTTAATT-AA
1 TAATTATTATATTCTTTTAATTAAA
*
72294631 TAATTATTATATTCTTTTGATTAAA
1 TAATTATTATATTCTTTTAATTAAA
*
72294656 TAATTGTTATAT
1 TAATTATTATAT
72294668 ATAACATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 20 0.61
25 13 0.39
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (25 bp):
TAATTATTATATTCTTTTAATTAAA
Found at i:72297038 original size:15 final size:15
Alignment explanation
Indices: 72297008--72297036 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72296998 AATAATGTTT
72297008 TATTTCAATAATAAA
1 TATTTCAATAATAAA
72297023 TATTT-AATAATAAA
1 TATTTCAATAATAAA
72297037 ATGCGCCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTTCAATAATAAA
Found at i:72298129 original size:17 final size:18
Alignment explanation
Indices: 72298102--72298139 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
72298092 ATATTCAATT
*
72298102 TATGAAAAATTATTAAAA
1 TATGAAAAATTACTAAAA
72298120 TATG-AAAATTACTAAAA
1 TATGAAAAATTACTAAAA
72298137 TAT
1 TAT
72298140 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
TATGAAAAATTACTAAAA
Found at i:72298146 original size:19 final size:18
Alignment explanation
Indices: 72298025--72298147 Score: 72
Period size: 19 Copynumber: 6.4 Consensus size: 18
72298015 GAAAAAAAAG
72298025 ATAAAAATTATTAAA-AT
1 ATAAAAATTATTAAATAT
*
72298042 CAATAAAAA-TATTAAAAATT
1 --ATAAAAATTATTAAATA-T
* *
72298062 ATAGCAATATATATAGAAATAT
1 ATA--AAAAT-TAT-TAAATAT
* *
72298084 ATAAAAATATATTCAATTT
1 ATAAAAAT-TATTAAATAT
72298103 ATGAAAAATTATTAAA-AT
1 AT-AAAAATTATTAAATAT
* *
72298121 ATGAAAATTACTAAAATAT
1 ATAAAAATTA-TTAAATAT
72298140 ATAAAAAT
1 ATAAAAAT
72298148 ATATAATTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
17 7 0.09
18 17 0.21
19 29 0.35
20 18 0.22
22 7 0.09
23 4 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAAAAATTATTAAATAT
Found at i:72298148 original size:10 final size:10
Alignment explanation
Indices: 72298025--72298153 Score: 71
Period size: 10 Copynumber: 13.4 Consensus size: 10
72298015 GAAAAAAAAG
72298025 ATAAAAAT-T
1 ATAAAAATAT
*
72298034 ATTAAAATCA-
1 ATAAAAAT-AT
72298044 ATAAAAATAT
1 ATAAAAATAT
72298054 -TAAAAAT-T
1 ATAAAAATAT
*
72298062 ATAGCAATATAT
1 ATA--AAAATAT
*
72298074 ATAGAAATAT
1 ATAAAAATAT
72298084 ATAAAAATAT
1 ATAAAAATAT
** *
72298094 AT-TCAATTT
1 ATAAAAATAT
72298103 ATGAAAAAT-T
1 AT-AAAAATAT
*
72298113 AT-TAAA-AT
1 ATAAAAATAT
*
72298121 ATGAAAAT-T
1 ATAAAAATAT
72298130 ACT-AAAATAT
1 A-TAAAAATAT
72298140 ATAAAAATAT
1 ATAAAAATAT
72298150 ATAA
1 ATAA
72298154 TTTTTTTTAA
Statistics
Matches: 92, Mismatches: 13, Indels: 29
0.69 0.10 0.22
Matches are distributed among these distances:
8 7 0.08
9 34 0.37
10 40 0.43
11 7 0.08
12 4 0.04
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:72298177 original size:16 final size:16
Alignment explanation
Indices: 72298156--72298186 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72298146 ATATATAATT
*
72298156 TTTTTTAATAATATAA
1 TTTTTTAAAAATATAA
72298172 TTTTTTAAAAATATA
1 TTTTTTAAAAATATA
72298187 TATAAAATTT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTTAAAAATATAA
Found at i:72298187 original size:18 final size:18
Alignment explanation
Indices: 72298141--72298188 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
72298131 CTAAAATATA
72298141 TAAAAATATATAATTTTT
1 TAAAAATATATAATTTTT
**
72298159 T-TTAATAATATAATTTTT
1 TAAAAAT-ATATAATTTTT
72298177 TAAAAATATATA
1 TAAAAATATATA
72298189 TAAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAAATATATAATTTTT
Found at i:72300948 original size:16 final size:17
Alignment explanation
Indices: 72300922--72300954 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
72300912 ATTATTTCCC
72300922 TAATCTATTTTTATAAT
1 TAATCTATTTTTATAAT
72300939 TAAT-TATTTTTATAAT
1 TAATCTATTTTTATAAT
72300955 ATTTTTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATCTATTTTTATAAT
Found at i:72301839 original size:24 final size:22
Alignment explanation
Indices: 72301804--72301865 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 22
72301794 GGCGCGACCC
72301804 ATTTTTTTAATAATATAATTTT
1 ATTTTTTTAATAATATAATTTT
* *
72301826 ATTTTTTGTAAATATTATTATTTT
1 ATTTTTT-T-AATAATATAATTTT
72301850 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
72301866 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.21
23 1 0.03
24 20 0.61
25 2 0.06
26 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAATAATATAATTTT
Found at i:72302101 original size:3 final size:3
Alignment explanation
Indices: 72302086--72302136 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
72302076 TGCAGCAGCA
*
72302086 AAG AGAG AA- AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
72302131 GAG AAG
1 AAG AAG
72302137 GAGGAGAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:72302141 original size:9 final size:9
Alignment explanation
Indices: 72302096--72302144 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
72302086 AAGAGAGAAA
*
72302096 AGAAGAAGA
1 AGAAGAAGG
**
72302105 AGAAGAAAA
1 AGAAGAAGG
*
72302114 AGAAGAAGA
1 AGAAGAAGG
72302123 AGAAGAAGG
1 AGAAGAAGG
*
72302132 AGAAGGAGG
1 AGAAGAAGG
72302141 AGAA
1 AGAA
72302145 AGAAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (9 bp):
AGAAGAAGG
Found at i:72304726 original size:19 final size:20
Alignment explanation
Indices: 72304702--72304740 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
72304692 TCCCATTATT
72304702 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
72304721 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
72304741 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:72304758 original size:25 final size:23
Alignment explanation
Indices: 72304702--72304766 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
72304692 TCCCATTATT
*
72304702 TATTTATTTTT-TGTTTT-AA--
1 TATTTATTTTTATATTTTAAATG
*
72304721 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
72304744 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
72304767 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:72309788 original size:24 final size:22
Alignment explanation
Indices: 72309748--72309809 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 22
72309738 AAATTTAAAA
72309748 ATTATTAAAATATAATAAAATAATAAT
1 ATTATTAAAA-A-AATAAAAT--T-AT
72309775 ATT-TTAAAAAAATAAAATTAT
1 ATTATTAAAAAAATAAAATTAT
72309796 ATTATTAAAAAAAT
1 ATTATTAAAAAAAT
72309810 GGGTCACGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.15
22 11 0.32
24 8 0.24
25 1 0.03
26 6 0.18
27 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTATTAAAAAAATAAAATTAT
Found at i:72310423 original size:6 final size:6
Alignment explanation
Indices: 72310405--72310444 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
72310395 AAGTTATGAT
72310405 ATTTAA GATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
1 ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
72310445 ATTAGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:72310859 original size:32 final size:32
Alignment explanation
Indices: 72310798--72310859 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
72310788 AAAAATGGAA
*
72310798 GATTTCTTCCCATCAATGCAAAAGTATTTGGT
1 GATTTCTTCCCATCAATGCAAAACTATTTGGT
* *
72310830 GATTTCTTCCTATTAAT-CAAAACTAATTTG
1 GATTTCTTCCCATCAATGCAAAACT-ATTTG
72310860 ACTTATTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (32 bp):
GATTTCTTCCCATCAATGCAAAACTATTTGGT
Found at i:72311742 original size:72 final size:71
Alignment explanation
Indices: 72311612--72311825 Score: 177
Period size: 72 Copynumber: 3.0 Consensus size: 71
72311602 CTTTGGGGGC
* * * * **
72311612 AACATAAATTATCATATTTTTAGATGTTTAAAGTGGAGGTTAAAACAAAATTTG--AAAATATTT
1 AACAAAAATTATCATATTTTTAGATATTTAATGTAGA-GTTAAAATGAAA-TTGACAAAAT-TTT
72311675 AAGGGGCTA
63 AAGGGGCTA
* * * *
72311684 AATAAAAATTATCATGTTTTTAGATATTTATTGT-GAGTTAAAATGAAACTTGACAAAATTTAGA
1 AACAAAAATTATCATATTTTTAGATATTTAATGTAGAGTTAAAATGAAA-TTGACAAAATTT-TA
*
72311748 AGGGGCAA
64 AGGGGCTA
** * * * *
72311756 AACATGAATTATCA-CTTTTTAGATATATAATGTAGAAGTCAATATGTAAATTGAC-AAATTTTA
1 AACAAAAATTATCATATTTTTAGATATTTAATGTAG-AGTTAAAATG-AAATTGACAAAATTTTA
72311819 AGGGGCT
64 AGGGGCT
72311826 TTAGCTCTAC
Statistics
Matches: 115, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
70 13 0.11
71 27 0.23
72 59 0.51
73 13 0.11
74 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (71 bp):
AACAAAAATTATCATATTTTTAGATATTTAATGTAGAGTTAAAATGAAATTGACAAAATTTTAAG
GGGCTA
Found at i:72313216 original size:21 final size:20
Alignment explanation
Indices: 72313190--72313265 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
72313180 TTGAATTTTA
*
72313190 ATAAAAGAATATTAAAAATATT
1 ATAAAAAAATA-TAAAAA-ATT
72313212 A-AAAAAAATATAAAAAATT
1 ATAAAAAAATATAAAAAATT
*** *
72313231 ATAAAATTTTATAAAAAA-C
1 ATAAAAAAATATAAAAAATT
*
72313250 ATAAAAAATTATAAAA
1 ATAAAAAAATATAAAA
72313266 TGCATAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 18 0.39
20 19 0.41
21 8 0.17
22 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (20 bp):
ATAAAAAAATATAAAAAATT
Found at i:72313226 original size:9 final size:9
Alignment explanation
Indices: 72313190--72313265 Score: 53
Period size: 10 Copynumber: 7.7 Consensus size: 9
72313180 TTGAATTTTA
72313190 ATAAAAGAAT
1 ATAAAA-AAT
72313200 ATTAAAAATATT
1 A-TAAAAA-A-T
*
72313212 AAAAAAAAT
1 ATAAAAAAT
72313221 ATAAAAAATT
1 ATAAAAAA-T
**
72313231 ATAAAATTTT
1 ATAAAA-AAT
*
72313241 ATAAAAAAC
1 ATAAAAAAT
72313250 ATAAAAAATT
1 ATAAAAAA-T
72313260 ATAAAA
1 ATAAAA
72313266 TGCATAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 16 0.31
10 23 0.44
11 11 0.21
12 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:72313237 original size:29 final size:29
Alignment explanation
Indices: 72313200--72313266 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
72313190 ATAAAAGAAT
*
72313200 ATTA-AAAATATTAAAAAAAATATAAAAA
1 ATTATAAAATATTAAAAAAAACATAAAAA
* *
72313228 ATTATAAAATTTTATAAAAAACATAAAAA
1 ATTATAAAATATTAAAAAAAACATAAAAA
72313257 ATTATAAAAT
1 ATTATAAAAT
72313267 GCATAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (29 bp):
ATTATAAAATATTAAAAAAAACATAAAAA
Found at i:72313271 original size:19 final size:19
Alignment explanation
Indices: 72313213--72313275 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
72313203 AAAAATATTA
* *
72313213 AAAAAAATATAAAAAATTAT
1 AAAAAATTATAAAAAA-CAT
**
72313233 AAAATTTTATAAAAAACAT
1 AAAAAATTATAAAAAACAT
**
72313252 AAAAAATTATAAAATGCAT
1 AAAAAATTATAAAAAACAT
72313271 AAAAA
1 AAAAA
72313276 GACCCTTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 22 0.63
20 13 0.37
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAATTATAAAAAACAT
Found at i:72313275 original size:29 final size:28
Alignment explanation
Indices: 72313213--72313275 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
72313203 AAAAATATTA
* **
72313213 AAAAAAATATAAAAAATTATAAAATTTT
1 AAAAAAACATAAAAAATTATAAAATCAT
72313241 ATAAAAAACATAAAAAATTATAAAATGCAT
1 A-AAAAAACATAAAAAATTATAAAAT-CAT
72313271 AAAAA
1 AAAAA
72313276 GACCCTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 27 0.90
30 2 0.07
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAAACATAAAAAATTATAAAATCAT
Found at i:72313453 original size:10 final size:10
Alignment explanation
Indices: 72313438--72313589 Score: 54
Period size: 10 Copynumber: 15.5 Consensus size: 10
72313428 TGGTACAATA
72313438 ATTTTTATAT
1 ATTTTTATAT
*
72313448 ATTTTT-TACG
1 ATTTTTATA-T
*
72313458 AATTTTATAT
1 ATTTTTATAT
*
72313468 -TTCTTTACAT
1 ATT-TTTATAT
72313478 -TTTTTATA-
1 ATTTTTATAT
*
72313486 ATTTTCT-TAC
1 ATTTT-TATAT
** *
72313496 AACTTTATAA
1 ATTTTTATAT
*
72313506 AATTTTATAAT
1 ATTTTTAT-AT
* *
72313517 TTTTTTCTAT
1 ATTTTTATAT
*
72313527 ATTTCTATAT
1 ATTTTTATAT
72313537 A-TTTTATA-
1 ATTTTTATAT
*
72313545 ATTTTTTTAT
1 ATTTTTATAT
72313555 AATTTTTA-AT
1 -ATTTTTATAT
*
72313565 AAATTTTA-AGT
1 -ATTTTTATA-T
72313576 ATTTTTATAT
1 ATTTTTATAT
72313586 -TTTT
1 ATTTT
72313590 ATTAAAATTT
Statistics
Matches: 107, Mismatches: 22, Indels: 27
0.69 0.14 0.17
Matches are distributed among these distances:
8 1 0.01
9 31 0.29
10 59 0.55
11 16 0.15
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:72313465 original size:20 final size:19
Alignment explanation
Indices: 72313440--72313504 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
72313430 GTACAATAAT
72313440 TTTTATATATTTTTTACGAA
1 TTTTATATATTTTTTAC-AA
*
72313460 TTTTATAT-TTCTTTAC-A
1 TTTTATATATTTTTTACAA
*
72313477 TTTTTTATAATTTTCTTACAA
1 TTTTATAT-ATTTT-TTACAA
*
72313498 CTTTATA
1 TTTTATA
72313505 AAATTTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.22
19 10 0.28
20 12 0.33
21 6 0.17
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATATATTTTTTACAA
Found at i:72313482 original size:19 final size:19
Alignment explanation
Indices: 72313438--72313495 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
72313428 TGGTACAATA
72313438 ATTTTTATATATTTTTTACG
1 ATTTTT-TATATTTTTTACG
*
72313458 A-ATTTTATATTTCTTTAC-
1 ATTTTTTATATTT-TTTACG
72313476 ATTTTTTATAATTTTCTTAC
1 ATTTTTTAT-ATTTT-TTAC
72313496 AACTTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.25
19 15 0.47
20 9 0.28
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTTATATTTTTTACG
Found at i:72313520 original size:38 final size:39
Alignment explanation
Indices: 72313435--72313520 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 39
72313425 TTTTGGTACA
* **
72313435 ATAATTTTTATATATTTTTTACGAATTTTATATTTCTTT
1 ATAATTTTTATATATTTTTTACGAACTTTATAAATCTTT
* *
72313474 ACATTTTTTATA-ATTTTCTTAC-AACTTTATAAAAT-TTT
1 ATAATTTTTATATATTTT-TTACGAACTTTAT-AAATCTTT
72313512 ATAATTTTT
1 ATAATTTTT
72313521 TTCTATATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
38 22 0.58
39 16 0.42
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (39 bp):
ATAATTTTTATATATTTTTTACGAACTTTATAAATCTTT
Found at i:72313554 original size:11 final size:11
Alignment explanation
Indices: 72313508--72313561 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
72313498 CTTTATAAAA
72313508 TTTTATAATTT
1 TTTTATAATTT
* *
72313519 TTTTCT-ATAT
1 TTTTATAATTT
* *
72313529 TTCTAT-A-TA
1 TTTTATAATTT
72313538 TTTTATAATTT
1 TTTTATAATTT
72313549 TTTTATAATTT
1 TTTTATAATTT
72313560 TT
1 TT
72313562 AATAAATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 5 0.15
10 9 0.27
11 19 0.58
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:72313559 original size:29 final size:29
Alignment explanation
Indices: 72313479--72313609 Score: 115
Period size: 29 Copynumber: 4.4 Consensus size: 29
72313469 TCTTTACATT
* * *
72313479 TTTTATAATTTTCTTACAACTTTATAAAA
1 TTTTATAATTTTTTTATAATTTTATAAAA
* *
72313508 TTTTATAATTTTTTTCTATATTTCTAT-ATA
1 TTTTATAATTTTTTTATA-ATTT-TATAAAA
72313538 TTTTATAATTTTTTTATAATTTT-TAATAAA
1 TTTTATAATTTTTTTATAATTTTAT-A-AAA
* * *
72313568 TTTTA-AGTATTTTTATATTTTTATTAAAA
1 TTTTATAATTTTTTTATAATTTTA-TAAAA
*
72313597 TTTAATAATTTTT
1 TTTTATAATTTTT
72313610 ATTAGTTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 40 0.49
30 35 0.43
31 4 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTTATAATTTTTTTATAATTTTATAAAA
Found at i:72313589 original size:28 final size:29
Alignment explanation
Indices: 72313548--72313611 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
72313538 TTTTATAATT
*
72313548 TTTTTATAATTTTTAATAAATTTTAAGT-A
1 TTTTTATAATTTTTAATAAAATTTAA-TAA
*
72313577 TTTTTAT-ATTTTTATTAAAATTTAATAA
1 TTTTTATAATTTTTAATAAAATTTAATAA
72313605 TTTTTAT
1 TTTTTAT
72313612 TAGTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTTATAATTTTTAATAAAATTTAATAA
Found at i:72313610 original size:10 final size:10
Alignment explanation
Indices: 72313538--72313610 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
72313528 TTTCTATATA
72313538 TTTT-ATAATT
1 TTTTAATAA-T
*
72313548 TTTTTATAAT
1 TTTTAATAAT
*
72313558 TTTTAATAAA
1 TTTTAATAAT
72313568 TTTTAAGT-AT
1 TTTTAA-TAAT
72313578 TTTT-AT-AT
1 TTTTAATAAT
* *
72313586 TTTTATTAAA
1 TTTTAATAAT
*
72313596 ATTTAATAAT
1 TTTTAATAAT
72313606 TTTTA
1 TTTTA
72313611 TTAGTTTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 7 0.14
9 2 0.04
10 36 0.72
11 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:72313618 original size:29 final size:29
Alignment explanation
Indices: 72313548--72313619 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
72313538 TTTTATAATT
* *
72313548 TTTTTATAATTTTTAATAAATTTTAAGTA
1 TTTTTATTATTTTTAATAAAATTTAAGTA
*
72313577 TTTTTA-TATTTTTATTAAAATTTAA-TAA
1 TTTTTATTATTTTTAATAAAATTTAAGT-A
72313605 TTTTTATTAGTTTTT
1 TTTTTATTA-TTTTT
72313620 TTTATCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.03
28 23 0.62
29 8 0.22
30 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTTATTATTTTTAATAAAATTTAAGTA
Found at i:72319224 original size:43 final size:43
Alignment explanation
Indices: 72319176--72319300 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
72319166 ATCAAGATGA
*
72319176 GATTACATGTAAAACCATGTCTGGGATATTGGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTGTATTGT
* * ** * *
72319219 GATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATACATGT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTG-TA-TTGT
* *
72319264 --TAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
72319301 GAGCTCTATC
Statistics
Matches: 65, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.03
42 7 0.11
43 51 0.78
44 2 0.03
45 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGATATTGGCATTGTATTGT
Found at i:72321040 original size:16 final size:16
Alignment explanation
Indices: 72321019--72321050 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72321009 GCCCAATAAC
*
72321019 CTAAACTACTAGCCCA
1 CTAAACTAATAGCCCA
72321035 CTAAACTAATAGCCCA
1 CTAAACTAATAGCCCA
72321051 TTACACAAAA
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:0.41, C:0.34, G:0.06, T:0.19
Consensus pattern (16 bp):
CTAAACTAATAGCCCA
Found at i:72321734 original size:21 final size:21
Alignment explanation
Indices: 72321709--72321756 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
72321699 GTGGCCGGAG
72321709 CTCCCTC-CTCCCCTCTTTTCT
1 CTCCCTCGCT-CCCTCTTTTCT
*
72321730 TTCCC-CGCTCCCTCTTTTCT
1 CTCCCTCGCTCCCTCTTTTCT
72321750 CTCCCTC
1 CTCCCTC
72321757 TTCTTCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.00, C:0.56, G:0.02, T:0.42
Consensus pattern (21 bp):
CTCCCTCGCTCCCTCTTTTCT
Found at i:72322270 original size:19 final size:19
Alignment explanation
Indices: 72322228--72322272 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
72322218 ATATTGTTAC
72322228 TATTA-TTTTTTAATATAT
1 TATTATTTTTTTAATATAT
72322246 TAATTATTTTTTTAA-AGTAT
1 T-ATTATTTTTTTAATA-TAT
72322266 TATTATT
1 TATTATT
72322273 ACTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.46
20 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTATTTTTTTAATATAT
Found at i:72322335 original size:13 final size:14
Alignment explanation
Indices: 72322311--72322341 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
72322301 ATTATTATCA
72322311 ATATTAATATATGT
1 ATATTAATATATGT
72322325 ATATT-ATATATGT
1 ATATTAATATATGT
72322338 ATAT
1 ATAT
72322342 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:72322438 original size:12 final size:12
Alignment explanation
Indices: 72322423--72322454 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
72322413 TATATTTCAT
*
72322423 TATTATTTTTAA
1 TATTATTATTAA
72322435 TATTATTATTAA
1 TATTATTATTAA
72322447 TATTATTA
1 TATTATTA
72322455 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:72322628 original size:21 final size:20
Alignment explanation
Indices: 72322595--72322637 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
72322585 TTTTTTATAC
72322595 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
72322615 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
72322636 TA
1 TA
72322638 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:72324266 original size:124 final size:129
Alignment explanation
Indices: 72324109--72324367 Score: 476
Period size: 128 Copynumber: 2.1 Consensus size: 129
72324099 TAATCCCTCG
72324109 AATT-GAACTCGTGAGCCTGTGATGGGTTATGACCGAGGC-TCG-ACTAATCTTAGCAGATGATA
1 AATTAGAACTCGTGAGCCTGTGATGGGTTATGACCGAGGCTTCGTACTAATCTTAGCAGATGATA
72324171 -TATGAGCAA-TCGAGTACCTGTCTAGAATCGAGACTGCATATAATG-ACCATACGAGATATCC
66 GTATGAGCAATTCGAGTACCTGTCTAGAATCGAGACTGCATATAATGAACCATACGAGATATCC
72324232 AATTAGAACTCGTGAGCCTGTGATGGGTTATGACCGAGGCTTCGTACTAATCTTAGCAGATGATA
1 AATTAGAACTCGTGAGCCTGTGATGGGTTATGACCGAGGCTTCGTACTAATCTTAGCAGATGATA
72324297 GTATGAGCAATTCGAGTACCTGTCTAGAATCGAGACTGCATATAATGAACCATACGAGATATCC
66 GTATGAGCAATTCGAGTACCTGTCTAGAATCGAGACTGCATATAATGAACCATACGAGATATCC
72324361 AATTAGA
1 AATTAGA
72324368 GCCATGCCGA
Statistics
Matches: 130, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
123 4 0.03
124 35 0.27
125 3 0.02
126 20 0.15
127 9 0.07
128 36 0.28
129 23 0.18
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (129 bp):
AATTAGAACTCGTGAGCCTGTGATGGGTTATGACCGAGGCTTCGTACTAATCTTAGCAGATGATA
GTATGAGCAATTCGAGTACCTGTCTAGAATCGAGACTGCATATAATGAACCATACGAGATATCC
Found at i:72335641 original size:73 final size:71
Alignment explanation
Indices: 72335461--72335954 Score: 433
Period size: 73 Copynumber: 6.9 Consensus size: 71
72335451 CTTTCCAAGG
* * *
72335461 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTTAGGTCACGCTGAGGTA-TTTTAATTCAT
1 AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTAATTTAT
72335525 GTTTTCAA
66 G-TTTC-A
* * ** ** *
72335533 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTT
1 AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGT--CACGCTGAGGTATTTTTAATTT
72335598 ATGTTTCA
64 ATGTTTCA
* *
72335606 AAAATTGACTCATATTGCGATAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTA-TTTTAATTCTT
1 AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTAA---TT
*
72335670 TTTGTTTCA
63 TATGTTTCA
* * * ** * * * *
72335679 AAAATCAGCTCATATTGCGAGGGGTGAGTTGATCCTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTAATTTAT
72335744 GTTT-A
66 GTTTCA
* * *
72335749 GAAAA-T-ACTCATATTGCGAAAAGTGAGTCAAGCCTTAGGTCACGCTGAGGTATTTTTAATTCC
1 -AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTAATT--
*
72335812 TGTTGTTTCA
63 T-ATGTTTCA
* * ** * * ** * *
72335822 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
1 AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTAATTTAT
*
72335887 G-TTCC
66 GTTTCA
* * ** * * * * *
72335892 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAAGTATTTTCAATTT
1 AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTAATTT
72335955 CTGCTTTTAA
Statistics
Matches: 338, Mismatches: 70, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
69 44 0.13
70 62 0.18
71 27 0.08
72 43 0.13
73 88 0.26
74 64 0.19
75 10 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
AAAATTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTAATTTAT
GTTTCA
Found at i:72335851 original size:143 final size:146
Alignment explanation
Indices: 72335461--72335920 Score: 589
Period size: 143 Copynumber: 3.2 Consensus size: 146
72335451 CTTTCCAAGG
*
72335461 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTTAGGTCACGCTGAGGTATTTTAATTCATG
1 AAAATTGACTCATATTGCGAAAGGTGAGTCAAGCCTTAGGTCACGCTGAGGTATTTTAATTCATG
* * **
72335526 -T-TTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
66 TTGTTTC-AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
72335589 TTTTAGTTTATGTTTCA
130 TTTTAGTTTATGTTTCA
* * * *
72335606 AAAATTGACTCATATTGCGATAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCTTT
1 AAAATTGACTCATATTGCGAAAGGTGAGTCAAGCCTTAGGTCACGCTGAGGTATTTTAATTCATG
* * **
72335671 TTGTTTCAAAAATCAGCTCATATTGCGAGGGGTGAGTTGATCCTC-GG-GGCACGCTGAGGTATT
66 TTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATT
72335734 TTTAGTTTATGTTT-A
131 TTTAGTTTATGTTTCA
* *
72335749 GAAAA-T-ACTCATATTGCGAAAAGTGAGTCAAGCCTTAGGTCACGCTGAGGTATTTTTAATTCC
1 -AAAATTGACTCATATTGCGAAAGGTGAGTCAAGCCTTAGGTCACGCTGAGGTA-TTTTAATTCA
* **
72335812 TGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACATTGAGGTA
64 TGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA
* * * *
72335875 ATTTCAATTTATG-TTCC
129 TTTTTAGTTTATGTTTCA
** * *
72335892 AAAATCAACTCACATTGCGAGAGGTGAGT
1 AAAATTGACTCATATTGCGAAAGGTGAGT
72335921 TGAGCCTCGG
Statistics
Matches: 276, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
142 49 0.18
143 75 0.27
144 52 0.19
145 63 0.23
146 33 0.12
147 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (146 bp):
AAAATTGACTCATATTGCGAAAGGTGAGTCAAGCCTTAGGTCACGCTGAGGTATTTTAATTCATG
TTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATT
TTTAGTTTATGTTTCA
Found at i:72335931 original size:213 final size:215
Alignment explanation
Indices: 72335468--72335953 Score: 531
Period size: 213 Copynumber: 2.3 Consensus size: 215
72335458 AGGAAAATTG
** ** *
72335468 ACTCATATTGCGAGAGGTGAGTCAAGCCTTAGGTCACGCTGAGGTA-TTTTAATTCATGTTTTCA
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTCATGTTTTCA
* ** *
72335532 AAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTT
66 AAAAAT-AACTCATATTGCGAGAAATGAGTCAAGCCTCAGGT-ACACGCTGAGGTATTTTTAATT
* * * * *
72335597 TATGTTTCAAAAATTGACTCATATTGCGATAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTT
129 TATGTTTCAAAAATAGACTCATATTGCGAGAGGTGAGTCAAGCCTCAAGACACACTGAGGTATTT
* *
72335662 TAATTCTTTTTGTTTCAAAAATCA
194 CAA-T-TTTATGTTTCAAAAATCA
* * * * *
72335686 GCTCATATTGCGAGGGGTGAGTTGATCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG-TTT-A
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTCATGTTTTCA
* *
72335749 GAAAAT-ACTCATATTGCGA-AAAGTGAGTCAAGCCTTAGGT-CACGCTGAGGTATTTTTAATTC
66 AAAAATAACTCATATTGCGAGAAA-TGAGTCAAGCCTCAGGTACACGCTGAGGTATTTTTAATT-
* ** *
72335811 CTGTTGTTTCAAAAATCAG-CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTA
129 -T-ATGTTTCAAAAAT-AGACTCATATTGCGAGAGGTGAGTCAAGCCTCAAGACACACTGAGGT-
*
72335875 ATTTCAA-TTTATG-TTCCAAAATCA
190 ATTTCAATTTTATGTTTCAAAAATCA
* * * *
72335899 ACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAAGTATTTTCAATT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATT
72335954 TCTGCTTTTA
Statistics
Matches: 225, Mismatches: 36, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
213 77 0.34
214 8 0.04
215 27 0.12
216 49 0.22
217 13 0.06
218 41 0.18
219 10 0.04
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (215 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTCATGTTTTCA
AAAAATAACTCATATTGCGAGAAATGAGTCAAGCCTCAGGTACACGCTGAGGTATTTTTAATTTA
TGTTTCAAAAATAGACTCATATTGCGAGAGGTGAGTCAAGCCTCAAGACACACTGAGGTATTTCA
ATTTTATGTTTCAAAAATCA
Found at i:72336251 original size:72 final size:73
Alignment explanation
Indices: 72336121--72336304 Score: 228
Period size: 72 Copynumber: 2.5 Consensus size: 73
72336111 CTACTTTTTC
* * * * *
72336121 AAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
***
72336185 -TGTGTTTT
66 AT-TGTCAA
** *
72336193 AACTTCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
72336258 ATTGTCAA
66 ATTGTCAA
* *
72336266 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
72336305 TTCACATGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
72 55 0.59
73 38 0.40
74 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
ATTGTCAA
Found at i:72337800 original size:20 final size:21
Alignment explanation
Indices: 72337765--72337815 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
72337755 GTGGCCGGAG
72337765 CTCCCCCCTCCTCTCTCTTCT
1 CTCCCCCCTCCTCTCTCTTCT
* * *
72337786 TTCCCCGCTCC-CTCTTTTCT
1 CTCCCCCCTCCTCTCTCTTCT
*
72337806 CTCCCTCCTC
1 CTCCCCCCTC
72337816 TTCTGTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.00, C:0.59, G:0.02, T:0.39
Consensus pattern (21 bp):
CTCCCCCCTCCTCTCTCTTCT
Found at i:72338321 original size:20 final size:20
Alignment explanation
Indices: 72338287--72338333 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
72338277 ATATTGTTAC
72338287 TATTATTTTTATTAATA-TAT
1 TATTATTTTTATTAA-AGTAT
72338307 TAATTATTTTT-TTAAAGTAT
1 T-ATTATTTTTATTAAAGTAT
72338327 TATTATT
1 TATTATT
72338334 ACTAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTTTATTAAAGTAT
Found at i:72338330 original size:23 final size:21
Alignment explanation
Indices: 72338288--72338333 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
72338278 TATTGTTACT
72338288 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
72338309 ATTATTTTT-TTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
72338328 ATTATT
1 ATTATT
72338334 ACTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:72338396 original size:13 final size:14
Alignment explanation
Indices: 72338372--72338402 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
72338362 ATTATTATCA
72338372 ATATTAATATATGT
1 ATATTAATATATGT
72338386 ATATT-ATATATGT
1 ATATTAATATATGT
72338399 ATAT
1 ATAT
72338403 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:72338499 original size:12 final size:12
Alignment explanation
Indices: 72338484--72338515 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
72338474 TATATTTCAT
*
72338484 TATTATTTTTAA
1 TATTATTATTAA
72338496 TATTATTATTAA
1 TATTATTATTAA
72338508 TATTATTA
1 TATTATTA
72338516 GATGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:72338697 original size:21 final size:20
Alignment explanation
Indices: 72338664--72338706 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
72338654 TTTTATATAC
72338664 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
72338684 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
72338705 TA
1 TA
72338707 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:72342008 original size:29 final size:30
Alignment explanation
Indices: 72341965--72342028 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
72341955 TCAAAAAATT
*
72341965 ATTTTATTTAATTA-TAATATATATTT-TAA
1 ATTTTATTTAATTATTAAAAT-TATTTATAA
*
72341994 ATTTTATTTATTTATTAAAATTATTTATAA
1 ATTTTATTTAATTATTAAAATTATTTATAA
72342024 ATTTT
1 ATTTT
72342029 TACAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTTTATTTAATTATTAAAATTATTTATAA
Found at i:72342077 original size:17 final size:17
Alignment explanation
Indices: 72342055--72342087 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
72342045 TCCATATAGA
72342055 ATTTTT-TTTATATAATG
1 ATTTTTATTT-TATAATG
72342072 ATTTTTATTTTATAAT
1 ATTTTTATTTTATAAT
72342088 TACTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTTATTTTATAATG
Found at i:72342621 original size:12 final size:12
Alignment explanation
Indices: 72342604--72342629 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72342594 ATGTTCATAC
72342604 ATAATCATCAAA
1 ATAATCATCAAA
72342616 ATAATCATCAAA
1 ATAATCATCAAA
72342628 AT
1 AT
72342630 GGGTTGTAAC
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAATCATCAAA
Found at i:72343085 original size:32 final size:33
Alignment explanation
Indices: 72343022--72343086 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
72343012 CTACTTTTAA
72343022 GAAAACTATATGAGAGTTAGGATTTTGTTTTTG
1 GAAAACTATATGAGAGTTAGGATTTTGTTTTTG
* *
72343055 GAAAACTCTATGAGATTTAGG-TTTTGTTTTTG
1 GAAAACTATATGAGAGTTAGGATTTTGTTTTTG
72343087 CGGTTTGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (33 bp):
GAAAACTATATGAGAGTTAGGATTTTGTTTTTG
Found at i:72343884 original size:24 final size:24
Alignment explanation
Indices: 72343857--72343908 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
72343847 TTAGTAAGTC
*
72343857 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
72343881 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
72343905 AAAT
1 AAAT
72343909 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:72345855 original size:24 final size:24
Alignment explanation
Indices: 72345828--72345879 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
72345818 TTAGTAAGTC
*
72345828 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
72345852 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
72345876 AAAT
1 AAAT
72345880 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:72347767 original size:20 final size:20
Alignment explanation
Indices: 72347731--72347769 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
72347721 AGTACATAAA
*
72347731 TAATAATATAATTATAGATG
1 TAATAATATAATAATAGATG
72347751 TAATAAT-TAAATAATAGAT
1 TAATAATAT-AATAATAGAT
72347770 AATTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
TAATAATATAATAATAGATG
Found at i:72349364 original size:23 final size:23
Alignment explanation
Indices: 72349344--72349388 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
72349334 ATAAATTTTT
* *
72349344 AAAAAATCAAAAGCAAAATTTCA
1 AAAAAATAAAAAGAAAAATTTCA
*
72349367 AAAAAATAAAAATAAAAATTTC
1 AAAAAATAAAAAGAAAAATTTC
72349389 CAAGGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAAATAAAAAGAAAAATTTCA
Found at i:72349383 original size:22 final size:23
Alignment explanation
Indices: 72349331--72349388 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
72349321 TTTTTATAAG
**
72349331 AAAAT-AAATTTTTAAAAAATCA
1 AAAATAAAATTTCAAAAAAATCA
**
72349353 AAAGCAAAATTTCAAAAAAAT-A
1 AAAATAAAATTTCAAAAAAATCA
72349375 AAAATAAAAATTTC
1 AAAAT-AAAATTTC
72349389 CAAGGTTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAATAAAATTTCAAAAAAATCA
Found at i:72349606 original size:19 final size:18
Alignment explanation
Indices: 72349584--72349619 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
72349574 AATTAATATT
72349584 TTTTTTCAAATGTTTTTTC
1 TTTTTTCAAAT-TTTTTTC
*
72349603 TTTTTTTAAATTTTTTT
1 TTTTTTCAAATTTTTTT
72349620 TTACATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTTCAAATTTTTTTC
Found at i:72349608 original size:20 final size:18
Alignment explanation
Indices: 72349583--72349619 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
72349573 AAATTAATAT
72349583 TTTTTTTCAAATGTTTTTTC
1 TTTTTTT-AAAT-TTTTTTC
72349603 TTTTTTTAAATTTTTTT
1 TTTTTTTAAATTTTTTT
72349620 TTACATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTTTAAATTTTTTTC
Found at i:72349621 original size:22 final size:22
Alignment explanation
Indices: 72349583--72349643 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
72349573 AAATTAATAT
* *
72349583 TTTTTTTCAA-ATGTTTTTT-CT
1 TTTTTTACAATAT-TTTTTTACA
*
72349604 TTTTTTA-AATTTTTTTTTACA
1 TTTTTTACAATATTTTTTTACA
72349625 TTTTTTACAATTATTTTTT
1 TTTTTTACAA-TATTTTTT
72349644 GACTGATGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 8 0.25
21 15 0.47
22 2 0.06
23 7 0.22
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTACAATATTTTTTTACA
Found at i:72349628 original size:21 final size:21
Alignment explanation
Indices: 72349596--72349643 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
72349586 TTTTCAAATG
* *
72349596 TTTTTTCTTTTTTTA-AATTT
1 TTTTTTCATTTTTTACAATTA
72349616 TTTTTTACATTTTTTACAATTA
1 TTTTTT-CATTTTTTACAATTA
72349638 TTTTTT
1 TTTTTT
72349644 GACTGATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 8 0.33
22 10 0.42
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTTCATTTTTTACAATTA
Found at i:72352450 original size:20 final size:20
Alignment explanation
Indices: 72352425--72352485 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
72352415 TGAAGATAGG
*
72352425 GGAACACGCCCGTGTGGCCT
1 GGAACATGCCCGTGTGGCCT
*
72352445 GGAACATGCCCATGTGGCCT
1 GGAACATGCCCGTGTGGCCT
*
72352465 GGAACATGCCTGTGTGGCCT
1 GGAACATGCCCGTGTGGCCT
72352485 G
1 G
72352486 CCCGTGGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (20 bp):
GGAACATGCCCGTGTGGCCT
Found at i:72361502 original size:30 final size:30
Alignment explanation
Indices: 72361468--72361524 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
72361458 ATCCCGAGCC
72361468 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * * *
72361498 TAGGGGTAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAAATATGCAAAA
72361525 ATTTGAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:72361997 original size:46 final size:47
Alignment explanation
Indices: 72361947--72362076 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 47
72361937 TGGTTGAGCT
72361947 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAGA
* * *
72361993 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G-A
72362040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
72362077 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAGA
Found at i:72369510 original size:16 final size:17
Alignment explanation
Indices: 72369489--72369521 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
72369479 ACAGCAAAGG
72369489 AAGAAAAA-AAAGAAAA
1 AAGAAAAAGAAAGAAAA
72369505 AAGAAAAAGAAAGAAAA
1 AAGAAAAAGAAAGAAAA
72369522 GGCTATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAAGAAAA
Found at i:72375638 original size:96 final size:97
Alignment explanation
Indices: 72375464--72375653 Score: 292
Period size: 96 Copynumber: 2.0 Consensus size: 97
72375454 TCTGCCCAAT
* * *
72375464 TTGTAGCAAATCGATGGGAGATATGGCGGTAAGAAAATTATTTTTAAAAGCATATTACTGTTTTA
1 TTGTAGAAAATCGATGGGAGATATGGCGGTAAGAAAATTACTTTTAAAAGCATACTACTGTTTTA
* *
72375529 AGTTATGATTACATATAAAATTGTTTTAGCAC
66 AGTTATGACTACATACAAAATTGTTTTAGCAC
* *
72375561 TTGTAGAAAATTGATGGGAGATATGGCGGTAAGAAAATT-CTTTTAAAGGCATACTACTGTTTTA
1 TTGTAGAAAATCGATGGGAGATATGGCGGTAAGAAAATTACTTTTAAAAGCATACTACTGTTTTA
* *
72375625 AGTTATGACTACATGCAAGATTGTTTTAG
66 AGTTATGACTACATACAAAATTGTTTTAG
72375654 GGGATAGGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 47 0.56
97 37 0.44
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (97 bp):
TTGTAGAAAATCGATGGGAGATATGGCGGTAAGAAAATTACTTTTAAAAGCATACTACTGTTTTA
AGTTATGACTACATACAAAATTGTTTTAGCAC
Found at i:72377261 original size:17 final size:19
Alignment explanation
Indices: 72377239--72377285 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
72377229 TTTAATTGTT
72377239 ATCATATTTA-AAAT-AAA
1 ATCATATTTATAAATAAAA
*
72377256 ATCATATTTATAGATAAAA
1 ATCATATTTATAAATAAAA
*
72377275 ATTATATTTAT
1 ATCATATTTAT
72377286 TCAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 3 0.12
19 13 0.50
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
ATCATATTTATAAATAAAA
Found at i:72381556 original size:16 final size:16
Alignment explanation
Indices: 72381530--72381566 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
72381520 TACAATATGA
*
72381530 ATAATAAAATTAAAAT
1 ATAAAAAAATTAAAAT
*
72381546 GTAAAAAAATTAAAAT
1 ATAAAAAAATTAAAAT
72381562 ATAAA
1 ATAAA
72381567 TTTGGTTGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
ATAAAAAAATTAAAAT
Found at i:72383162 original size:41 final size:38
Alignment explanation
Indices: 72383055--72383165 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 38
72383045 CGGATAATTT
****
72383055 GAAGTAGTAAATTGATACCTAGTGTCTCATTGGTTAAACC
1 GAAGTA-TAAATTGA-ACCTAGTGTCTCATCAAATAAACC
* *
72383095 GAAG--TAAATTGGAACCCAGTGCCTCATCAAATAAATCC
1 GAAGTATAAATT-GAACCTAGTGTCTCATCAAATAAA-CC
72383133 GAAGTAATAAATTGACACCTAGTGTCTCATCAA
1 GAAGT-ATAAATTGA-ACCTAGTGTCTCATCAA
72383166 CTCGAAGTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
37 22 0.39
38 8 0.14
40 6 0.11
41 21 0.37
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (38 bp):
GAAGTATAAATTGAACCTAGTGTCTCATCAAATAAACC
Found at i:72384038 original size:4 final size:4
Alignment explanation
Indices: 72384029--72384093 Score: 69
Period size: 4 Copynumber: 15.5 Consensus size: 4
72384019 TGTCTTTCTC
*
72384029 CTTT CTTT CTTT CTTT CTTTT CTTT CTTT C-TT CTTT CTGTTT CGTCT
1 CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT C--TTT C-TTT
*
72384076 CTAT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CT
72384094 ATTAATTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
3 3 0.06
4 39 0.72
5 8 0.15
6 4 0.07
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:72384132 original size:7 final size:7
Alignment explanation
Indices: 72384120--72384194 Score: 66
Period size: 7 Copynumber: 10.6 Consensus size: 7
72384110 ATTTACTTAT
72384120 TATAATA
1 TATAATA
72384127 TATAATA
1 TATAATA
72384134 TATAATA
1 TATAATA
72384141 TATAATA
1 TATAATA
72384148 TAT-ATA
1 TATAATA
72384154 CT-TAATA
1 -TATAATA
*
72384161 -ATTAAGA
1 TA-TAATA
* *
72384168 TTTAAGA
1 TATAATA
72384175 TTATAATA
1 -TATAATA
72384183 TTATAATA
1 -TATAATA
72384191 TATA
1 TATA
72384195 TTTTAACTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
6 4 0.07
7 41 0.71
8 13 0.22
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:72388356 original size:68 final size:68
Alignment explanation
Indices: 72388266--72388411 Score: 283
Period size: 68 Copynumber: 2.1 Consensus size: 68
72388256 TATGAATGCA
72388266 AATTAAAATACTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTGATTAAAAACTAAGATTTTA
1 AATTAAAATACTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTGATTAAAAACTAAGATTTTA
72388331 ACT
66 ACT
72388334 AATTAAAATACTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTGATTAAAAACTAAGATTTTA
1 AATTAAAATACTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTGATTAAAAACTAAGATTTTA
72388399 ACT
66 ACT
*
72388402 AAGTAAAATA
1 AATTAAAATA
72388412 AATAGAAAGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (68 bp):
AATTAAAATACTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTGATTAAAAACTAAGATTTTA
ACT
Found at i:72391586 original size:5 final size:5
Alignment explanation
Indices: 72391576--72391607 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
72391566 TTGTGTGTTC
72391576 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
72391608 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:72391590 original size:9 final size:9
Alignment explanation
Indices: 72391576--72391606 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
72391566 TTGTGTGTTC
72391576 TTTATTTTA
1 TTTATTTTA
72391585 TTTATTTTA
1 TTTATTTTA
72391594 TTTTATTTTA
1 -TTTATTTTA
72391604 TTT
1 TTT
72391607 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:72397317 original size:45 final size:45
Alignment explanation
Indices: 72397212--72397433 Score: 249
Period size: 45 Copynumber: 5.0 Consensus size: 45
72397202 ATGCTATCTC
* * * * *
72397212 ATATCGGTGCCACTGTCCCAGACAG-GGACTTACAC-TAATCA-A-
1 ATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAAACACAT
* * * * *
72397254 ATA-CGATGCCGATGTCCCAGACATGGTCTTACTCGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACAT
*
72397298 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACAAAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACAT
* *
72397343 ATATC-AGTACCAATGTCCCAAACGTGGTCTTACACGAAAACACAT
1 ATATCGA-TGCCAATGTCCCAGACGTGGTCTTACACGAAAACACAT
* *
72397388 ATATCAATGCCAATGTCCTAGACGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACAT
72397433 A
1 A
72397434 ACATGATCCT
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
41 24 0.16
42 8 0.05
43 1 0.01
44 4 0.03
45 116 0.75
46 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACAT
Found at i:72399040 original size:20 final size:20
Alignment explanation
Indices: 72399015--72399055 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
72399005 TCTTCCACAG
72399015 TGAGACTTTCAAAAATACTT
1 TGAGACTTTCAAAAATACTT
72399035 TGAGACTTTCAAAAATACTT
1 TGAGACTTTCAAAAATACTT
72399055 T
1 T
72399056 TTCCCCGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (20 bp):
TGAGACTTTCAAAAATACTT
Found at i:72399979 original size:26 final size:27
Alignment explanation
Indices: 72399950--72400019 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
72399940 AAACATTAAA
*
72399950 TTAAAT-TTAATATTAA-GATAATCTTT
1 TTAAATATTAA-ATTAATAATAATCTTT
72399976 TT-AATATTAAATTAATAATAATCTTT
1 TTAAATATTAAATTAATAATAATCTTT
72400002 TT-AATATTAAATTAATAA
1 TTAAATATTAAATTAATAA
72400020 AATACTATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 8 0.20
26 33 0.80
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (27 bp):
TTAAATATTAAATTAATAATAATCTTT
Found at i:72400054 original size:37 final size:36
Alignment explanation
Indices: 72400002--72400077 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
72399992 AATAATCTTT
*
72400002 TTAATATTAAATTAATA-AAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATATAAA-ACTATTAAAATAA-TA
*
72400039 TTAA-ATTAAATTTAATATTAAACTATTAAAATAATA
1 TTAATATTAAA-TTAATATAAAACTATTAAAATAATA
72400075 TTA
1 TTA
72400078 TTTTTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATATAAAACTATTAAAATAATA
Found at i:72400057 original size:48 final size:48
Alignment explanation
Indices: 72399858--72400077 Score: 175
Period size: 48 Copynumber: 4.6 Consensus size: 48
72399848 ACTTAATCAC
* * * *
72399858 TTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAA
1 TTTAATATTAAATTAATAAAATA-ATATTAAGATAAATATTAAATTAAA
* * *
72399907 TTTAATATTAAATCTTATTAAAATAAT-GT-AGATAAACATTAAATTAAA
1 TTTAATATTAAA--TTAATAAAATAATATTAAGATAAATATTAAATTAAA
**** * * *
72399955 TTTAATATTAAGA-TAATCTTTTTAATATTAA-ATTAATAAT-AATCT--T
1 TTTAATATTAA-ATTAAT-AAAATAATATTAAGATAAATATTAAAT-TAAA
* *
72400001 TTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTAAA
1 TTTAATATTAAATTAATAAAATAATATTAAGATAAATATTAAATTAAA
* *
72400049 TTTAATATTAAACTATTAAAATAATATTA
1 TTTAATATTAAATTAATAAAATAATATTA
72400078 TTTTTGAAAT
Statistics
Matches: 130, Mismatches: 29, Indels: 25
0.71 0.16 0.14
Matches are distributed among these distances:
45 9 0.07
46 25 0.19
47 10 0.08
48 62 0.48
49 14 0.11
50 1 0.01
51 9 0.07
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (48 bp):
TTTAATATTAAATTAATAAAATAATATTAAGATAAATATTAAATTAAA
Found at i:72400515 original size:19 final size:19
Alignment explanation
Indices: 72400477--72400516 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
72400467 AAAATATCAT
* *
72400477 ATTAATTTTATTTAATTTG
1 ATTAATTTAATTTAACTTG
*
72400496 ATTAATTTAATTTTACTTG
1 ATTAATTTAATTTAACTTG
72400515 AT
1 AT
72400517 CAAAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTAATTTAACTTG
Found at i:72403883 original size:36 final size:37
Alignment explanation
Indices: 72403837--72403909 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
72403827 GAGAGAGGGT
* *
72403837 TTGTAACTTAAGGTTTG-GGTAGAAACCTTAAGAGAG
1 TTGTAACTTAAGATTTGAGGCAGAAACCTTAAGAGAG
* * *
72403873 TTGTATCTTAAGATTTGAGGCATAAATCTTAAGAGAG
1 TTGTAACTTAAGATTTGAGGCAGAAACCTTAAGAGAG
72403910 ATTCTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 15 0.48
37 16 0.52
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (37 bp):
TTGTAACTTAAGATTTGAGGCAGAAACCTTAAGAGAG
Found at i:72405102 original size:12 final size:12
Alignment explanation
Indices: 72405085--72405109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72405075 TACCAAGGAG
72405085 AAAGATCCTATT
1 AAAGATCCTATT
72405097 AAAGATCCTATT
1 AAAGATCCTATT
72405109 A
1 A
72405110 TTTGCTATGA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAGATCCTATT
Found at i:72407221 original size:49 final size:50
Alignment explanation
Indices: 72407102--72407236 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 50
72407092 ATCTGGCACG
* * * * *
72407102 CATAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGTTATCCGGTACA
*
72407153 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGTTATCCGGTACA
* * * *
72407202 CGTAGTAGTCTGTATTTAGTACTACACATGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC
72407237 TCACAATAGA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 40 0.55
50 3 0.04
51 30 0.41
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGTTATCCGGTACA
Found at i:72411610 original size:21 final size:21
Alignment explanation
Indices: 72411586--72411642 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
72411576 CAAACGCCCA
*
72411586 TGTGAAGAGGGCACACGACCG
1 TGTGAAAAGGGCACACGACCG
** *
72411607 TGTGGCTAA-GGCACACGCCCG
1 TGT-GAAAAGGGCACACGACCG
72411628 TGTGAAAAGAGGCAC
1 TGTGAAAAG-GGCAC
72411643 TCAGCCATGT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 3 0.11
21 17 0.63
22 7 0.26
ACGTcount: A:0.28, C:0.25, G:0.35, T:0.12
Consensus pattern (21 bp):
TGTGAAAAGGGCACACGACCG
Found at i:72427395 original size:39 final size:39
Alignment explanation
Indices: 72427329--72427572 Score: 173
Period size: 39 Copynumber: 6.2 Consensus size: 39
72427319 TGCAAATTTT
* *
72427329 TAATACACCGGCACACAGCTTGCTAGGCACAAAGCTTGAA
1 TAAT-CACCGGCACACAGCCTACTAGGCACAAAGCTTGAA
* * *
72427369 TAATCACCGGCACACCGCCTATTAGGCACATAGCTTGAA
1 TAATCACCGGCACACAGCCTACTAGGCACAAAGCTTGAA
* * * * * **
72427408 TAATCACCGGCGCACAGCTTGCTAGGCATATAGCCCGAA
1 TAATCACCGGCACACAGCCTACTAGGCACAAAGCTTGAA
* * * * * * * **
72427447 TAATTACCGGCACATATCTTGCTAGGGACATAGCAGGAA
1 TAATCACCGGCACACAGCCTACTAGGCACAAAGCTTGAA
* ** * **
72427486 TAATCACTGGCACACAGCCTGTTAGGCACATAGCCCGAA
1 TAATCACCGGCACACAGCCTACTAGGCACAAAGCTTGAA
* * * * * * *
72427525 TAATCATCGGCACATAGCCTGCTATGCACATATCTCGAA
1 TAATCACCGGCACACAGCCTACTAGGCACAAAGCTTGAA
72427564 TAATCACCG
1 TAATCACCG
72427573 TATTTTTAAT
Statistics
Matches: 166, Mismatches: 38, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
39 162 0.98
40 4 0.02
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (39 bp):
TAATCACCGGCACACAGCCTACTAGGCACAAAGCTTGAA
Found at i:72427429 original size:78 final size:78
Alignment explanation
Indices: 72427329--72427572 Score: 281
Period size: 78 Copynumber: 3.1 Consensus size: 78
72427319 TGCAAATTTT
* ** ** **
72427329 TAATACACCGGCACACAGCTTGCTAGGCACAAAGCTTGAATAATCACCGGCACACCGCCTATTAG
1 TAAT-CACCGGCACACAGCTTGCTAGGCACATAGCCCGAATAATCACCGGCACATAGCCTGCTAG
*
72427394 GCACATAGCTTGAA
65 GCACATAGCTCGAA
* * * * *
72427408 TAATCACCGGCGCACAGCTTGCTAGGCATATAGCCCGAATAATTACCGGCACATATCTTGCTAGG
1 TAATCACCGGCACACAGCTTGCTAGGCACATAGCCCGAATAATCACCGGCACATAGCCTGCTAGG
* **
72427473 GACATAGCAGGAA
66 CACATAGCTCGAA
* * * * *
72427486 TAATCACTGGCACACAGCCTGTTAGGCACATAGCCCGAATAATCATCGGCACATAGCCTGCTATG
1 TAATCACCGGCACACAGCTTGCTAGGCACATAGCCCGAATAATCACCGGCACATAGCCTGCTAGG
*
72427551 CACATATCTCGAA
66 CACATAGCTCGAA
72427564 TAATCACCG
1 TAATCACCG
72427573 TATTTTTAAT
Statistics
Matches: 135, Mismatches: 30, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
78 131 0.97
79 4 0.03
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (78 bp):
TAATCACCGGCACACAGCTTGCTAGGCACATAGCCCGAATAATCACCGGCACATAGCCTGCTAGG
CACATAGCTCGAA
Found at i:72427548 original size:117 final size:117
Alignment explanation
Indices: 72427329--72427572 Score: 299
Period size: 117 Copynumber: 2.1 Consensus size: 117
72427319 TGCAAATTTT
** *
72427329 TAATACACCGGCACACAGCTTGCTAGGCACAAAGCTTGAATAATCACCGGCACACCGCCTATTAG
1 TAAT-CACCGGCACACAGCTTGCTAGGCACAAAGCAGGAATAATCACCGGCACACAGCCTATTAG
** * * *
72427394 GCACATAGCTTGAATAATCACCGGCGCACAGCTTGCTAGGCATATAGCCCGAA
65 GCACATAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
* * * * * * *
72427447 TAATTACCGGCACATATCTTGCTAGGGACATAGCAGGAATAATCACTGGCACACAGCCTGTTAGG
1 TAATCACCGGCACACAGCTTGCTAGGCACAAAGCAGGAATAATCACCGGCACACAGCCTATTAGG
* * * * *
72427512 CACATAGCCCGAATAATCATCGGCACATAGCCTGCTATGCACATATCTCGAA
66 CACATAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
72427564 TAATCACCG
1 TAATCACCG
72427573 TATTTTTAAT
Statistics
Matches: 105, Mismatches: 21, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
117 101 0.96
118 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (117 bp):
TAATCACCGGCACACAGCTTGCTAGGCACAAAGCAGGAATAATCACCGGCACACAGCCTATTAGG
CACATAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
Found at i:72431766 original size:19 final size:19
Alignment explanation
Indices: 72431742--72431922 Score: 284
Period size: 19 Copynumber: 9.8 Consensus size: 19
72431732 AATCTTTAAG
72431742 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
72431761 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
72431780 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
72431799 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72431818 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72431835 GAT-TGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
72431853 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
*
72431872 GATA--CAATCTTCGATAT
1 GATATGCAATCTTAGATAT
72431889 GAT-TGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72431907 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
72431923 AGATATGATT
Statistics
Matches: 148, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
17 29 0.20
18 31 0.21
19 88 0.59
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:72431861 original size:73 final size:73
Alignment explanation
Indices: 72431748--72431929 Score: 273
Period size: 73 Copynumber: 2.5 Consensus size: 73
72431738 TAAGGATATG
* *
72431748 CAATCTTAGATATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATATGTAATCTTA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATA--CAATCTTA
72431813 GATATGA-TA
64 GATATGATTA
* *
72431822 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATGTGATACAATCTTCGA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGA
*
72431886 TATGATTG
66 TATGATTA
72431894 CAATCTTAGATATGATATGCAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATGCAATCTTAGATATGATATG
72431930 ATTTTGTAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
71 19 0.19
72 18 0.18
73 48 0.48
74 16 0.16
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (73 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGA
TATGATTA
Found at i:72431864 original size:54 final size:54
Alignment explanation
Indices: 72431742--72431922 Score: 299
Period size: 54 Copynumber: 3.3 Consensus size: 54
72431732 AATCTTTAAG
*
72431742 GATATGCAATCTTAGATATGATATGCAATCTTAGATGTGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATA--CAATCTTAGATATGAT-TGCAATCTTAGATAT
*
72431799 GATATGTAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATAT
* *
72431853 GATATGCAATCTTAGATGTGATACAATCTTCGATATGATTGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATAT
72431907 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
72431923 AGATATGATT
Statistics
Matches: 119, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
54 82 0.69
55 15 0.13
57 22 0.18
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (54 bp):
GATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATAT
Found at i:72437655 original size:14 final size:13
Alignment explanation
Indices: 72437628--72437666 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
72437618 CTTCTATTTC
*
72437628 AAAAAAAAAGAGA
1 AAAAAAAAAAAGA
72437641 AAAAAATAAAAAGA
1 AAAAAA-AAAAAGA
72437655 AAAAAGAAAAAA
1 AAAAA-AAAAAA
72437667 AATAGAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.26
14 16 0.70
15 1 0.04
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:72437657 original size:21 final size:20
Alignment explanation
Indices: 72437628--72437667 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
72437618 CTTCTATTTC
*
72437628 AAAAAAAAAGAGAAAAAAAT
1 AAAAAAAAAAAGAAAAAAAT
72437648 AAAAAGAAAAAAGAAAAAAA
1 AAAAA-AAAAAAGAAAAAAA
72437668 ATAGAGAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAAAAAT
Found at i:72438684 original size:44 final size:43
Alignment explanation
Indices: 72438628--72439393 Score: 446
Period size: 44 Copynumber: 17.4 Consensus size: 43
72438618 GATCCAAGAT
* *
72438628 GATTTGGCGTCTCTGTATTGTCATG-GAGCAGATCGAAGATACCA
1 GATTTGGCATCTCTGTATTGGCA-GAGAGCAGATCGAAGATA-CA
* * * *
72438672 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCAAAGACATAGCT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--ATA-CA
* * * ** * **
72438718 GATTTGGCTTTCACGTGT-TTACGTTGA-AGCAAATATAAGAT---
1 GATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGATACA
* * * *
72438759 GATTTAGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATGACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* *
72438803 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATA-CA
* * * ** * * *
72438850 GATTTGAC-TTTCATGTGTTTAC-GTTGAAGCAAATCTAAGAT---
1 GATTTGGCATCTC-TGTATTGGCAG-AG-AGCAGATCGAAGATACA
*
72438891 GATTTGACATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* * *
72438935 GATTTGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATGATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* * *
72438979 TATTTGGCATCTCTGTATTCG-ATGGAGAGCAGATCGAAGATATAGCT
1 GATTTGGCATCTCTGTATTGGCA--GAGAGCAGATCGAAG--ATA-CA
* * * ** *
72439026 GATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAGAT---
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGATACA
* *
72439067 GATTTGGCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CA
* *
72439111 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
*
72439155 GATTTGGCATCTCTGTATTCGGCAGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATA-CA
* * * ** *
72439202 GATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAGAT---
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGATACA
72439243 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
** *
72439287 GATTTGAAATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
** * * * *
72439331 GATTTGGTGTCTCTGTATTGGCAAAGAGTAGATCGAAGACAGAA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CA
*
72439375 GATTTGGCATCTCCGTATT
1 GATTTGGCATCTCTGTATT
72439394 TGACGGGGAG
Statistics
Matches: 567, Mismatches: 97, Indels: 116
0.73 0.12 0.15
Matches are distributed among these distances:
39 17 0.03
40 57 0.10
41 42 0.07
42 4 0.01
43 3 0.01
44 258 0.46
45 58 0.10
46 22 0.04
47 80 0.14
48 18 0.03
49 8 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACA
Found at i:72438889 original size:132 final size:129
Alignment explanation
Indices: 72438611--72438973 Score: 514
Period size: 132 Copynumber: 2.8 Consensus size: 129
72438601 ATATTTACAC
* * *
72438611 TGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTGTCATG-GAGCAGATCGAAGATACCAGAT
1 TGAAGCAAATCTAAGATGATTT-GCGTCTCTGTATTGGCA-GAGAGCAGATCGAAGATA-CAGAT
* *
72438675 TTGGCGTCTCTGTATTGGCAGG-GAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTA
63 TTGGCATCTCTGTATTGGC-GGAGAGCAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTA
72438739 CGT
127 CGT
* * *
72438742 TGAAGCAAATATAAGATGATTTAGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATGACTGATT
1 TGAAGCAAATCTAAGATGATTT-GCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATT
* *
72438807 TGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTGATTTGACTTTCATGTGTTTAC
64 TGGCATCTCTGTATT-GGCGGAGAGCAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTAC
72438872 GT
128 GT
*
72438874 TGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATT
1 TGAAGCAAATCTAAGATGATTTG-CGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATT
**
72438939 TGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGA
64 TGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGA
72438974 TGATATATTT
Statistics
Matches: 208, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
130 1 0.00
131 88 0.42
132 119 0.57
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (129 bp):
TGAAGCAAATCTAAGATGATTTGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATACAGATTTG
GCATCTCTGTATTGGCGGAGAGCAGATCAAAGACATAGCTGATTTGACTTTCACGTGTTTACGT
Found at i:72438950 original size:176 final size:177
Alignment explanation
Indices: 72438759--72439371 Score: 939
Period size: 176 Copynumber: 3.5 Consensus size: 177
72438749 AATATAAGAT
* * * *
72438759 GATTTAGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATGACT-GATTTGGCATCTCTGTATTC
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACTAGATTTGGCATCTCTGTATTC
* * * * *
72438823 GGCGGAGAGCAGATCGAAGACATAGCTGATTTGACTTTCATGTGTTTACGTTGAAGCAAATCTAA
66 GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
*
72438888 GATGATTTGACATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
131 GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
72438935 GATTTGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATGA-TATATTTGGCATCTCTGTATTC
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACTAGATTTGGCATCTCTGTATTC
*** *
72438999 GATGGAGAGCAGATCGAAGATATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
66 GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
* **
72439064 GATGATTTGGCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAGTA
131 GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
*
72439111 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCAAAGATGAC-AGATTTGGCATCTCTGTATTC
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACTAGATTTGGCATCTCTGTATTC
72439175 GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
66 GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
72439240 GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
131 GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
** * * **
72439287 GATTTGAAATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-AATAGATTTGGTGTCTCTGTATT-
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACTAGATTTGGCATCTCTGTATTC
* *
72439350 GGCAAAGAGTAGATCGAAGACA
66 GGCAGAGAGCAGATCGAAGACA
72439372 GAAGATTTGG
Statistics
Matches: 398, Mismatches: 36, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
175 22 0.06
176 376 0.94
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (177 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACTAGATTTGGCATCTCTGTATTC
GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:72439498 original size:352 final size:350
Alignment explanation
Indices: 72438768--72439502 Score: 928
Period size: 352 Copynumber: 2.1 Consensus size: 350
72438758 TGATTTAGCG
* * * * *
72438768 TCTCTGTATTGGCAGAGAGTAGATCGAAGATGACTGATTTGGCATCTCTGTATTCGGCGGAGAGC
1 TCTCTGTATTAGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
* *
72438833 AGATCGAAGACATAGCTGATTTGACTTTCATGTGTTTACGTTGAAGCAAATCTAAGATGATTTGA
66 AGATCGAAGACATAGCTGATTTGACTTCCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGA
** *
72438898 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGTAGAGAG
131 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGAAATCTCTGTATTGGCAGAGAG
* * * * **
72438963 CAGATCAAAGATGATATATTTGGCATCTCTGTATTCGATGGAGAGCAGATCGAAGATATAGCTGA
196 CAGATCAAAGATAATAGATTTGGCATCTCTGTATTCGA-GAAGAGCAGATCGAAGA-ACAGAAGA
* * * * *
72439028 TTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAAAG
259 TTTGGCATCCACGTATTTACGTGGAAGCAAGTCCAAGATGATTTGGCATCTCTGTATTGACAAAG
* * * *
72439093 AGCAGATCGAAGATAGTAGATTTGGCA
324 AACAGATCGAAGATAGCAGATCTGACA
* *
72439120 TCTCTGTATTGGCAGAGAGTAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
1 TCTCTGTATTAGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
* * *
72439185 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
66 AGATCGAAGACATAGCTGATTTGACTTCCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGA
72439250 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGAAATCTCTGTATTGGCAGAGAG
131 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGAAATCTCTGTATTGGCAGAGAG
* ** * *
72439315 CAGATCGAAGATAATAGATTTGGTGTCTCTGTATTGGCA-AAGAGTAGATCGAAG-ACAGAAGAT
196 CAGATCAAAGATAATAGATTTGGCATCTCTGTATTCG-AGAAGAGCAGATCGAAGAACAGAAGAT
* * *
72439378 TTGGCATCTC-CGTATTTGACG-GGGAGC-AGATCCAAGATGATTTGGCAT-TCCTGTGTTTACA
260 TTGGCATC-CACGTATTT-ACGTGGAAGCAAG-TCCAAGATGATTTGGCATCT-CTGTATTGACA
**
72439439 GGGAACAGATCGAAGACATAGCAGATCTGACA
321 AAGAACAGATCGAAG--ATAGCAGATCTGACA
* *
72439471 TTCCTGTGTTTATAGC-GA-AGCAGATCAAAGAT
1 -T-CTCTGTAT-TAGCAGAGAGCAGATCAAAGAT
72439503 TTTAACATGG
Statistics
Matches: 333, Mismatches: 40, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
348 3 0.01
349 60 0.18
350 4 0.01
351 25 0.08
352 229 0.69
353 9 0.03
354 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (350 bp):
TCTCTGTATTAGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
AGATCGAAGACATAGCTGATTTGACTTCCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGA
CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGAAATCTCTGTATTGGCAGAGAG
CAGATCAAAGATAATAGATTTGGCATCTCTGTATTCGAGAAGAGCAGATCGAAGAACAGAAGATT
TGGCATCCACGTATTTACGTGGAAGCAAGTCCAAGATGATTTGGCATCTCTGTATTGACAAAGAA
CAGATCGAAGATAGCAGATCTGACA
Found at i:72439561 original size:44 final size:45
Alignment explanation
Indices: 72439416--72439733 Score: 161
Period size: 44 Copynumber: 7.1 Consensus size: 45
72439406 GATCCAAGAT
* * *
72439416 GATTTGGCATTCCTGTGTTTACAGGGAAC-AGATCGAAGACATAGCA
1 GATTTGACATCCCTGTGTTTACAGGGAACAAGATTGAAG--ATAGCA
* * * * ** ***
72439462 GATCTGACATTCCTGTGTTTATAGCGAAGC-AGATCAAAGATTTTA
1 GATTTGACATCCCTGTGTTTACAGGGAA-CAAGATTGAAGATAGCA
** * *
72439507 -ACATGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCA
1 GATTTGACATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCA
* *
72439550 GATTTGTCATCCCTGTGTTTACAGGGAAC-AGATGGAAGACATAGCA
1 GATTTGACATCCCTGTGTTTACAGGGAACAAGATTGAAG--ATAGCA
* * * * * ** **
72439596 GATCTGACATTCCTATGCTTACAGCGAAGTAGATTGAAGATTTCA
1 GATTTGACATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCA
* * * *
72439641 GCA--TGGCATCCCTGTGTTTATAAGGAACAAG-TTGAAGATAGTA
1 G-ATTTGACATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCA
* * * * * *
72439684 GATTTGGCGTCTCTGTATTAGACAGGGAGCAA-ATTGAAGA-AGCA
1 GATTTGACATCCCTGTGTT-TACAGGGAACAAGATTGAAGATAGCA
*
72439728 AATTTG
1 GATTTG
72439734 GTGTCTCTGT
Statistics
Matches: 206, Mismatches: 54, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
42 1 0.00
43 20 0.10
44 92 0.45
45 23 0.11
46 53 0.26
47 17 0.08
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (45 bp):
GATTTGACATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCA
Found at i:72439582 original size:134 final size:134
Alignment explanation
Indices: 72439416--72439691 Score: 435
Period size: 134 Copynumber: 2.1 Consensus size: 134
72439406 GATCCAAGAT
* * *
72439416 GATTTGGCATTCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGTT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
* * *
72439481 TATAGCGAAGCAGATCAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGAT
72439546 AGCA
131 AGCA
* *
72439550 GATTTGTCATCCCTGTGTTTACAGGGAACAGATGGAAGACATAGCAGATCTGACATTCCTATGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
* ** *
72439615 TACAGCGAAGTAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGAT
*
72439680 AGTA
131 AGCA
72439684 GATTTGGC
1 GATTTGGC
72439692 GTCTCTGTAT
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 128 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
TACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGAT
AGCA
Found at i:72439618 original size:46 final size:45
Alignment explanation
Indices: 72439423--72439619 Score: 170
Period size: 44 Copynumber: 4.4 Consensus size: 45
72439413 GATGATTTGG
72439423 CATTCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGA
1 CATTCCTGTGTTTACAGGGAACAGAT-GAAGACATAGCAGATCTGA
* * * * *** *
72439469 CATTCCTGTGTTTATAGCGAAGCAGATCAA-AGATTTTA-A-CATGG
1 CATTCCTGTGTTTACAGGGAA-CAGATGAAGACATAGCAGATC-TGA
* * * * *
72439513 CATCCCTGTGTTTATAGGGAACAAGTTGAAG--ATAGCAGATTTGT
1 CATTCCTGTGTTTACAGGGAAC-AGATGAAGACATAGCAGATCTGA
*
72439557 CATCCCTGTGTTTACAGGGAACAGATGGAAGACATAGCAGATCTGA
1 CATTCCTGTGTTTACAGGGAACAGAT-GAAGACATAGCAGATCTGA
* *
72439603 CATTCCTATGCTTACAG
1 CATTCCTGTGTTTACAG
72439620 CGAAGTAGAT
Statistics
Matches: 118, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
43 8 0.07
44 55 0.47
45 4 0.03
46 46 0.39
47 5 0.04
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
CATTCCTGTGTTTACAGGGAACAGATGAAGACATAGCAGATCTGA
Found at i:72440157 original size:19 final size:19
Alignment explanation
Indices: 72440133--72440276 Score: 199
Period size: 19 Copynumber: 7.8 Consensus size: 19
72440123 AATCTTTAAG
*
72440133 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
72440152 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72440171 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
72440190 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
72440207 GAT-TGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
72440225 GATATACAATCTTAGATGT
1 GATATGCAATCTTAGATAT
*
72440244 GATA--CAATCTTCGATAT
1 GATATGCAATCTTAGATAT
*
72440261 GATATGGAATCTTAGA
1 GATATGCAATCTTAGA
72440277 AGATATGATT
Statistics
Matches: 111, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
17 31 0.28
18 15 0.14
19 65 0.59
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:72440229 original size:54 final size:55
Alignment explanation
Indices: 72440139--72440283 Score: 215
Period size: 54 Copynumber: 2.7 Consensus size: 55
72440129 TAAGGATATG
* *
72440139 CAATCTTAGATGTGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGAAATCTTAGATATGATATGCAATCTTAGATATGATA
* *
72440194 CAATCTTAGATATGAT-TGAAATCTTAGATATGATATACAATCTTAGATGTGATA
1 CAATCTTAGATATGATATGAAATCTTAGATATGATATGCAATCTTAGATATGATA
* *
72440248 CAATCTTCGATATGATATGGAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATGAAATCTTAGATATGATATG
72440284 ATTTTGTAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 5 0.06
54 51 0.62
55 26 0.32
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (55 bp):
CAATCTTAGATATGATATGAAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:72442084 original size:45 final size:45
Alignment explanation
Indices: 72442016--72442119 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
72442006 TGTCTTCGTA
* * * * *
72442016 CCCACAACCTACATGGCATCTTGTCTG-TGGATATTGGTGGT-TTTG
1 CCCACAACCTACATCGAAACTTGTCTGAT-AATATTGGT-GTATTCG
72442061 CCCACAACCTACATCGAAACTTGTCTGATAATATTGGTGTATTCG
1 CCCACAACCTACATCGAAACTTGTCTGATAATATTGGTGTATTCG
*
72442106 TCCACAACCTACAT
1 CCCACAACCTACAT
72442120 GGCAGCTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
44 2 0.04
45 48 0.94
46 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (45 bp):
CCCACAACCTACATCGAAACTTGTCTGATAATATTGGTGTATTCG
Found at i:72443482 original size:30 final size:30
Alignment explanation
Indices: 72443430--72443514 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
72443420 TCCTGGAGCA
* *
72443430 ATTTTGACTTGTTTGAAAATCATTTAAAACG
1 ATTTTAACTTGATTG-AAATCATTTAAAACG
*
72443461 ATTTTAACTTGATTGAAATCATTTAAAATG
1 ATTTTAACTTGATTGAAATCATTTAAAACG
*
72443491 ATTTTAA-TTGGATTTAAATCATTT
1 ATTTTAACTT-GATTGAAATCATTT
72443515 TGACTTGGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.04
30 34 0.69
31 13 0.27
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (30 bp):
ATTTTAACTTGATTGAAATCATTTAAAACG
Found at i:72443514 original size:20 final size:21
Alignment explanation
Indices: 72443481--72443534 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
72443471 GATTGAAATC
*
72443481 ATTTAAAATGATTTT-AATTGG
1 ATTT-AAATCATTTTGAATTGG
*
72443502 ATTTAAATCATTTTGACTTGG
1 ATTTAAATCATTTTGAATTGG
*
72443523 -TTAAAATCATTT
1 ATTTAAATCATTT
72443535 GCACTTGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (21 bp):
ATTTAAATCATTTTGAATTGG
Found at i:72443848 original size:18 final size:18
Alignment explanation
Indices: 72443803--72443837 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72443793 ATGAGTTTAC
*
72443803 AAATATTTTAAATTATTG
1 AAATCTTTTAAATTATTG
72443821 AAATCTTTTAAATTATT
1 AAATCTTTTAAATTATT
72443838 TATGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATCTTTTAAATTATTG
Found at i:72448306 original size:13 final size:13
Alignment explanation
Indices: 72448288--72448313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72448278 CAAAAAGTGA
72448288 AAATTCTCAAAGG
1 AAATTCTCAAAGG
72448301 AAATTCTCAAAGG
1 AAATTCTCAAAGG
72448314 CACCAAAAAT
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:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
AAATTCTCAAAGG
Done.