Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 69 of 147
Found at i:13013743 original size:22 final size:22
Alignment explanation
Indices: 13013718--13013818 Score: 114
Period size: 22 Copynumber: 4.6 Consensus size: 22
13013708 ATTATCAATG
*
13013718 ATTAACTAATTTGCAACT-AATT
1 ATTAA-TAATTTACAACTAAATT
* *
13013740 ATTATTTATTTACAACTAAATT
1 ATTAATAATTTACAACTAAATT
* * **
13013762 ATGAGTAATTTATTACTAAATT
1 ATTAATAATTTACAACTAAATT
*
13013784 ATTAATAATTTACATCTAAATT
1 ATTAATAATTTACAACTAAATT
13013806 ATTAATAATTTAC
1 ATTAATAATTTAC
13013819 TATTATGTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 10 0.15
22 55 0.85
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (22 bp):
ATTAATAATTTACAACTAAATT
Found at i:13013955 original size:21 final size:22
Alignment explanation
Indices: 13013901--13013982 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
13013891 ATTATTACAG
* * * *
13013901 ATTTATTATAAAATTAACCATG
1 ATTTATTATCAAATTATCTATA
* *
13013923 ATTCATTATCAAATTAT-TATTT
1 ATTTATTATCAAATTATCTA-TA
13013945 ATTTA-TATCAAATTATCTATA
1 ATTTATTATCAAATTATCTATA
*
13013966 ATTTATTATCAAGTTAT
1 ATTTATTATCAAATTAT
13013983 AATTGATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
21 18 0.37
22 31 0.63
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTATTATCAAATTATCTATA
Found at i:13013997 original size:22 final size:22
Alignment explanation
Indices: 13013972--13014017 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13013962 TATAATTTAT
*
13013972 TATCAAGTTATAATTGATTAAC
1 TATCAAGTTATAACTGATTAAC
* *
13013994 TATCATGTTATTACTGATTAAC
1 TATCAAGTTATAACTGATTAAC
13014016 TA
1 TA
13014018 CTGCTAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (22 bp):
TATCAAGTTATAACTGATTAAC
Found at i:13014091 original size:22 final size:22
Alignment explanation
Indices: 13014065--13014263 Score: 97
Period size: 22 Copynumber: 9.0 Consensus size: 22
13014055 AATTAACTTA
*
13014065 AAATTATCATTGACTTACTATT
1 AAATTATCATTGATTTACTATT
*
13014087 AAATTAT--TTGTTATTCACTATT
1 AAATTATCATTG--ATTTACTATT
*
13014109 AAATTTATCAATT-AATTACTATT
1 AAA-TTATC-ATTGATTTACTATT
* * *
13014132 ATATTGA-AATAGATTTACTATT
1 AAATT-ATCATTGATTTACTATT
*
13014154 AAATTATCATTAATTTACTATT
1 AAATTATCATTGATTTACTATT
* * * *
13014176 AAGTTATTATTAATTT-CTTAAT
1 AAATTATCATTGATTTAC-TATT
* * *
13014198 AAGTTATCAATT-ATTAACTACT
1 AAATTATC-ATTGATTTACTATT
* **
13014220 AAATTATTACTT-ATTTTTTATT
1 AAATTATCA-TTGATTTACTATT
** *
13014242 ACCTTATCATTTATTTACTATT
1 AAATTATCATTGATTTACTATT
13014264 GTATTGTTAT
Statistics
Matches: 134, Mismatches: 29, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
20 3 0.02
21 7 0.05
22 103 0.77
23 19 0.14
26 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.51
Consensus pattern (22 bp):
AAATTATCATTGATTTACTATT
Found at i:13014117 original size:45 final size:41
Alignment explanation
Indices: 13014065--13014184 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 41
13014055 AATTAACTTA
* *
13014065 AAATTATCATTGACTTACTATTAAATTATTTGTTATTCACTATT
1 AAATTATCATT-AATTACTATTAAATTATTAG--ATTCACTATT
* * *
13014109 AAATTTATCAATTAATTACTATTATATTGAAATAGATTTACTATT
1 AAA-TTATC-ATTAATTACTATTAAATT--ATTAGATTCACTATT
*
13014154 AAATTATCATTAATTTACTATTAAGTTATTA
1 AAATTATCATTAA-TTACTATTAAATTATTA
13014185 TTAATTTCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.05
43 5 0.08
44 19 0.30
45 30 0.48
46 3 0.05
47 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.48
Consensus pattern (41 bp):
AAATTATCATTAATTACTATTAAATTATTAGATTCACTATT
Found at i:13014176 original size:11 final size:11
Alignment explanation
Indices: 13014144--13014191 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
13014134 ATTGAAATAG
13014144 ATTTACTATTA
1 ATTTACTATTA
*
13014155 AATTA-TCATTA
1 ATTTACT-ATTA
13014166 ATTTACTATTA
1 ATTTACTATTA
* *
13014177 AGTTATTATTA
1 ATTTACTATTA
13014188 ATTT
1 ATTT
13014192 CTTAATAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
10 1 0.03
11 28 0.93
12 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (11 bp):
ATTTACTATTA
Found at i:13014205 original size:44 final size:43
Alignment explanation
Indices: 13014157--13014263 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 43
13014147 TACTATTAAA
* *
13014157 TTATCATTAATTTACTATTAAGTTATTA-TTAATTTCTTAATAAG
1 TTATCATT-ATTTACTATTAAATTATTACTT-ATTTCTTAATAAC
* * * * *
13014201 TTATCAATTATTAACTACTAAATTATTACTTATTTTTTATTACC
1 TTATC-ATTATTTACTATTAAATTATTACTTATTTCTTAATAAC
13014245 TTATCATTTATTTACTATT
1 TTATCA-TTATTTACTATT
13014264 GTATTGTTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.02
44 45 0.88
45 5 0.10
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (43 bp):
TTATCATTATTTACTATTAAATTATTACTTATTTCTTAATAAC
Found at i:13014414 original size:11 final size:11
Alignment explanation
Indices: 13014396--13014445 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
13014386 ATTAAAATTG
13014396 ATTTATCATTA
1 ATTTATCATTA
* *
13014407 AATTATCACTA
1 ATTTATCATTA
*
13014418 ATTTATTATTA
1 ATTTATCATTA
*
13014429 AGTTATCATTA
1 ATTTATCATTA
13014440 ATTTAT
1 ATTTAT
13014446 TACTAAGTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (11 bp):
ATTTATCATTA
Found at i:13014446 original size:22 final size:22
Alignment explanation
Indices: 13014396--13014510 Score: 88
Period size: 22 Copynumber: 5.2 Consensus size: 22
13014386 ATTAAAATTG
* * *
13014396 ATTTATCATTAAATTATCACTA
1 ATTTATTATTAAGTTATCATTA
13014418 ATTTATTATTAAGTTATCATTA
1 ATTTATTATTAAGTTATCATTA
* * *
13014440 ATTTATTACTAAGTTATTAATA
1 ATTTATTATTAAGTTATCATTA
* * **
13014462 ATTAACTACCAAGTTATCACTT-
1 ATTTATTATTAAGTTATCA-TTA
* * *
13014484 ATTTTTTGTTAAGTTATCCTTA
1 ATTTATTATTAAGTTATCATTA
*
13014506 CTTTA
1 ATTTA
13014511 ATACTATATT
Statistics
Matches: 71, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
21 2 0.03
22 68 0.96
23 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTATTATTAAGTTATCATTA
Found at i:13014649 original size:22 final size:22
Alignment explanation
Indices: 13014621--13014672 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
13014611 CAACTATTGA
13014621 ACTATTAAATTATTATTCA-TTT
1 ACTATTAAATTATTATT-AGTTT
13014643 ACTATTAAATTATTATTAGTTT
1 ACTATTAAATTATTATTAGTTT
13014665 ACTATTAA
1 ACTATTAA
13014673 GTTGTCGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (22 bp):
ACTATTAAATTATTATTAGTTT
Found at i:13015470 original size:22 final size:22
Alignment explanation
Indices: 13015445--13015491 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
13015435 ATATAAAAGA
*
13015445 TAATAACATCTCAAATAATGTT
1 TAATAACATCTCAAATAATATT
13015467 TAATAACATCTCAAATAATATT
1 TAATAACATCTCAAATAATATT
13015489 TAA
1 TAA
13015492 CTCTATGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (22 bp):
TAATAACATCTCAAATAATATT
Found at i:13017089 original size:3 final size:3
Alignment explanation
Indices: 13017081--13017112 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13017071 CTTTTTAGGG
13017081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13017113 TTGTGTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13017892 original size:30 final size:30
Alignment explanation
Indices: 13017856--13017993 Score: 86
Period size: 30 Copynumber: 4.6 Consensus size: 30
13017846 AATAATTTTT
13017856 AAAATTTTTATAAAATTCCAAAAAAATCAA
1 AAAATTTTTATAAAATTCCAAAAAAATCAA
** * * *
13017886 AAAATTTAAATGAAAAAT-GAAAAAAATC-T
1 AAAATTTTTAT-AAAATTCCAAAAAAATCAA
* ***
13017915 AAAATTTTTTTAAAAATTCC-AAAAAATTTG
1 AAAATTTTTAT-AAAATTCCAAAAAAATCAA
* * **
13017945 AAATTTTTTTTAAAATTATAAAAAAATTCAAA
1 AAAATTTTTATAAAATTCCAAAAAAA-TC-AA
*
13017977 AAAATCTTTA-AAAATTC
1 AAAATTTTTATAAAATTC
13017994 TAAATTTTTT
Statistics
Matches: 79, Mismatches: 23, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
29 26 0.33
30 34 0.43
31 12 0.15
32 7 0.09
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAATTTTTATAAAATTCCAAAAAAATCAA
Found at i:13017960 original size:29 final size:29
Alignment explanation
Indices: 13017906--13017961 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
13017896 TGAAAAATGA
13017906 AAAAAATCTAAAATTTTTTTAAAAATTCC
1 AAAAAATCTAAAATTTTTTTAAAAATTCC
* * *
13017935 AAAAAATTTGAAATTTTTTTTAAAATT
1 AAAAAATCTAAAATTTTTTTAAAAATT
13017962 ATAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (29 bp):
AAAAAATCTAAAATTTTTTTAAAAATTCC
Found at i:13017967 original size:29 final size:29
Alignment explanation
Indices: 13017898--13017969 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
13017888 AATTTAAATG
*
13017898 AAAAATGA-AAAAAATCTAAAATTTTTTT
1 AAAAATTACAAAAAATCTAAAATTTTTTT
* * *
13017926 AAAAATTCCAAAAAATTTGAAATTTTTTT
1 AAAAATTACAAAAAATCTAAAATTTTTTT
* *
13017955 TAAAATTATAAAAAA
1 AAAAATTACAAAAAA
13017970 ATTCAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATTACAAAAAATCTAAAATTTTTTT
Found at i:13018086 original size:9 final size:9
Alignment explanation
Indices: 13018055--13018162 Score: 87
Period size: 10 Copynumber: 11.7 Consensus size: 9
13018045 AATAATTTCA
13018055 AAAAATTTT
1 AAAAATTTT
**
13018064 AGAAAATTAA
1 A-AAAATTTT
13018074 AAAAATTTT
1 AAAAATTTT
13018083 -AAAATTTT
1 AAAAATTTT
*
13018091 -AAAATTCT
1 AAAAATTTT
**
13018099 AAAAAGTTCA
1 AAAAA-TTTT
13018109 AAAAATTTTT
1 AAAAA-TTTT
13018119 AAAAATTTT
1 AAAAATTTT
13018128 AAAAAAGTTTT
1 -AAAAA-TTTT
*
13018139 AAAAAATTT
1 AAAAATTTT
13018148 -AAAATTTCT
1 AAAAATTT-T
13018157 AAAAAT
1 AAAAAT
13018163 ACTTTTAGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
8 21 0.26
9 19 0.23
10 37 0.46
11 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:13018122 original size:11 final size:11
Alignment explanation
Indices: 13018108--13018147 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
13018098 TAAAAAGTTC
13018108 AAAAAATTTTT
1 AAAAAATTTTT
13018119 -AAAAA-TTTT
1 AAAAAATTTTT
*
13018128 AAAAAAGTTTT
1 AAAAAATTTTT
13018139 AAAAAATTT
1 AAAAAATTT
13018148 AAAATTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 4 0.15
10 10 0.38
11 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAAAAATTTTT
Found at i:13018176 original size:29 final size:28
Alignment explanation
Indices: 13018027--13018169 Score: 89
Period size: 29 Copynumber: 5.0 Consensus size: 28
13018017 CAAATTTTCC
* *
13018027 AAAATTCTAAAATTCTAAAATAA-TTTCAA
1 AAAATT-TAAAATTTTAAAA-AACTTTTAA
* *
13018056 AAAATTTTAGAAA-ATTAAAAAAATTTT-A
1 AAAA-TTTA-AAATTTTAAAAAACTTTTAA
* * * *
13018084 AAATTTTAAAATTCT-AAAAA-GTTCAA
1 AAAATTTAAAATTTTAAAAAACTTTTAA
*
13018110 AAAATTTTTAAAAATTTTAAAAAAGTTTTAA
1 AAAA--TTT-AAAATTTTAAAAAACTTTTAA
13018141 AAAATTTAAAATTTCTAAAAATACTTTTA
1 AAAATTTAAAATTT-TAAAAA-ACTTTTA
13018170 GAAATTTTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 23
0.71 0.10 0.18
Matches are distributed among these distances:
25 2 0.02
26 12 0.13
27 5 0.06
28 16 0.18
29 30 0.34
30 16 0.18
31 8 0.09
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATTTAAAATTTTAAAAAACTTTTAA
Found at i:13018178 original size:10 final size:10
Alignment explanation
Indices: 13018109--13018180 Score: 67
Period size: 10 Copynumber: 7.2 Consensus size: 10
13018099 AAAAAGTTCA
13018109 AAAAATTTTT
1 AAAAATTTTT
*
13018119 AAAAATTTTA
1 AAAAATTTTT
*
13018129 AAAAAGTTTT
1 AAAAATTTTT
*
13018139 AAAAA-ATTT
1 AAAAATTTTT
*
13018148 -AAAATTTCT
1 AAAAATTTTT
13018157 AAAAATACTTTT
1 AAAAAT--TTTT
*
13018169 AGAAATTTTT
1 AAAAATTTTT
13018179 AA
1 AA
13018181 TATATTTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 4 0.08
9 5 0.10
10 32 0.65
12 8 0.16
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:13018355 original size:31 final size:31
Alignment explanation
Indices: 13018306--13018365 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
13018296 AAATTTCTTT
** * *
13018306 AAAATTTTTAAATATTTTATAATTTTTTTCC
1 AAAATTTGAAAATATTTTAGAATTGTTTTCC
*
13018337 AAAATTTGAAAATTTTTTAGAATTGTTTT
1 AAAATTTGAAAATATTTTAGAATTGTTTT
13018366 GAATATTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (31 bp):
AAAATTTGAAAATATTTTAGAATTGTTTTCC
Found at i:13018390 original size:9 final size:9
Alignment explanation
Indices: 13018074--13018430 Score: 58
Period size: 10 Copynumber: 37.0 Consensus size: 9
13018064 AGAAAATTAA
*
13018074 AAAAATTTT
1 AAAATTTTT
13018083 AAAA-TTTT
1 AAAATTTTT
* *
13018091 AAAATTCTA
1 AAAATTTTT
***
13018100 AAAAGTTCAA
1 AAAA-TTTTT
13018110 AAAATTTTT
1 AAAATTTTT
*
13018119 AAAAATTTTAA
1 -AAAATTTT-T
*
13018130 AAAAGTTTT
1 AAAATTTTT
**
13018139 AAAAAATTT
1 AAAATTTTT
*
13018148 AAAATTTCTA
1 AAAATTT-TT
13018158 AAAATACTTTT
1 AAAAT--TTTT
13018169 AGAAATTTTT
1 A-AAATTTTT
*
13018179 AATATATTTT
1 AAAAT-TTTT
*
13018189 AAATTTTTTTT
1 AAA--ATTTTT
*
13018200 AGAATTTCTTTT
1 A-AA-AT-TTTT
* *
13018212 CAATTTTTT
1 AAAATTTTT
* * *
13018221 TAAGTTTTC
1 AAAATTTTT
13018230 AAAATTTTT
1 AAAATTTTT
*
13018239 AGAATTTTTT
1 A-AAATTTTT
*
13018249 AAAA--ATT
1 AAAATTTTT
* *
13018256 ATATTTTTT
1 AAAATTTTT
13018265 AAGAATTGTTT
1 AA-AATT-TTT
* *
13018276 TAATTGTTTT
1 AAAAT-TTTT
**
13018286 AATTTTTTT
1 AAAATTTTT
*
13018295 GAAATTTCTTT
1 -AAAATT-TTT
13018306 AAAATTTTT
1 AAAATTTTT
13018315 AAATATTTTAT
1 AAA-ATTTT-T
**
13018326 AATTTTTTT
1 AAAATTTTT
*
13018335 CCAAAA-TTTG
1 --AAAATTTTT
13018345 AAAATTTTTT
1 AAAA-TTTTT
*
13018355 AGAATTGTTT
1 AAAATT-TTT
**
13018365 TGAATATTTT
1 AAAAT-TTTT
*
13018375 -AAGTTTTT
1 AAAATTTTT
*
13018383 AAAATTTTAA
1 AAAATTTT-T
*
13018393 AAAAATTTT
1 AAAATTTTT
*
13018402 AATATTTTTT
1 AA-AATTTTT
*
13018412 AGAATTCTTT
1 AAAATT-TTT
*
13018422 AAAGTTTTT
1 AAAATTTTT
13018431 TTTTATTTTT
Statistics
Matches: 256, Mismatches: 59, Indels: 66
0.67 0.15 0.17
Matches are distributed among these distances:
7 4 0.02
8 16 0.06
9 78 0.30
10 119 0.46
11 26 0.10
12 13 0.05
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (9 bp):
AAAATTTTT
Found at i:13019704 original size:42 final size:42
Alignment explanation
Indices: 13019637--13019746 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
13019627 TTTATTAAAG
* * ***
13019637 AAACACCACTAACTTGTTGCCTTTAGTGGCATTTGTACTTAA
1 AAACACCACTAACTTCTTGCTTTTAGCAACATTTGTACTTAA
* * * * *
13019679 AAATACCATTAACTTCTTGCTTTTAGCAATATTTTTATTTAA
1 AAACACCACTAACTTCTTGCTTTTAGCAACATTTGTACTTAA
*
13019721 AAACACCACTAACTTCTTACTTTTAG
1 AAACACCACTAACTTCTTGCTTTTAG
13019747 GTGCTTGGAG
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (42 bp):
AAACACCACTAACTTCTTGCTTTTAGCAACATTTGTACTTAA
Found at i:13024551 original size:16 final size:17
Alignment explanation
Indices: 13024523--13024555 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
13024513 TACCTATCAA
13024523 TAAATATATTTATTAAT
1 TAAATATATTTATTAAT
13024540 TAAATA-ATTTATTAAT
1 TAAATATATTTATTAAT
13024556 ATTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAATATATTTATTAAT
Found at i:13027804 original size:30 final size:28
Alignment explanation
Indices: 13027770--13027899 Score: 82
Period size: 30 Copynumber: 4.4 Consensus size: 28
13027760 ATTAATTTAT
*
13027770 ATTAAAGATTTATTTTAAAATAAATTACAA
1 ATTAAAAATTTA-TTTAAAATAAATTA-AA
* * ** *
13027800 ATTAAAAACTTACTTGAGCACAAATTAAAA
1 ATTAAAAATTTA-TTTAAAATAAATT-AAA
*
13027830 ATTAAAAATTTATTTAGATATAAATTAAA
1 ATTAAAAATTTATTTA-AAATAAATTAAA
* * * *
13027859 GGTTATAGATTTATTTAAATTAAA-TAAA
1 -ATTAAAAATTTATTTAAAATAAATTAAA
*
13027887 ATAATAAAATTTA
1 ATTA-AAAATTTA
13027900 ATGTATCAAA
Statistics
Matches: 75, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
27 2 0.03
28 10 0.13
29 11 0.15
30 51 0.68
31 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (28 bp):
ATTAAAAATTTATTTAAAATAAATTAAA
Found at i:13036173 original size:19 final size:19
Alignment explanation
Indices: 13036149--13036185 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13036139 AATAAAAATT
13036149 TGATAAAAGCATCATTTGA
1 TGATAAAAGCATCATTTGA
13036168 TGATAAAAGCATCATTTG
1 TGATAAAAGCATCATTTG
13036186 TCATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (19 bp):
TGATAAAAGCATCATTTGA
Found at i:13045021 original size:18 final size:19
Alignment explanation
Indices: 13044998--13045034 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13044988 AAAAAAAAGG
13044998 AAAAT-GAAAATATTTATT
1 AAAATGGAAAATATTTATT
13045016 AAAATGGAAAATATTTATT
1 AAAATGGAAAATATTTATT
13045035 GGAAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AAAATGGAAAATATTTATT
Found at i:13045152 original size:17 final size:18
Alignment explanation
Indices: 13045112--13045153 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
13045102 TGATTTGAAA
*
13045112 AATTATTTAAATTAATTGT
1 AATT-TTTAAATTAATTAT
13045131 AATTTTTAAA-TAATTAT
1 AATTTTTAAATTAATTAT
*
13045148 TATTTT
1 AATTTT
13045154 ATTATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.52
18 6 0.29
19 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTTTTAAATTAATTAT
Found at i:13045408 original size:21 final size:20
Alignment explanation
Indices: 13045382--13045428 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
13045372 CTTAGTTTAT
13045382 ATAATTTAAAAAATTCATATA
1 ATAATTTAAAAAATTCA-ATA
13045403 ATAA-TT-AAAAATTCAATA
1 ATAATTTAAAAAATTCAATA
13045421 AT-ATTTAA
1 ATAATTTAA
13045429 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 10 0.42
20 2 0.08
21 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATTTAAAAAATTCAATA
Found at i:13045428 original size:18 final size:19
Alignment explanation
Indices: 13045380--13045428 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
13045370 TGCTTAGTTT
*
13045380 ATATAAT-TTAAAAAATTC
1 ATATAATATTTAAAAATTC
*
13045398 ATATAATAATTAAAAATTC
1 ATATAATATTTAAAAATTC
13045417 A-ATAATATTTAA
1 ATATAATATTTAA
13045429 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAATATTTAAAAATTC
Found at i:13046141 original size:32 final size:32
Alignment explanation
Indices: 13046075--13046142 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
13046065 TAGATTTGGT
* **
13046075 AATTTATGTATTTGTATCATATAAAATATTAA
1 AATTTATGTATTCGTATCATATAAAATACAAA
***
13046107 AATTTATGTATTCGTATCATATTTTATACAAA
1 AATTTATGTATTCGTATCATATAAAATACAAA
13046139 AATT
1 AATT
13046143 ATATATTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (32 bp):
AATTTATGTATTCGTATCATATAAAATACAAA
Found at i:13046286 original size:13 final size:11
Alignment explanation
Indices: 13046252--13046290 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
13046242 TCATATATTT
13046252 TTTATATTATA
1 TTTATATTATA
*
13046263 TTTAAATTATA
1 TTTATATTATA
13046274 TCATTATATTATA
1 T--TTATATTATA
13046287 TTTA
1 TTTA
13046291 AAATTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 14 0.58
13 10 0.42
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTATATTATA
Found at i:13062832 original size:23 final size:23
Alignment explanation
Indices: 13062813--13062857 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13062803 AAATTTATAA
13062813 TTATTGAAAT-TTAAATTTTAAAT
1 TTATT-AAATATTAAATTTTAAAT
*
13062836 TTATTAAATATTATATTTTAAA
1 TTATTAAATATTAAATTTTAAA
13062858 AATAATCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATTAAATATTAAATTTTAAAT
Found at i:13079128 original size:31 final size:31
Alignment explanation
Indices: 13079090--13079159 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
13079080 TTAATTATAA
*
13079090 AAACAAAATGGCAATATGAAAAGGGAAAAGC
1 AAACAAAATGGCAATATGAAAAGGCAAAAGC
13079121 AAACAAAATGGCAATATGAAAAGGCAAAAGC
1 AAACAAAATGGCAATATGAAAAGGCAAAAGC
13079152 AAACAAAA
1 AAACAAAA
13079160 AGTCACACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.61, C:0.11, G:0.19, T:0.09
Consensus pattern (31 bp):
AAACAAAATGGCAATATGAAAAGGCAAAAGC
Found at i:13091673 original size:19 final size:20
Alignment explanation
Indices: 13091636--13091673 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
13091626 AATAAGAAAT
*
13091636 TAAGTAGAGATATTATTGTA
1 TAAGTAGAGACATTATTGTA
*
13091656 TAAGT-GAGACATTGTTGT
1 TAAGTAGAGACATTATTGT
13091674 GTTTTATGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (20 bp):
TAAGTAGAGACATTATTGTA
Found at i:13093129 original size:27 final size:27
Alignment explanation
Indices: 13093099--13093158 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
13093089 TAACAATAAA
* *
13093099 AATTCAAAATTAATTATTTAAATATTT
1 AATTCAAAATTAAATATTTAAATAATT
*
13093126 AATTTAAAATTAAATATTTAAATAATT
1 AATTCAAAATTAAATATTTAAATAATT
13093153 -ATTCAA
1 AATTCAA
13093159 TTCATGATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AATTCAAAATTAAATATTTAAATAATT
Found at i:13094527 original size:13 final size:12
Alignment explanation
Indices: 13094504--13094529 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13094494 TATTATATAA
13094504 AAAATAATTTTT
1 AAAATAATTTTT
13094516 AAAATAATTTTT
1 AAAATAATTTTT
13094528 AA
1 AA
13094530 TTTATATATT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAATAATTTTT
Found at i:13094592 original size:21 final size:21
Alignment explanation
Indices: 13094542--13094592 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
13094532 TATATATTTA
* *
13094542 AATA-TTTAAATTTTAAAAAT
1 AATATTTTATATTTAAAAAAT
13094562 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
13094583 AATATTTTAT
1 AATATTTTAT
13094593 TAATTTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:13099668 original size:21 final size:21
Alignment explanation
Indices: 13099642--13099684 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13099632 AGATGGTTTC
13099642 AGCACTGAATATAGACTACAG
1 AGCACTGAATATAGACTACAG
13099663 AGCACTGAATATAGACTACAG
1 AGCACTGAATATAGACTACAG
13099684 A
1 A
13099685 ACAATACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
AGCACTGAATATAGACTACAG
Found at i:13100095 original size:21 final size:21
Alignment explanation
Indices: 13100065--13100107 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13100055 CCGCTCTCCG
13100065 GTTCAGTTGAAACCACCTGCA
1 GTTCAGTTGAAACCACCTGCA
*
13100086 GTTCATTTGAAACCACCTGCA
1 GTTCAGTTGAAACCACCTGCA
13100107 G
1 G
13100108 ATCGTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (21 bp):
GTTCAGTTGAAACCACCTGCA
Found at i:13109123 original size:26 final size:26
Alignment explanation
Indices: 13109087--13109136 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
13109077 TCTGCTGCCT
13109087 TAAAGTAAAGAACTACTCTAATAACA
1 TAAAGTAAAGAACTACTCTAATAACA
**
13109113 TAAAGTAAAGAACTTTTCTAATAA
1 TAAAGTAAAGAACTACTCTAATAA
13109137 TATACGAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (26 bp):
TAAAGTAAAGAACTACTCTAATAACA
Found at i:13110598 original size:57 final size:57
Alignment explanation
Indices: 13110513--13110621 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
13110503 TACTACATGG
* * * * * *
13110513 TGAGAAGTCATTTTTAAAATCTTGATGTCTATTGTGATTTTAAAGTGGTTACTACGA
1 TGAGAAGCCATTTTTAAAATCTTAATGTCTAGTGTGATCTCAAAGTGATTACTACGA
*
13110570 TGAGAAGCCATTTTTAAAATTTTAATGTCTAGTGTGATCTCAAAGTGATTAC
1 TGAGAAGCCATTTTTAAAATCTTAATGTCTAGTGTGATCTCAAAGTGATTAC
13110622 CAATTGATCG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (57 bp):
TGAGAAGCCATTTTTAAAATCTTAATGTCTAGTGTGATCTCAAAGTGATTACTACGA
Found at i:13111230 original size:9 final size:9
Alignment explanation
Indices: 13111216--13111241 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13111206 TAAAGTGATG
13111216 CACCGCCCA
1 CACCGCCCA
13111225 CACCGCCCA
1 CACCGCCCA
13111234 CACCGCCC
1 CACCGCCC
13111242 TTTTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.69, G:0.12, T:0.00
Consensus pattern (9 bp):
CACCGCCCA
Found at i:13113505 original size:59 final size:59
Alignment explanation
Indices: 13113413--13113525 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
13113403 CTTTTGTTTG
13113413 AAGATCAAAATTAGAATACCCTTGTTTGTTTCATGTAGTAAGGGGCTATTTTACATTTA
1 AAGATCAAAATTAGAATACCCTTGTTTGTTTCATGTAGTAAGGGGCTATTTTACATTTA
* * * *
13113472 AAGATCAAAATTAGAATATCCTTGTTTTTTTCATGTAGTGAGGGGCTGTTTTAC
1 AAGATCAAAATTAGAATACCCTTGTTTGTTTCATGTAGTAAGGGGCTATTTTAC
13113526 TTATTTTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (59 bp):
AAGATCAAAATTAGAATACCCTTGTTTGTTTCATGTAGTAAGGGGCTATTTTACATTTA
Found at i:13115621 original size:147 final size:147
Alignment explanation
Indices: 13115450--13115727 Score: 515
Period size: 147 Copynumber: 1.9 Consensus size: 147
13115440 TTTTATAGAT
13115450 TTTTTATTAAATAATATAAATTATTATTTTAGATTAATTAAAATTAATATATTTTTATTGAAAAA
1 TTTTTATTAAATAATATAAATTATTATTTTAGATTAATTAAAATTAATATA-TTTTATTGAAAAA
*
13115515 AA-ATTAATATAAATATTTATAAAAAATTACTTAAATTTTTAATTTTTTTAAAAAA-TTATGGGT
65 AATATTAATATAAATATTTATAAAAAATTACCTAAATTTTTAA-TTTTTTAAAAAATTTATGGGT
13115578 ATGGGGATTAAATAATATA
129 ATGGGGATTAAATAATATA
13115597 TTTTTATTAAATAATATAAATTATTATTTTAGATTAATTAAAATTAATATATTTTATTGAAAAAA
1 TTTTTATTAAATAATATAAATTATTATTTTAGATTAATTAAAATTAATATATTTTATTGAAAAAA
13115662 ATATTAATATAAATATTTATAAAAAATTACCTAAATTTTTAATTTTTTAAAAAATTTATGGGTAT
66 ATATTAATATAAATATTTATAAAAAATTACCTAAATTTTTAATTTTTTAAAAAATTTATGGGTAT
13115727 G
131 G
13115728 AGATTATCCA
Statistics
Matches: 128, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
146 27 0.21
147 101 0.79
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (147 bp):
TTTTTATTAAATAATATAAATTATTATTTTAGATTAATTAAAATTAATATATTTTATTGAAAAAA
ATATTAATATAAATATTTATAAAAAATTACCTAAATTTTTAATTTTTTAAAAAATTTATGGGTAT
GGGGATTAAATAATATA
Found at i:13119528 original size:15 final size:15
Alignment explanation
Indices: 13119486--13119532 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
13119476 GCAATTTTTT
*
13119486 ATATAAAACAAT-TA
1 ATATAATACAATATA
* *
13119500 AT-TCATATAATATA
1 ATATAATACAATATA
13119514 ATATAATACAATATA
1 ATATAATACAATATA
13119529 ATAT
1 ATAT
13119533 TTCTTGCCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 6 0.23
14 6 0.23
15 14 0.54
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATAATACAATATA
Found at i:13120098 original size:2 final size:2
Alignment explanation
Indices: 13120091--13120121 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13120081 TCCTCCCTCA
*
13120091 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13120122 ATCACATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13120491 original size:2 final size:2
Alignment explanation
Indices: 13120479--13120531 Score: 56
Period size: 2 Copynumber: 27.0 Consensus size: 2
13120469 AACAACAAAC
* * *
13120479 TA TA TA CA TA TA TA TA TA TA TA TG TA TT TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13120520 CTA TA TA T- TA TA
1 -TA TA TA TA TA TA
13120532 AAATTTACCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
1 2 0.05
2 39 0.93
3 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13122614 original size:20 final size:20
Alignment explanation
Indices: 13122579--13122670 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
13122569 TTAAATAAAC
13122579 TTTTATAAATAAATTGATCTA
1 TTTTATAAATAAATTGAT-TA
*
13122600 TTTTTTAAA-AAATTGATTCA
1 TTTTATAAATAAATTGATT-A
* *
13122620 TTTTACAAATAAA-TGAATTG
1 TTTTATAAATAAATTG-ATTA
* *
13122640 TTTTTTAAATAAATTGACCTA
1 TTTTATAAATAAATTGA-TTA
13122661 TTTTATAAAT
1 TTTTATAAAT
13122671 TATTTTTGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
19 1 0.02
20 30 0.53
21 26 0.46
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTTATAAATAAATTGATTA
Found at i:13122746 original size:15 final size:15
Alignment explanation
Indices: 13122728--13122758 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13122718 ATTTATTTTG
13122728 TTTTGATTTTTTTAA
1 TTTTGATTTTTTTAA
*
13122743 TTTTTATTTTTTTAA
1 TTTTGATTTTTTTAA
13122758 T
1 T
13122759 CAATTGATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTGATTTTTTTAA
Found at i:13123424 original size:22 final size:23
Alignment explanation
Indices: 13123383--13123426 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
13123373 TATAATTTAA
* *
13123383 AATTTTATTGAAAATTAAATATG
1 AATTTTATTAAAAATAAAATATG
13123406 AATTTTA-TAAAAATAAAATAT
1 AATTTTATTAAAAATAAAATAT
13123427 ATATTTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (23 bp):
AATTTTATTAAAAATAAAATATG
Found at i:13123432 original size:22 final size:22
Alignment explanation
Indices: 13123366--13123432 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
13123356 GCGAAAAAAA
* *
13123366 ATAAAAATATAATTTAAAATTTT
1 ATAAAAATAAAATAT-AAATTTT
* * *
13123389 ATTGAAAATTAAATATGAATTTT
1 A-TAAAAATAAAATATAAATTTT
*
13123412 ATAAAAATAAAATATATATTT
1 ATAAAAATAAAATATAAATTT
13123433 CATATTTAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
22 16 0.47
23 8 0.24
24 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (22 bp):
ATAAAAATAAAATATAAATTTT
Found at i:13123945 original size:29 final size:29
Alignment explanation
Indices: 13123884--13123985 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 29
13123874 AACGTAAAGA
* **
13123884 ATGATTTTTAAATTATAATAAAATTTTTAAT
1 ATGATATTTAAATTAT-A-AATTTTTTTAAT
*
13123915 ATAATATTTAAATT-TAAAATTTTTTTAAT
1 ATGATATTTAAATTAT-AAATTTTTTTAAT
* *
13123944 ATGATATATGAATTATAAATTTATTAATTAAT
1 ATGATATTTAAATTATAAATTT-TT--TTAAT
13123976 ATGATATTTA
1 ATGATATTTA
13123986 TTTTTAATGT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
29 27 0.47
30 6 0.10
31 12 0.21
32 13 0.22
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
ATGATATTTAAATTATAAATTTTTTTAAT
Found at i:13124528 original size:21 final size:21
Alignment explanation
Indices: 13124502--13124542 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13124492 GTAGGGGATG
*
13124502 TGACTC-AAATATTAATATTTT
1 TGACTCGAAATA-AAATATTTT
13124523 TGACTCGAAATAAAATATTT
1 TGACTCGAAATAAAATATTT
13124543 CTTTTAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
TGACTCGAAATAAAATATTTT
Found at i:13124816 original size:2 final size:2
Alignment explanation
Indices: 13124809--13124840 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13124799 AAATGGAATA
*
13124809 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13124841 GTGAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13125787 original size:19 final size:20
Alignment explanation
Indices: 13125745--13125789 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13125735 CCGAACCAAG
**
13125745 TTATATATATTTTTTATTAAT
1 TTATATATATTTTAAATT-AT
13125766 TTATATATATTTTAAATT-T
1 TTATATATATTTTAAATTAT
13125785 TTATA
1 TTATA
13125790 AACTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
21 16 0.73
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATATATTTTAAATTAT
Found at i:13125861 original size:7 final size:7
Alignment explanation
Indices: 13125846--13125880 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
13125836 TGTTATTAAA
*
13125846 ATAATAT
1 ATAAAAT
13125853 ATAAAAT
1 ATAAAAT
13125860 ATAAAAAT
1 AT-AAAAT
13125868 ATAAAAT
1 ATAAAAT
13125875 ATAAAA
1 ATAAAA
13125881 ATTGATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAAAT
Found at i:13125868 original size:8 final size:8
Alignment explanation
Indices: 13125848--13125882 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
13125838 TTATTAAAAT
13125848 AATATATAA
1 AATATA-AA
13125857 AATATAAA
1 AATATAAA
13125865 AATAT-AA
1 AATATAAA
13125872 AATATAAA
1 AATATAAA
13125880 AAT
1 AAT
13125883 TGATAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.28
8 12 0.48
9 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AATATAAA
Found at i:13125871 original size:15 final size:15
Alignment explanation
Indices: 13125851--13125882 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13125841 TTAAAATAAT
13125851 ATATAAAATATAAAA
1 ATATAAAATATAAAA
13125866 ATATAAAATATAAAA
1 ATATAAAATATAAAA
13125881 AT
1 AT
13125883 TGATAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATAAAATATAAAA
Found at i:13126434 original size:85 final size:78
Alignment explanation
Indices: 13126307--13126471 Score: 258
Period size: 85 Copynumber: 2.0 Consensus size: 78
13126297 ATCTTCTTTC
*
13126307 ACCTTCAATTGAATTTGTGGGTAAACATTAATTATTATGCTCAATAAAAGTAAATGAAATTGCAT
1 ACCTTCAATTGAATTTGTGGGTAAACATTAATTATTATGCTCAATAAAAGTAAATGAAATTGAAT
13126372 GCTTTTTTTTCCTT
66 GC-TTTTTTTCCTT
13126386 ACCTTCAATTGAATTTGTGGGTCTTATTAAACATTAATTATTATGCTCAATAAAAGTAAATGAAA
1 ACCTTCAATTGAATTTGTGGG------TAAACATTAATTATTATGCTCAATAAAAGTAAATGAAA
13126451 TTGAATGCTTTTTTTCCTT
60 TTGAATGCTTTTTTTCCTT
13126470 AC
1 AC
13126472 TACTAAAATG
Statistics
Matches: 79, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
79 21 0.27
84 13 0.16
85 45 0.57
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (78 bp):
ACCTTCAATTGAATTTGTGGGTAAACATTAATTATTATGCTCAATAAAAGTAAATGAAATTGAAT
GCTTTTTTTCCTT
Found at i:13131551 original size:79 final size:80
Alignment explanation
Indices: 13131419--13131581 Score: 274
Period size: 79 Copynumber: 2.0 Consensus size: 80
13131409 ATTAATTTTT
* *
13131419 GATATTAATACAAATATGTGTGTGTATATATATTTATATATATATAAAATAAAATTAATTTCCAC
1 GATATTAATACAAATATATATGTG-ATATATATTTATATATATATAAAATAAAATTAATTTCCAC
13131484 AAAAATAAAATAGGAG
65 AAAAATAAAATAGGAG
* *
13131500 GATATTAATACAAATATATATGTG-TATCTATTTATATATATATATAATAAAATTAATTTCCACA
1 GATATTAATACAAATATATATGTGATATATATTTATATATATATAAAATAAAATTAATTTCCACA
13131564 AAAATAAAATAGGAG
66 AAAATAAAATAGGAG
13131579 GAT
1 GAT
13131582 CTTTAATTCT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 56 0.72
81 22 0.28
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (80 bp):
GATATTAATACAAATATATATGTGATATATATTTATATATATATAAAATAAAATTAATTTCCACA
AAAATAAAATAGGAG
Found at i:13135066 original size:21 final size:21
Alignment explanation
Indices: 13135042--13135081 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13135032 AAAGATTAAT
13135042 TATTATAATAATAAAATTAGA
1 TATTATAATAATAAAATTAGA
* * *
13135063 TATTGTAATGATAATATTA
1 TATTATAATAATAAAATTA
13135082 AAAATCAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TATTATAATAATAAAATTAGA
Found at i:13137098 original size:18 final size:18
Alignment explanation
Indices: 13137071--13137111 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13137061 TATTATCATA
*
13137071 TATATATATTTTTAAAAT
1 TATATTTATTTTTAAAAT
*
13137089 TATATTTATTTTTTAAAT
1 TATATTTATTTTTAAAAT
13137107 T-TATT
1 TATATT
13137112 AAAATTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATTTATTTTTAAAAT
Found at i:13137576 original size:21 final size:19
Alignment explanation
Indices: 13137534--13137576 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
13137524 ATTGTGATGG
* *
13137534 TAAAAAAATTATTTTTTTT
1 TAAAAAAATTATTATTTGT
13137553 TAAAAAAATATGATTATTTGT
1 TAAAAAAAT-T-ATTATTTGT
13137574 TAA
1 TAA
13137577 GAGTTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 1 0.05
21 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TAAAAAAATTATTATTTGT
Found at i:13137709 original size:22 final size:23
Alignment explanation
Indices: 13137666--13137714 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
13137656 GGATAGTGAT
* **
13137666 TTTTTTTATAAAGAGATGTCT-A
1 TTTTATTATAAAGAGAACTCTAA
*
13137688 TTTTATTATAAATAGAACTCTAA
1 TTTTATTATAAAGAGAACTCTAA
13137711 TTTT
1 TTTT
13137715 GAAAAATAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (23 bp):
TTTTATTATAAAGAGAACTCTAA
Found at i:13147254 original size:34 final size:34
Alignment explanation
Indices: 13147202--13147269 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
13147192 TTCTATAAAA
*
13147202 CATATGAAAAATACCGCTATATTAGCTG-CATTTG
1 CATATGAAAAACACCGCTATATTAGC-GACATTTG
* *
13147236 CATATGGAAAACATCGCTATATTAGCGACATTTG
1 CATATGAAAAACACCGCTATATTAGCGACATTTG
13147270 TATCTAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (34 bp):
CATATGAAAAACACCGCTATATTAGCGACATTTG
Found at i:13147647 original size:9 final size:9
Alignment explanation
Indices: 13147633--13147664 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
13147623 AATTCATAAA
13147633 CTAAATATT
1 CTAAATATT
13147642 CTAAATATT
1 CTAAATATT
13147651 -TAAATA-T
1 CTAAATATT
13147658 CTAAATA
1 CTAAATA
13147665 AATAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.05
8 12 0.55
9 9 0.41
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (9 bp):
CTAAATATT
Found at i:13150214 original size:14 final size:13
Alignment explanation
Indices: 13150195--13150233 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
13150185 AGAATAATAC
13150195 AAAATACAAAACAA
1 AAAATACAAAA-AA
13150209 AAAATACAAAAAA
1 AAAATACAAAAAA
*
13150222 AAGAATAGAAAA
1 AA-AATACAAAA
13150234 TAGAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (13 bp):
AAAATACAAAAAA
Found at i:13150233 original size:21 final size:19
Alignment explanation
Indices: 13150166--13150242 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 19
13150156 ACAAAATATG
13150166 AAATACAAAAAAAATACCAAGA
1 AAATACAAAAAAAA-A--AAGA
13150188 ATAATACAAAATACAAAACAA-A
1 A-AATACAAAA-A-AAAA-AAGA
13150210 AAATACAAAAAAAAGAATAGA
1 AAATACAAAAAAAA-AA-AGA
*
13150231 AAATAGAAAAAA
1 AAATACAAAAAA
13150243 TTGAGGATGG
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
19 4 0.08
20 3 0.06
21 21 0.44
22 3 0.06
23 12 0.25
24 2 0.04
25 3 0.06
ACGTcount: A:0.75, C:0.09, G:0.05, T:0.10
Consensus pattern (19 bp):
AAATACAAAAAAAAAAAGA
Found at i:13152215 original size:10 final size:10
Alignment explanation
Indices: 13152200--13152225 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13152190 AAAATTATCT
13152200 TTTTAATAAA
1 TTTTAATAAA
13152210 TTTTAATAAA
1 TTTTAATAAA
13152220 TTTTAA
1 TTTTAA
13152226 AACTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:13153865 original size:61 final size:61
Alignment explanation
Indices: 13153695--13154121 Score: 273
Period size: 61 Copynumber: 6.8 Consensus size: 61
13153685 CATTTCAAGA
* ** * * *
13153695 AAAAAATACCTTTAATAATCCTCTTAAATTTTTTAAAAGGGAA-TATTGAAAGTGTTTTCTGC
1 AAAAAAT-CCTTCAATAATCCTCTT-AATTTTTTATGAGAGAATTATTGAAGGTGTTTTATGC
* * *
13153757 AAAAAAAATACCTTTAATAAT-CTCCTCTAATTTTTTA-GAGTGGATTATTGAAGGTGATTTT-T
1 --AAAAAAT-CCTTCAATAATCCT-CT-TAATTTTTTATGAGAGAATTATTGAAGGTG-TTTTAT
13153819 GC
60 GC
* * * *
13153821 AAAAAATCATTCAATAATCCTCTTCATTTTTTATGAGAGAATTATTGAAGGTGTTTTAGGT
1 AAAAAATCCTTCAATAATCCTCTTAATTTTTTATGAGAGAATTATTGAAGGTGTTTTATGC
* * * *
13153882 AAAAAAGCCTTCAATAATCCTCTTAAATTTTGATGAGA-AGATTATTGAATGTGTTTT-TGACC
1 AAAAAATCCTTCAATAATCCTCTTAATTTTTTATGAGAGA-ATTATTGAAGGTGTTTTATG--C
* * * ** * ** *
13153944 AAAAACAT-ATTCAATAATTCTTTTCAAAATTTTA-GAG-GAGATTATTGATGGCATTTTTTGGC
1 AAAAA-ATCCTTCAATAATCCTCTT-AATTTTTTATGAGAGA-ATTATTGAAGGTGTTTTAT-GC
* * * * *
13154006 TAAAAATGCCTTCAATAATCC-CTTTCATTTTTTTATAAGAGAATTATTGAATGTGTTTTGTGC
1 AAAAAAT-CCTTCAATAATCCTC-TT-AATTTTTTATGAGAGAATTATTGAAGGTGTTTTATGC
* * * *
13154069 AAAAAACGCCTTTAATAATCTTTTATAATTTTTTTATGAG-GAATTATTGAAGG
1 AAAAAA-TCCTTCAATAATCCTCT-TAA-TTTTTTATGAGAGAATTATTGAAGG
13154122 CATTTCAGGC
Statistics
Matches: 289, Mismatches: 50, Indels: 49
0.74 0.13 0.13
Matches are distributed among these distances:
60 15 0.05
61 80 0.28
62 50 0.17
63 66 0.23
64 71 0.25
65 7 0.02
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (61 bp):
AAAAAATCCTTCAATAATCCTCTTAATTTTTTATGAGAGAATTATTGAAGGTGTTTTATGC
Found at i:13154134 original size:63 final size:61
Alignment explanation
Indices: 13153767--13154137 Score: 179
Period size: 63 Copynumber: 6.0 Consensus size: 61
13153757 AAAAAAAATA
* * * * * *
13153767 CCTTTAATAATCTCCTCTAA-TTTTTTA-GAGTGGATTATTGAAGGTGATTTTTGCAAAAAA-T
1 CCTTCAATAATC-CCTTTAATTTTTTTATGAG-GAATTATTGAAGG-CATTTTGGCAAAAAACG
* * ** *
13153828 CATTCAATAAT-CCTCTTCA-TTTTTTATGAGAGAATTATTGAAGGTGTTTTAGGTAAAAAA-G
1 CCTTCAATAATCCCT-TTAATTTTTTTATGAG-GAATTATTGAAGGCATTTT-GGCAAAAAACG
* * * * * * *
13153889 CCTTCAATAAT-CCTCTTAA-ATTTTGATGAGAAGATTATTGAATGTG-TTTTTGACCAAAAACA
1 CCTTCAATAATCCCT-TTAATTTTTTTATGAGGA-ATTATTGAA-G-GCATTTTGGCAAAAAACG
** * * ** * * *
13153951 TATTCAATAATTCTTTTCAA-AATTTTA-GAGGAGATTATTGATGGCATTTTTTGGCTAAAAATG
1 CCTTCAATAATCCCTTT-AATTTTTTTATGAGGA-ATTATTGAAGGCA--TTTTGGCAAAAAACG
* * * **
13154014 CCTTCAATAATCCCTTTCATTTTTTTATAAGAGAATTATTGAATGTGTTTTGTGCAAAAAACG
1 CCTTCAATAATCCCTTTAATTTTTTTATGAG-GAATTATTGAAGGCATTTTG-GCAAAAAACG
* ** *
13154077 CCTTTAATAATCTTTTATAATTTTTTTATGAGGAATTATTGAAGGCATTTCAGGCAAAAAA
1 CCTTCAATAATCCCTT-TAATTTTTTTATGAGGAATTATTGAAGGCATTT-TGGCAAAAAA
13154138 TATCTTAAAT
Statistics
Matches: 236, Mismatches: 56, Indels: 34
0.72 0.17 0.10
Matches are distributed among these distances:
59 3 0.01
60 15 0.06
61 73 0.31
62 35 0.15
63 83 0.35
64 25 0.11
65 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (61 bp):
CCTTCAATAATCCCTTTAATTTTTTTATGAGGAATTATTGAAGGCATTTTGGCAAAAAACG
Found at i:13154972 original size:61 final size:61
Alignment explanation
Indices: 13154789--13154977 Score: 195
Period size: 63 Copynumber: 3.0 Consensus size: 61
13154779 GTTGAAAGCG
** * * *
13154789 TTTT-TGCAGAAAAATGCCTTCAATAATTGCTTCTATTTTTTATGAGAGGATCATTCAAAGTA
1 TTTTCTGCAG-AAAATGCCTTCAATAATCAC-TCTATTTTTTATGAAAGGATTATTCAAGGTA
* * * * *
13154851 TTATCTACCA-AAAATACCTTCAATAATCCCTATCCATTTTTTATGAAAGGATTATTCAAGGTA
1 TTTTCT-GCAGAAAATGCCTTCAATAATCAC--TCTATTTTTTATGAAAGGATTATTCAAGGTA
* *
13154914 TTTTCTGCAGAAAACGCCTTCAATAATCACTCTAATTTTTTA-GAAAGGATTATTCAAGGCA
1 TTTTCTGCAGAAAATGCCTTCAATAATCACTCT-ATTTTTTATGAAAGGATTATTCAAGGTA
13154975 TTT
1 TTT
13154978 AATTCGATAA
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
61 23 0.22
62 30 0.29
63 50 0.48
64 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (61 bp):
TTTTCTGCAGAAAATGCCTTCAATAATCACTCTATTTTTTATGAAAGGATTATTCAAGGTA
Found at i:13159127 original size:9 final size:9
Alignment explanation
Indices: 13159113--13159139 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13159103 ACATAATACA
13159113 AAATAATAT
1 AAATAATAT
13159122 AAATAATAT
1 AAATAATAT
13159131 AAATAATAT
1 AAATAATAT
13159140 GATTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATAATAT
Found at i:13162851 original size:15 final size:15
Alignment explanation
Indices: 13162814--13162847 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13162804 GGCTTGTCTA
*
13162814 TATTTATTTAAGATT
1 TATTTGTTTAAGATT
13162829 TATTTGTTTAA-ATT
1 TATTTGTTTAAGATT
13162843 TATTT
1 TATTT
13162848 TGTTATGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TATTTGTTTAAGATT
Found at i:13163153 original size:21 final size:23
Alignment explanation
Indices: 13163127--13163170 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
13163117 AAATTACAAA
*
13163127 AAAAAACTGT-AAT-TTAAAATT
1 AAAAAACTATAAATATTAAAATT
13163148 AAAAAACTATAAATATTAAAATT
1 AAAAAACTATAAATATTAAAATT
13163171 TGAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAAACTATAAATATTAAAATT
Found at i:13165643 original size:22 final size:22
Alignment explanation
Indices: 13165599--13165645 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13165589 AAACATACAT
* *
13165599 AAATAATAACTATAAAAACTAA
1 AAATAATAAATATAAAAAATAA
13165621 AAATAATAAATA-AATAAAATAA
1 AAATAATAAATATAA-AAAATAA
13165643 AAA
1 AAA
13165646 ATTACATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAATAAATATAAAAAATAA
Found at i:13173353 original size:21 final size:21
Alignment explanation
Indices: 13173312--13173354 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13173302 TTCCCTTCAA
*
13173312 CAAACCTTGTACCTTGTGCTT
1 CAAACCTTGTACCTTGAGCTT
*
13173333 CAAACTCTTGTACGTT-AGCTT
1 CAAAC-CTTGTACCTTGAGCTT
13173354 C
1 C
13173355 TGAAGATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (21 bp):
CAAACCTTGTACCTTGAGCTT
Found at i:13190985 original size:24 final size:25
Alignment explanation
Indices: 13190956--13191005 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
13190946 AAGTTTTATG
*
13190956 ATTTTTAATATCAAAAA-TAAAAATA
1 ATTTTAAATAT-AAAAAGTAAAAATA
13190981 ATTTTAAAATATAAAAAGTAAAAAT
1 ATTTT-AAATATAAAAAGTAAAAAT
13191006 TTTAGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
ATTTTAAATATAAAAAGTAAAAATA
Found at i:13207706 original size:46 final size:45
Alignment explanation
Indices: 13207640--13207737 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 45
13207630 TATTTTCATC
*
13207640 ATTAATTTTAATTTTATGATTATAATTTTCAACTGCTTTCACTATT-T
1 ATTAATTTTAATTGTATGATTAT-A--TTCAACTGCTTTCACTATTAT
* * *
13207687 -TTAATTTTAGTTGTGTGATTATATTCAATTGCTTTCACTATTAT
1 ATTAATTTTAATTGTATGATTATATTCAACTGCTTTCACTATTAT
13207731 ATTAATT
1 ATTAATT
13207738 AATCTTATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 18 0.40
44 1 0.02
45 7 0.16
46 19 0.42
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (45 bp):
ATTAATTTTAATTGTATGATTATATTCAACTGCTTTCACTATTAT
Found at i:13212044 original size:20 final size:20
Alignment explanation
Indices: 13212012--13212070 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
13212002 TCACCTAATA
13212012 AAATAATATAAAATTAAAGAT
1 AAATAA-ATAAAATTAAAGAT
* *
13212033 AAATTAATAAAAATCAAAGAT
1 AAATAAAT-AAAATTAAAGAT
*
13212054 AAATAAATATAATTAAA
1 AAATAAATAAAATTAAA
13212071 TAAGATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (20 bp):
AAATAAATAAAATTAAAGAT
Found at i:13212348 original size:15 final size:16
Alignment explanation
Indices: 13212316--13212350 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13212306 TTTTAAATTA
13212316 AAATAATTTACTTTTT
1 AAATAATTTACTTTTT
*
13212332 AAATAGTTTAC-TTTT
1 AAATAATTTACTTTTT
13212347 AAAT
1 AAAT
13212351 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (16 bp):
AAATAATTTACTTTTT
Found at i:13216278 original size:135 final size:135
Alignment explanation
Indices: 13216036--13216307 Score: 535
Period size: 135 Copynumber: 2.0 Consensus size: 135
13216026 CAATTAGAGA
*
13216036 AGGTGCCATCTTTTTCCAAACTTCAAGCTTTAAAAAAGTTAGACCTTAGTAGAACAACTATCAAG
1 AGGTGCCATCTTTTTCCAAACTTCAAGCTTTAAAAAAGTTAGACCTTAGAAGAACAACTATCAAG
13216101 CATATACCTCATGGGATGGAAAGGTTGGTAAATCTCAAATATCTTGATTTGAGTAACACGCAAAT
66 CATATACCTCATGGGATGGAAAGGTTGGTAAATCTCAAATATCTTGATTTGAGTAACACGCAAAT
13216166 AACAG
131 AACAG
13216171 AGGTGCCATCTTTTTCCAAACTTCAAGCTTTAAAAAAGTTAGACCTTAGAAGAACAACTATCAAG
1 AGGTGCCATCTTTTTCCAAACTTCAAGCTTTAAAAAAGTTAGACCTTAGAAGAACAACTATCAAG
13216236 CATATACCTCATGGGATGGAAAGGTTGGTAAATCTCAAATATCTTGATTTGAGTAACACGCAAAT
66 CATATACCTCATGGGATGGAAAGGTTGGTAAATCTCAAATATCTTGATTTGAGTAACACGCAAAT
13216301 AACAG
131 AACAG
13216306 AG
1 AG
13216308 ATGGCCGATG
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (135 bp):
AGGTGCCATCTTTTTCCAAACTTCAAGCTTTAAAAAAGTTAGACCTTAGAAGAACAACTATCAAG
CATATACCTCATGGGATGGAAAGGTTGGTAAATCTCAAATATCTTGATTTGAGTAACACGCAAAT
AACAG
Found at i:13220351 original size:28 final size:28
Alignment explanation
Indices: 13220311--13220415 Score: 174
Period size: 28 Copynumber: 3.8 Consensus size: 28
13220301 TGATGAAAAA
*
13220311 TTAGATGTGTGTTGGTGGTTTATGAAAG
1 TTAGATGTGTGTTAGTGGTTTATGAAAG
* *
13220339 TTAGATGTTTGTTAGTGGTTTATGGAAG
1 TTAGATGTGTGTTAGTGGTTTATGAAAG
13220367 TTAGATGTGTGTTAGTGGTTTATGAAAG
1 TTAGATGTGTGTTAGTGGTTTATGAAAG
*
13220395 TTAGTTGTGTGTTAGTGGTTT
1 TTAGATGTGTGTTAGTGGTTT
13220416 TTGTTTATGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (28 bp):
TTAGATGTGTGTTAGTGGTTTATGAAAG
Found at i:13224041 original size:28 final size:28
Alignment explanation
Indices: 13224009--13224114 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
13223999 TGGTAAAAAA
*
13224009 TTAGATGTGTATTAGTGGTTTATGAAAG
1 TTAGATGTGTGTTAGTGGTTTATGAAAG
* *
13224037 TTAGATGTTTGTTAGTGGTTTATCAAAG
1 TTAGATGTGTGTTAGTGGTTTATGAAAG
* *
13224065 TTAGATGTATGTTAGTGGTTAATGAAAG
1 TTAGATGTGTGTTAGTGGTTTATGAAAG
13224093 TTA-ATTGTGGTGTTAGTGGTTT
1 TTAGA-TGT-GTGTTAGTGGTTT
13224115 TTGTTTATGA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.01
28 56 0.82
29 11 0.16
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.45
Consensus pattern (28 bp):
TTAGATGTGTGTTAGTGGTTTATGAAAG
Found at i:13229085 original size:23 final size:25
Alignment explanation
Indices: 13229055--13229100 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
13229045 TGTTCCGCCT
*
13229055 GAAGCAATA-ATCACAA-CAATACA
1 GAAGCAATAGATAACAATCAATACA
13229078 GAAGCAATAGATAACAATCAATA
1 GAAGCAATAGATAACAATCAATA
13229101 ATCAAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (25 bp):
GAAGCAATAGATAACAATCAATACA
Found at i:13234588 original size:26 final size:28
Alignment explanation
Indices: 13234539--13234590 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
13234529 CCTTGTGACG
13234539 CATCTAACAATTCTTTTGTAAATAAAGT
1 CATCTAACAATTCTTTTGTAAATAAAGT
*
13234567 CATCTAACAA-T-TTTTGTTAATAAA
1 CATCTAACAATTCTTTTGTAAATAAA
13234591 TTAGGTCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 1 0.04
28 10 0.43
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (28 bp):
CATCTAACAATTCTTTTGTAAATAAAGT
Found at i:13234822 original size:16 final size:15
Alignment explanation
Indices: 13234801--13234830 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
13234791 CTTCTCCTTA
13234801 TTTGCTATTCCTTTCC
1 TTTGCTA-TCCTTTCC
13234817 TTTGCTATCCTTTC
1 TTTGCTATCCTTTC
13234831 TATATATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTGCTATCCTTTCC
Found at i:13237715 original size:20 final size:20
Alignment explanation
Indices: 13237678--13237715 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13237668 CACCAACTTT
*
13237678 CCTAAAAAATCAATTGTTTC
1 CCTAAAAAATCAACTGTTTC
*
13237698 CCTAAAAAATTAACTGTT
1 CCTAAAAAATCAACTGTT
13237716 CTTTCTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (20 bp):
CCTAAAAAATCAACTGTTTC
Found at i:13237978 original size:3 final size:3
Alignment explanation
Indices: 13237972--13237998 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13237962 CAACAACAAC
13237972 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
13237999 CGTATTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13238124 original size:5 final size:5
Alignment explanation
Indices: 13238103--13238143 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
13238093 ACTAATAATA
*
13238103 ATATT ATACT ATA-- ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
13238144 ACATGCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
3 3 0.09
5 30 0.91
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:13238136 original size:15 final size:13
Alignment explanation
Indices: 13238100--13238144 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
13238090 AATACTAATA
*
13238100 ATAATATTATACT
1 ATAATATTATATT
13238113 ATAATATTATATT
1 ATAATATTATATT
13238126 ATATTATATTATATT
1 ATA--ATATTATATT
13238141 ATAA
1 ATAA
13238145 CATGCAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 16 0.55
15 13 0.45
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
ATAATATTATATT
Found at i:13238642 original size:114 final size:115
Alignment explanation
Indices: 13238350--13238693 Score: 319
Period size: 115 Copynumber: 3.0 Consensus size: 115
13238340 TGATCTAGGT
* * * *
13238350 TGAACTAAGATCGAATGATTGGTATGATGCCATGAGTC-TAAAAGCGATCAAGACCGAGTTGAGG
1 TGAACTAAGATCGGATGATTGGGATGATGCTATGAGTCTTAAAAGCGATCAAGACAGAGTTGAGG
* * * * *
13238414 TTGAAGATGAATGATC-AGGACAATGTCACAAGTTAAGAAAATGATCTAGAC
66 TTGAAGATGAATGACCGA-GACAATGCCATAAG-TAAAAAAATGATTTAGAC
* * * * * * *
13238465 T-AAGCCAAAATCAGATGATTGGGATGAT-ATCATAAGT-TTAAAAGTGATTAAGACCA-AGTTG
1 TGAA-CTAAGATCGGATGATTGGGATGATGCT-ATGAGTCTTAAAAGCGATCAAGA-CAGAGTTG
*
13238526 AGGTTGAAGATGAATGACCGAGACAATGCCATAAGTGAAAAAATGATTTAGAC
63 AGGTTGAAGATGAATGACCGAGACAATGCCATAAGTAAAAAAATGATTTAGAC
* * * *
13238579 TGAACTAAGATCGGATGATTGGGATGATGCTGTGAGTCTTAAAA-CGACCAAGATAGAATTGAGG
1 TGAACTAAGATCGGATGATTGGGATGATGCTATGAGTCTTAAAAGCGATCAAGACAGAGTTGAGG
* ** * * *
13238643 AT-AAGGATGAAT-ACCGAGATGATACCATAAGTAAGAAAAATTATTTGGAC
66 TTGAA-GATGAATGACCGAGACAATGCCATAAGTAA-AAAAATGATTTAGAC
13238693 T
1 T
13238694 AAGTCGATAT
Statistics
Matches: 183, Mismatches: 35, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
113 21 0.11
114 78 0.43
115 82 0.45
116 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (115 bp):
TGAACTAAGATCGGATGATTGGGATGATGCTATGAGTCTTAAAAGCGATCAAGACAGAGTTGAGG
TTGAAGATGAATGACCGAGACAATGCCATAAGTAAAAAAATGATTTAGAC
Found at i:13249990 original size:47 final size:47
Alignment explanation
Indices: 13249901--13249991 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
13249891 ATATATATAC
** *
13249901 AATAAATAAATAATTAAGCAAGTATAAACAATGAAAAGAAATAAAAA
1 AATAAATAAATAATTAAGCAAGTATAAACAACAAAAAAAAATAAAAA
* *
13249948 AATAAATGAATAATTAAGCAAGTATAAGCAACAAAAAAAAATAA
1 AATAAATAAATAATTAAGCAAGTATAAACAACAAAAAAAAATAA
13249992 TCTCAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (47 bp):
AATAAATAAATAATTAAGCAAGTATAAACAACAAAAAAAAATAAAAA
Found at i:13251498 original size:20 final size:21
Alignment explanation
Indices: 13251470--13251509 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13251460 TTATCCTACC
*
13251470 TCCATAAACCT-AAATCAAAA
1 TCCAAAAACCTCAAATCAAAA
*
13251490 TCCAAAAACTTCAAATCAAA
1 TCCAAAAACCTCAAATCAAA
13251510 CCTAGACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (21 bp):
TCCAAAAACCTCAAATCAAAA
Found at i:13251873 original size:3 final size:3
Alignment explanation
Indices: 13251865--13251964 Score: 89
Period size: 3 Copynumber: 33.7 Consensus size: 3
13251855 AAGACGAAAT
* * *
13251865 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TGA TATA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * *
13251911 TAG T-A TAA TAA -ATA TAG T-A TAA TGA TAA TGA TAA GAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13251954 TAA TAA TAA TA
1 TAA TAA TAA TA
13251965 TGATAATGTA
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
2 3 0.04
3 70 0.92
4 3 0.04
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13251917 original size:5 final size:5
Alignment explanation
Indices: 13251865--13252034 Score: 53
Period size: 5 Copynumber: 32.2 Consensus size: 5
13251855 AAGACGAAAT
* * *
13251865 TAATAA TAATAA TAATAA TAATAA TAATAA TAATA CTGATA TATTA TAGTA
1 TAAT-A TAAT-A TAAT-A TAAT-A TAAT-A TAATA -TAATA TAATA TAATA
* *
13251916 TAATA -AATA TAGTA TAATGA TAATGA TAAGAA TAATAA TAATAA TAATA
1 TAATA TAATA TAATA TAAT-A TAAT-A TAA-TA TAAT-A TAAT-A TAATA
* * * * *
13251965 TGATA -ATGTA CAATA TAAT- TAGTA TAATA -ACA-C TAATAA TAATA
1 TAATA TA-ATA TAATA TAATA TAATA TAATA TA-ATA TAAT-A TAATA
* * * *
13252009 TAATA TTATA TTATA TTATA TTATA T
1 TAATA TAATA TAATA TAATA TAATA T
13252035 TATAACATGC
Statistics
Matches: 133, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
4 9 0.07
5 62 0.47
6 62 0.47
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:13251988 original size:59 final size:59
Alignment explanation
Indices: 13251870--13252013 Score: 159
Period size: 59 Copynumber: 2.5 Consensus size: 59
13251860 GAAATTAATA
* * * * *
13251870 ATAATAATAATAATAATAATAATAATAATACTGATATATTATAGTATAATAAATATAGT
1 ATAATAATAATAATAAGAATAATAATAATAATAATATATAATAGTACAATAAATATAGT
* *
13251929 ATAATGATAATGATAAGAATAATAATAATAATAATATGATAAT-GTACAATATAAT-TAGT
1 ATAATAATAATAATAAGAATAATAATAATAATAATAT-ATAATAGTACAATA-AATATAGT
* * *
13251988 ATAATAACACTAATAATAAT-ATAATA
1 ATAATAATAATAATAAGAATAATAATA
13252014 TTATATTATA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
58 6 0.08
59 58 0.82
60 7 0.10
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (59 bp):
ATAATAATAATAATAAGAATAATAATAATAATAATATATAATAGTACAATAAATATAGT
Found at i:13252035 original size:5 final size:5
Alignment explanation
Indices: 13252006--13252038 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
13251996 ACTAATAATA
*
13252006 ATATA ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA
13252039 ACATGCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:13255772 original size:17 final size:18
Alignment explanation
Indices: 13255750--13255783 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13255740 ATCCTTATAT
13255750 TTTAAT-AAATTATTAAA
1 TTTAATAAAATTATTAAA
13255767 TTTAATAAAATTATTAA
1 TTTAATAAAATTATTAA
13255784 TGATTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAATAAAATTATTAAA
Found at i:13256715 original size:15 final size:14
Alignment explanation
Indices: 13256689--13256719 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
13256679 CCAACTAAAC
13256689 AATAAAAATAAATA
1 AATAAAAATAAATA
13256703 AATAAATAATAAATA
1 AATAAA-AATAAATA
13256718 AA
1 AA
13256720 ATACTTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAAAATAAATA
Found at i:13259507 original size:15 final size:16
Alignment explanation
Indices: 13259489--13259518 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13259479 AGCTTTTAGG
13259489 GTTTAATT-ATTGATA
1 GTTTAATTAATTGATA
13259504 GTTTAATTAATTGAT
1 GTTTAATTAATTGAT
13259519 CTCAATTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
GTTTAATTAATTGATA
Found at i:13260561 original size:47 final size:46
Alignment explanation
Indices: 13260483--13260579 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
13260473 ATATTTATAT
* * * *
13260483 AAAATAAATAAAAATAAAAAATTAAGAAAAAACATACATATCACATC
1 AAAATAAATAAAAATAAAAAATTAA-AAAAAAAACACAAATCACAAC
*
13260530 AAAATAAATAAAAATAAATAA-TAAAATAAAAAACACAAATCACAAC
1 AAAATAAATAAAAATAAAAAATTAAAA-AAAAAACACAAATCACAAC
13260576 AAAA
1 AAAA
13260580 CAGCAAAACC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
45 2 0.05
46 22 0.50
47 20 0.45
ACGTcount: A:0.72, C:0.10, G:0.01, T:0.16
Consensus pattern (46 bp):
AAAATAAATAAAAATAAAAAATTAAAAAAAAAACACAAATCACAAC
Found at i:13262471 original size:16 final size:16
Alignment explanation
Indices: 13262452--13262491 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13262442 TAACTTAAGG
*
13262452 AAAGTTTAGTTTA-ATA
1 AAAGTTT-GTATATATA
13262468 AAAGTTTGTATATATA
1 AAAGTTTGTATATATA
13262484 AAAGTTTG
1 AAAGTTTG
13262492 AGATTATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
AAAGTTTGTATATATA
Found at i:13264318 original size:15 final size:15
Alignment explanation
Indices: 13264298--13264328 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13264288 ACTCAAAAAC
*
13264298 AGTTGTTTGATAGAA
1 AGTTGTATGATAGAA
13264313 AGTTGTATGATAGAA
1 AGTTGTATGATAGAA
13264328 A
1 A
13264329 ACAGTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
AGTTGTATGATAGAA
Found at i:13267828 original size:19 final size:19
Alignment explanation
Indices: 13267806--13267854 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
13267796 AATTTTTAAA
*
13267806 TTAAAATAAATAAT-ATTTT
1 TTAAAATAAAT-ATGAATTT
*
13267825 TTAAATTAAATATGAATTT
1 TTAAAATAAATATGAATTT
13267844 TTATAAATAAA
1 TTA-AAATAAA
13267855 AGCGACTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.68
20 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TTAAAATAAATATGAATTT
Found at i:13272808 original size:21 final size:21
Alignment explanation
Indices: 13272769--13272808 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13272759 TACTTCTCTT
*
13272769 TTTTCCTTTTTTTCTTTTTTG
1 TTTTCCTTTTTTTATTTTTTG
*
13272790 TTTT-CTTTTTTTATATTTT
1 TTTTCCTTTTTTTATTTTTT
13272809 ATGCCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTCCTTTTTTTATTTTTTG
Found at i:13272952 original size:13 final size:13
Alignment explanation
Indices: 13272924--13272966 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13272914 TATATAAAAT
*
13272924 AAAATAAAAATCAA
1 AAAATAAAAA-GAA
13272938 AAAATAAAAAGAA
1 AAAATAAAAAGAA
* *
13272951 AATAGAAAAAGAA
1 AAAATAAAAAGAA
13272964 AAA
1 AAA
13272967 CTTGCGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAATAAAAAGAA
Found at i:13272952 original size:19 final size:18
Alignment explanation
Indices: 13272919--13272966 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
13272909 TAAAATATAT
13272919 AAAATAAAATAAAAATCA-A
1 AAAATAAAA-AAAAAT-AGA
13272938 AAAATAAAAAGAAAATAGA
1 AAAATAAAAA-AAAATAGA
*
13272957 AAAAGAAAAA
1 AAAATAAAAA
13272967 CTTGCGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.10
Consensus pattern (18 bp):
AAAATAAAAAAAAATAGA
Found at i:13273394 original size:21 final size:21
Alignment explanation
Indices: 13273336--13273400 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
13273326 AATGTTTTTC
*
13273336 AAAAATT-TAAAAAATCCTAG
1 AAAAATTCTAAAAAATTCTAG
*
13273356 AAAAATTTCAAAAAAATTCTA-
1 AAAAA-TTCTAAAAAATTCTAG
13273377 AAAAATTCCTAAAAAATTCATAG
1 AAAAATT-CTAAAAAATTC-TAG
13273400 A
1 A
13273401 TCGTCCTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.19
21 17 0.46
22 12 0.32
23 1 0.03
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (21 bp):
AAAAATTCTAAAAAATTCTAG
Found at i:13273395 original size:11 final size:11
Alignment explanation
Indices: 13273343--13273395 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
13273333 TTCAAAAATT
13273343 TAAAAAA-TCC
1 TAAAAAATTCC
*
13273353 TAGAAAAATTTC
1 TA-AAAAATTCC
*
13273365 AAAAAAATT-C
1 TAAAAAATTCC
13273375 TAAAAAATTCC
1 TAAAAAATTCC
13273386 TAAAAAATTC
1 TAAAAAATTC
13273396 ATAGATCGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 11 0.30
11 23 0.62
12 3 0.08
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAAAAATTCC
Found at i:13273831 original size:3 final size:3
Alignment explanation
Indices: 13273823--13273870 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
13273813 AAAGAAAAAC
13273823 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13273871 AACACATCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13274501 original size:69 final size:69
Alignment explanation
Indices: 13274364--13274509 Score: 177
Period size: 69 Copynumber: 2.1 Consensus size: 69
13274354 TAAACGAAGG
* * * * *
13274364 ATAATTTTGCTTTAATCATGCACTATGGCACCCACCATGACAGTGGCACCATGATCATGACAAGT
1 ATAA-TTTGCTTTAATCATGCACCATGGCACCCACCATGAAAGTGGCACCAAGACCATAACAAGT
13274429 GACTC
65 GACTC
* * * * *
13274434 ATAATTTGCTTTAGTCATTCCCCATGGCACCCA-CGTGAAAGTGGCACCAAGACCATAACAATTT
1 ATAATTTGCTTTAATCATGCACCATGGCACCCACCATGAAAGTGGCACCAAGACCATAACAA-GT
13274498 GACTC
65 GACTC
13274503 ATAATTT
1 ATAATTT
13274510 TGGTTCATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
68 23 0.35
69 38 0.58
70 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (69 bp):
ATAATTTGCTTTAATCATGCACCATGGCACCCACCATGAAAGTGGCACCAAGACCATAACAAGTG
ACTC
Found at i:13286227 original size:23 final size:23
Alignment explanation
Indices: 13286201--13286247 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13286191 GAAGAAACAC
13286201 ATCTGAAAGTCTTACAAGTTATG
1 ATCTGAAAGTCTTACAAGTTATG
13286224 ATCTGAAAGTCTTACAAGTTATG
1 ATCTGAAAGTCTTACAAGTTATG
13286247 A
1 A
13286248 CAAGTGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (23 bp):
ATCTGAAAGTCTTACAAGTTATG
Found at i:13286931 original size:14 final size:14
Alignment explanation
Indices: 13286912--13286941 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13286902 TGACTTGGTT
*
13286912 GCATTGTTTGCGTG
1 GCATTGTTTGCATG
13286926 GCATTGTTTGCATG
1 GCATTGTTTGCATG
13286940 GC
1 GC
13286942 TCTTTAACAA
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:0.17, G:0.33, T:0.40
Consensus pattern (14 bp):
GCATTGTTTGCATG
Found at i:13289868 original size:14 final size:12
Alignment explanation
Indices: 13289848--13289886 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
13289838 TTTTTTTATA
13289848 TTTTTGTATTTT
1 TTTTTGTATTTT
13289860 GTATTTTGTATTTT
1 -T-TTTTGTATTTT
*
13289874 TTTTTATATTTT
1 TTTTTGTATTTT
13289886 T
1 T
13289887 CAATATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (12 bp):
TTTTTGTATTTT
Found at i:13289880 original size:34 final size:32
Alignment explanation
Indices: 13289824--13289886 Score: 99
Period size: 34 Copynumber: 1.9 Consensus size: 32
13289814 CATCAAACCC
*
13289824 TTTTGTTTTTTTATTTTTTTTATATTTTTGTA
1 TTTTGTTTTTGTATTTTTTTTATATTTTTGTA
13289856 TTTTGTATTTTGTATTTTTTTTTATATTTTT
1 TTTTGT-TTTTGTA-TTTTTTTTATATTTTT
13289887 CAATATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 6 0.21
33 6 0.21
34 16 0.57
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (32 bp):
TTTTGTTTTTGTATTTTTTTTATATTTTTGTA
Found at i:13289885 original size:7 final size:7
Alignment explanation
Indices: 13289849--13289885 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
13289839 TTTTTTATAT
13289849 TTTTGTA
1 TTTTGTA
13289856 TTTTGTA
1 TTTTGTA
13289863 TTTTGTA
1 TTTTGTA
13289870 TTTT-T-
1 TTTTGTA
*
13289875 TTTTATA
1 TTTTGTA
13289882 TTTT
1 TTTT
13289886 TCAATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.14
6 2 0.07
7 22 0.79
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (7 bp):
TTTTGTA
Found at i:13290554 original size:48 final size:48
Alignment explanation
Indices: 13290414--13291533 Score: 991
Period size: 48 Copynumber: 23.1 Consensus size: 48
13290404 CAGCAACCTA
* * * * * * * *
13290414 TAAAATTCTATCTTAAAAAAGGCTCATCTCAGCAGAGACTCAATAAATTT
1 TAAAAATCCATCTTGAAAAA-GCTCCTCTAAGCAGAGGCTCAA-CAACTT
* ** * * * *
13290464 TAAAATTTTATCTTGAAAAAAGCTCATCTCAGCAAAGACTCAACAACTT
1 TAAAAATCCATCTTG-AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
*
13290513 TAAAAATCCATCTTGAAAAAGCTCCTCTTAA-CAGAGGCTCAATAACTT
1 TAAAAATCCATCTTGAAAAAGCTCCTC-TAAGCAGAGGCTCAACAACTT
* * *
13290561 TAAAATTCTATCTTGAAAAAGGCTCCTCTCAA-TAGAGGCTCAACAACTT
1 TAAAAATCCATCTTGAAAAA-GCTCCTCT-AAGCAGAGGCTCAACAACTT
* *
13290610 T-AAAATCTTATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTT
1 TAAAAATC-CATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * *
13290658 TAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTTAATAACTT
1 TAAAAATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
13290706 TAAAATTCATCATCTTGGAAAAGCTCCTCTAAGTAGAAG-TACAACAACTT
1 TAAAAATC--CATCTTGAAAAAGCTCCTCTAAGCAGAGGCT-CAACAACTT
* ** * * *
13290756 T-GAAATTTATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCGACAGCTT
1 TAAAAATCCATCTTGAAAAA-GCTCCTCTAAGCAGAGGCTCAACAACTT
* * * * * * *
13290804 TAAAATTCTATCTTGAAAAAAGCTCCTCTTAGCAAAGACTTAACAATTT
1 TAAAAATCCATCTTG-AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* ** * * *
13290853 TAAAAATTCATCTTGAAAAAGCTTATCTCAA-CAAAGGCTTAATAACTT
1 TAAAAATCCATCTTGAAAAAGCTCCTCT-AAGCAGAGGCTCAACAACTT
* * * *
13290901 TAAAATTCTATCTTGAAAAAGGTTCCTCTCAA-TAGAGGCTCAACAACTT
1 TAAAAATCCATCTTGAAAAA-GCTCCTCT-AAGCAGAGGCTCAACAACTT
*
13290950 TAAAAATCCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTT
1 TAAAAATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
** *
13290998 T-AAAATCTCATCTTGGGAAAGCTCCTCTAAGCAGAGGCTCAACAATTT
1 TAAAAATC-CATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * *
13291046 TAAAAATTCAT-TTCGGAAAAGCTCCTCTAAGCAGAGGCTCAATAACTT
1 TAAAAATCCATCTT-GAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
13291094 T-AAAATCTTATGTTGAAAAAGCTCCTTTAAACAGAGGCTCAACAACTT
1 TAAAAATC-CATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * * *
13291142 TAGAATTCATCATCTTGGAAAAGCTCCTTTAAGCAGAGGCACAACAACTT
1 TAAAAATC--CATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
** * * *
13291192 T-AAAATTTATCTTAAAAAACCTCTTCTAAGCAGAGGCTCAACAACTT
1 TAAAAATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
13291239 TAAAATTTAT-CATATTGGAAAAA-CTCCTTTAAGAAG-GGCACCAA-AACTT
1 TAAAA---ATCCATCTT-GAAAAAGCTCCTCTAAGCAGAGGC-TCAACAACTT
**
13291288 T-AAAATTTATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
1 TAAAAATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * *
13291335 TAAAAATCCATATTGGAAAAA-CTCCTCTAAGTAGAGGCACAACAACTT
1 TAAAAATCCATCTT-GAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
** *
13291383 T-AAAATTTATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTT
1 TAAAAATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * * * * *
13291430 TAAAATTTTTCATCTTGAAAAAGCTCCTCTAAGTAGAGACACTATAACTT
1 TAAAA--ATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
** * * *
13291480 T-AAAATTTATCTTGAAAAAGCTCCTCTAAGTAGAGGTTCAACAATTT
1 TAAAAATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
13291527 TAAAAAT
1 TAAAAAT
13291534 TCTCATATGT
Statistics
Matches: 887, Mismatches: 142, Indels: 84
0.80 0.13 0.08
Matches are distributed among these distances:
45 8 0.01
46 24 0.03
47 140 0.16
48 360 0.41
49 180 0.20
50 163 0.18
51 12 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (48 bp):
TAAAAATCCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
Found at i:13290591 original size:97 final size:95
Alignment explanation
Indices: 13290414--13291536 Score: 1124
Period size: 97 Copynumber: 11.6 Consensus size: 95
13290404 CAGCAACCTA
* * * * * * *
13290414 TAAAATTCTATCTTAAAAAAGGCTCATCTCAGCAGAGACTCAATAAATTTTAAAATTTTATCTTG
1 TAAAA-TCTATCTTGAAAAA-GCTCCTCTAAGCAGAGGCTCAA-CAACTTTAAAATTCTATCTTG
* * * *
13290479 AAAAAAGCTCATCTCAGCAAAGACTCAACAACTT
63 -AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* *
13290513 TAAAAATCCATCTTGAAAAAGCTCCTCTTAA-CAGAGGCTCAATAACTTTAAAATTCTATCTTGA
1 T-AAAATCTATCTTGAAAAAGCTCCTC-TAAGCAGAGGCTCAACAACTTTAAAATTCTATCTTGA
*
13290577 AAAAGGCTCCTCTCAA-TAGAGGCTCAACAACTT
64 AAAA-GCTCCTCT-AAGCAGAGGCTCAACAACTT
*
13290610 TAAAATCTTATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTC-ATCTTGA
1 TAAAATC-TATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCTATCTTGA
* *
13290674 AAAAGCTCCTCTAAGCAGAGGCTTAATAACTT
64 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
13290706 TAAAATTCATCATCTTGGAAAAGCTCCTCTAAGTAGAAG-TACAACAACTTTGAAATT-TATCTT
1 TAAAA-TC-T-ATCTTGAAAAAGCTCCTCTAAGCAGAGGCT-CAACAACTTTAAAATTCTATCTT
* * *
13290769 GAAAAAGGCTCCTCTCAGCAGAGGCTCGACAGCTT
62 GAAAAA-GCTCCTCTAAGCAGAGGCTCAACAACTT
* * * * *
13290804 TAAAATTCTATCTTGAAAAAAGCTCCTCTTAGCAAAGACTTAACAATTTTAAAAATTC-ATCTTG
1 TAAAA-TCTATCTTG-AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCTATCTTG
** * * *
13290868 AAAAAGCTTATCTCAA-CAAAGGCTTAATAACTT
63 AAAAAGCTCCTCT-AAGCAGAGGCTCAACAACTT
* * * *
13290901 TAAAATTCTATCTTGAAAAAGGTTCCTCTCAA-TAGAGGCTCAACAACTTTAAAAATCCATCTTG
1 TAAAA-TCTATCTTGAAAAA-GCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAATTCTATCTTG
*
13290965 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTT
63 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
** *
13290998 TAAAATCTCATCTTGGGAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAAATTC-AT-TTCG
1 TAAAATCT-ATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCTATCTT-G
* *
13291061 GAAAAGCTCCTCTAAGCAGAGGCTCAATAACTT
63 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
13291094 TAAAATCTTATGTTGAAAAAGCTCCTTTAAACAGAGGCTCAACAACTTTAGAATTCATCATCTTG
1 TAAAATC-TATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTC-T-ATCTTG
* * *
13291159 GAAAAGCTCCTTTAAGCAGAGGCACAACAACTT
63 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
13291192 TAAAATTTATCTTAAAAAACCTCTTCTAAGCAGAGGCTCAACAACTTTAAAATT-TATCATATTG
1 TAAAATCTATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTATC---TT-
* * *
13291256 GAAAAA-CTCCTTTAAGAAG-GGCACCAA-AACTT
62 GAAAAAGCTCCTCTAAGCAGAGGC-TCAACAACTT
* * * *
13291288 TAAAATTTATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCCATATTGGAA
1 TAAAATCTATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTATCTT-GAA
* *
13291353 AAA-CTCCTCTAAGTAGAGGCACAACAACTT
65 AAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * *
13291383 TAAAATTTATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTTTTCATCTTGA
1 TAAAATCTATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA-TTCT-ATCTTGA
* * * * *
13291448 AAAAGCTCCTCTAAGTAGAGACACTATAACTT
64 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
13291480 TAAAATTTATCTTGAAAAAGCTCCTCTAAGTAGAGGTTCAACAATTTTAAAAATTCT
1 TAAAATCTATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCT
13291537 CATATGTTCT
Statistics
Matches: 870, Mismatches: 111, Indels: 88
0.81 0.10 0.08
Matches are distributed among these distances:
94 26 0.03
95 72 0.08
96 225 0.26
97 368 0.42
98 158 0.18
99 17 0.02
100 4 0.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (95 bp):
TAAAATCTATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTATCTTGAAA
AAGCTCCTCTAAGCAGAGGCTCAACAACTT
Found at i:13290679 original size:145 final size:144
Alignment explanation
Indices: 13290414--13291535 Score: 1138
Period size: 145 Copynumber: 7.7 Consensus size: 144
13290404 CAGCAACCTA
* * * * * *
13290414 TAAAATTCT-ATCTTAAAAAAGGCTCATCTCAGCAGAGACTCAATAAATTTTAAAATTTTATCTT
1 TAAAATTCTCATCTTGAAAAA-GCTCCTCTAAGCAGAGGCTCAA-CAACTTTAAAA-TTTATCTT
* * * * *
13290478 GAAAAAAGCTCATCTCAGCAAAGACTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTTA
63 G-AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTTA
*
13290543 ACAGAGGCTCAATAACTT
127 ACAGAGGCTCAACAACTT
*
13290561 TAAAATTCT-ATCTTGAAAAAGGCTCCTCTCAA-TAGAGGCTCAACAACTTTAAAATCTTATCTT
1 TAAAATTCTCATCTTGAAAAA-GCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAT-TTATCTT
*
13290624 GAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTC-TAA
63 GAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTTAA
* *
13290688 GCAGAGGCTTAATAACTT
128 -CAGAGGCTCAACAACTT
* * * *
13290706 TAAAATTCATCATCTTGGAAAAGCTCCTCTAAGTAGAAG-TACAACAACTTTGAAATTTATCTTG
1 TAAAATTC-TCATCTTGAAAAAGCTCCTCTAAGCAGAGGCT-CAACAACTTTAAAATTTATCTTG
* * *
13290770 AAAAAGGCTCCTCTCAGCAGAGGCTCGACAGCTTT-AAAATTCTATCTTGAAAAAAGCTCCTCTT
64 AAAAA-GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTC-ATCTTG-AAAAAGCTCCTCTT
* * * * *
13290834 AGCAAAGACTTAACAATTT
126 AACAGAGGCTCAACAACTT
* ** * * *
13290853 TAAAAAT-TCATCTTGAAAAAGCTTATCTCAA-CAAAGGCTTAATAACTTTAAAATTCTATCTTG
1 TAAAATTCTCATCTTGAAAAAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAATT-TATCTTG
* * *
13290916 AAAAAGGTTCCTCTCAA-TAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTC-TA
64 AAAAA-GCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTTA
*
13290979 AGTAGAGGCTCAACAACTT
127 A-CAGAGGCTCAACAACTT
** * *
13290998 TAAAA-TCTCATCTTGGGAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAAATTCAT-TTCG
1 TAAAATTCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTTATCTT-G
* * * *
13291061 GAAAAGCTCCTCTAAGCAGAGGCTCAATAACTTT-AAAATCTTATGTTGAAAAAGCTCCT-TTAA
64 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTT-A
13291124 ACAGAGGCTCAACAACTT
127 ACAGAGGCTCAACAACTT
* * * * *
13291142 TAGAATTCATCATCTTGGAAAAGCTCCTTTAAGCAGAGGCACAACAACTTTAAAATTTATCTTAA
1 TAAAATTC-TCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTATCTTGA
* * * *
13291207 AAAACCTCTTCTAAGCAGAGGCTCAACAACTTTAAAATTTATCATATTGGAAAAA-CTCCT-TTA
65 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA-AT-TCATCTT-GAAAAAGCTCCTCTTA
* *
13291270 AGA-AGGGCACCAA-AACTT
127 ACAGA-GGC-TCAACAACTT
** *
13291288 TAAAATT-T-ATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCCATATTGG
1 TAAAATTCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTTATCTT-G
* * *
13291351 AAAAA-CTCCTCTAAGTAGAGGCACAACAACTTT-AAAATTTATCTTGAAAAAGCTCCTC-TAAG
64 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTTAA-
*
13291413 CAAAGGCTCAACAACTT
128 CAGAGGCTCAACAACTT
* * * * * *
13291430 TAAAATTTTTCATCTTGAAAAAGCTCCTCTAAGTAGAGACACTATAACTTTAAAATTTATCTTGA
1 TAAAA-TTCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTATCTTGA
* * *
13291495 AAAAGCTCCTCTAAGTAGAGGTTCAACAATTTTAAAAATTC
65 AAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTC
13291536 TCATATGTTC
Statistics
Matches: 820, Mismatches: 110, Indels: 92
0.80 0.11 0.09
Matches are distributed among these distances:
140 6 0.01
141 16 0.02
142 15 0.02
143 56 0.07
144 140 0.17
145 292 0.36
146 186 0.23
147 100 0.12
148 9 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (144 bp):
TAAAATTCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTATCTTGAA
AAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTTAACAG
AGGCTCAACAACTT
Done.