Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 79 of 240
Found at i:25220154 original size:23 final size:23
Alignment explanation
Indices: 25220124--25220170 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25220114 TTTTTGAAGT
25220124 CATGGGAGCTTAATTAAGGTAGC
1 CATGGGAGCTTAATTAAGGTAGC
*
25220147 CATGGGAGCTTAATTTAGGTAGC
1 CATGGGAGCTTAATTAAGGTAGC
25220170 C
1 C
25220171 TGTGTACCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (23 bp):
CATGGGAGCTTAATTAAGGTAGC
Found at i:25222293 original size:20 final size:20
Alignment explanation
Indices: 25222270--25222308 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25222260 TTTATATATA
*
25222270 TATTA-TAATATTTAATAAAT
1 TATTATTAAT-TTAAATAAAT
25222290 TATTATTAATTTAAATAAA
1 TATTATTAATTTAAATAAA
25222309 ATGTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTATTAATTTAAATAAAT
Found at i:25231145 original size:42 final size:43
Alignment explanation
Indices: 25231099--25231230 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 43
25231089 TCTTCTAAGA
* *
25231099 GCCGCTAAAGAACATGACCTTTAGCGACGC-TTTGTAAAAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGACACTTTTGTAAAAAAC
* * * * * * *
25231141 GCCGCTAGAGATCATAATCTTTAGCGGCACTTTTTTTACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGACACTTTTGTAAAAAAC
** * * *
25231184 GCCGCTAAAGATCATGTTCTTTAGGGGCACTTTTATACAAAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGACACTTTTGTA-AAAAAC
25231228 GCC
1 GCC
25231231 ACTATTTTTG
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 24 0.33
43 40 0.56
44 8 0.11
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGATCATGACCTTTAGCGACACTTTTGTAAAAAAC
Found at i:25231625 original size:21 final size:21
Alignment explanation
Indices: 25231601--25231651 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25231591 TTCTTTTGAA
* *
25231601 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
25231622 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
*
25231643 CCTTTGCTT
1 CCTCTGCTT
25231652 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.43, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:25232491 original size:114 final size:114
Alignment explanation
Indices: 25232180--25232542 Score: 552
Period size: 113 Copynumber: 3.2 Consensus size: 114
25232170 AAAGTTGAAA
* * *
25232180 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCGGCGCTCTCTTAAAAACACTGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
* * * *
25232245 ATCCCCAAAAGATCAGAAAACGGCGTCGTCGGTCTTAGGTTTTTTTGCG
66 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
25232294 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGT-GCGCTCTCTTAAAAACGCCGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
*
25232358 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCG
66 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
* * * * * *
25232407 GTGCTTTCTCAAAAACACAGCTAAAGCCTTGAGTATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
*
25232472 ATCCCCGAAAGCTCCGAAAACAGCGTCGTTGGTCTTAGG--TTTTTGCG
66 ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
* *
25232519 GCGCTTTCTGAAAAACGCCGCTAA
1 GCGCTTCCTCAAAAACGCCGCTAA
25232543 TGATTATTTT
Statistics
Matches: 228, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
112 28 0.12
113 100 0.44
114 100 0.44
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGCATTAGTGGCGCTCTCTTAAAAACGCCGCTAA
ATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTTTTTTTGCG
Found at i:25232618 original size:12 final size:12
Alignment explanation
Indices: 25232601--25232626 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25232591 TTTAGCAAAC
25232601 AAACGCCGCTAA
1 AAACGCCGCTAA
25232613 AAACGCCGCTAA
1 AAACGCCGCTAA
25232625 AA
1 AA
25232627 GCCTGTTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:25245409 original size:27 final size:27
Alignment explanation
Indices: 25245371--25245431 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
25245361 GGGTGTGGTG
25245371 CCTATCTGATAGGC-GACACCAGTGACC
1 CCTATCTGATAGGCAG-CACCAGTGACC
25245398 CCTATCTGATAGGCAGCACCAGTGACC
1 CCTATCTGATAGGCAGCACCAGTGACC
25245425 CCTATCT
1 CCTATCT
25245432 AGGGGTGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (27 bp):
CCTATCTGATAGGCAGCACCAGTGACC
Found at i:25245642 original size:9 final size:9
Alignment explanation
Indices: 25245628--25245704 Score: 100
Period size: 9 Copynumber: 8.4 Consensus size: 9
25245618 TTTGGTTAAA
25245628 AATTACCCG
1 AATTACCCG
*
25245637 AATTACTCG
1 AATTACCCG
25245646 AATTACCCG
1 AATTACCCG
25245655 AATTACCCG
1 AATTACCCG
*
25245664 AATTAACCG
1 AATTACCCG
**
25245673 AATTACCAAA
1 AATTACC-CG
*
25245683 AAATACCCG
1 AATTACCCG
25245692 AATTACCCG
1 AATTACCCG
25245701 AATT
1 AATT
25245705 TTTTTTATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
9 51 0.89
10 6 0.11
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:25246140 original size:27 final size:27
Alignment explanation
Indices: 25246082--25246150 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
25246072 CACCCCTACC
* *
25246082 CCTATCTGATAGGCGGCACTGGTTATG
1 CCTATCTGATAGGCGGCACTAGTGATG
*
25246109 CCTATCTGATAGGCGGCACTAGTGGTG
1 CCTATCTGATAGGCGGCACTAGTGATG
* *
25246136 TCTATCTAATAGGCG
1 CCTATCTGATAGGCG
25246151 ACACACCTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTAGTGATG
Found at i:25249153 original size:44 final size:45
Alignment explanation
Indices: 25249105--25249193 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
25249095 CATGAATTAT
*
25249105 TCCTGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
*
25249149 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
25249194 TTTCTGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
46 23 0.56
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (45 bp):
TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
Found at i:25250174 original size:9 final size:9
Alignment explanation
Indices: 25250160--25250193 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
25250150 TTCTATTCTG
25250160 TTTCTTTTC
1 TTTCTTTTC
25250169 TTTCTTTT-
1 TTTCTTTTC
*
25250177 TTTCTATTC
1 TTTCTTTTC
25250186 TTTCTTTT
1 TTTCTTTT
25250194 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:25250186 original size:17 final size:17
Alignment explanation
Indices: 25250160--25250193 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25250150 TTCTATTCTG
*
25250160 TTTCTTTTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
25250177 TTTCTATTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
25250194 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTATTCTTTCTTTT
Found at i:25250215 original size:5 final size:5
Alignment explanation
Indices: 25250202--25250274 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
25250192 TTGTTTTATG
25250202 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
25250250 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
25250275 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:25250227 original size:19 final size:19
Alignment explanation
Indices: 25250203--25250245 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
25250193 TGTTTTATGT
25250203 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
25250222 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
25250241 ATATA
1 ATATA
25250246 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:25250255 original size:24 final size:24
Alignment explanation
Indices: 25250209--25250273 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
25250199 ATGTATATAT
* * *
25250209 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
25250233 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
25250257 ATTACTATAATATAATA
1 A-TAATATAATATAATA
25250274 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:25252336 original size:443 final size:443
Alignment explanation
Indices: 25251510--25252398 Score: 1697
Period size: 443 Copynumber: 2.0 Consensus size: 443
25251500 GGGATCAACA
25251510 CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
1 CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
25251575 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
66 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
25251640 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATGACGAGGTCGATGAATGTAGAAGTAG
131 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATGACGAGGTCGATGAATGTAGAAGTAG
*
25251705 ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACTATCGGTCGTCGACTCGGTATACCACCT
196 ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
25251770 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTAATTGCAGGAGGCCCCAAACGCTTCATTA
261 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTAATTGCAGGAGGCCCCAAACGCTTCATTA
* *
25251835 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTTGTTCAATGTTGAACAATTTGTTGATG
326 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
25251900 ATGTGTACACACTCGAGCGCACATTGCGTGTCTGGGAGAATGAGTTCCCCGTC
391 ATGTGTACACACTCGAGCGCACATTGCGTGTCTGGGAGAATGAGTTCCCCGTC
25251953 CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
1 CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
*
25252018 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCTAACAAGATATAGGCGGGACACGTGTTTAT
66 GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
25252083 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATGACGAGGTCGATGAATGTAGAAGTAG
131 CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATGACGAGGTCGATGAATGTAGAAGTAG
25252148 ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
196 ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
* *
25252213 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTGATTGCAGGAGGTCCCAAACGCTTCATTA
261 AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTAATTGCAGGAGGCCCCAAACGCTTCATTA
25252278 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
326 TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
* * *
25252343 ATGTGTGCACACTCGAGCGCACATTGTGTGTTTGGGAGAATGAGTTCCCCGTC
391 ATGTGTACACACTCGAGCGCACATTGCGTGTCTGGGAGAATGAGTTCCCCGTC
25252396 CTG
1 CTG
25252399 CCTAACCTGT
Statistics
Matches: 437, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
443 437 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (443 bp):
CTGTGTTGTTGAAAACACGACATCTTCCAATTTCATCTGTCTTCTATGTTACATTCTACATGTTG
GCTACCTTGATGCCAAGAATGAGTTAGCAACAAGCCAACAAGATATAGGCGGGACACGTGTTTAT
CGAATATGTCAGGGATGCAATGGTTGCAAATCGTCGAATGACGAGGTCGATGAATGTAGAAGTAG
ATTCATGACGTCTTGAAATGTTTCGAGTTACGGAGACCATCGGTCGTCGACTCGGTATACCACCT
AGGTCCTATGGAGTTGATCTCTGAAACAGACGGTGTAATTGCAGGAGGCCCCAAACGCTTCATTA
TCTATGTGCGCATGTCATGGAAACGTGTGCTAAAGTCTCGTTCAATGTTGAACAATTTGTCGATG
ATGTGTACACACTCGAGCGCACATTGCGTGTCTGGGAGAATGAGTTCCCCGTC
Found at i:25252886 original size:33 final size:33
Alignment explanation
Indices: 25252834--25252930 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
25252824 TGAACTTGAG
* **
25252834 CCAGGAGGAATGCCATACTGCAGTGGATAC-GA
1 CCAGGAGGAGTGTGATACTGCAGTGGATACAGA
* *
25252866 CCTAGGAGGAGTG-GAGTACTGCAGTGGATTCAGG
1 CC-AGGAGGAGTGTGA-TACTGCAGTGGATACAGA
* *
25252900 CCAGGAGGAGTGTTATACTGCGGTGGATACA
1 CCAGGAGGAGTGTGATACTGCAGTGGATACA
25252931 ACCCAAAGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
32 3 0.06
33 47 0.87
34 4 0.07
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.20
Consensus pattern (33 bp):
CCAGGAGGAGTGTGATACTGCAGTGGATACAGA
Found at i:25259168 original size:21 final size:20
Alignment explanation
Indices: 25259140--25259178 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25259130 TAGATGAGGG
25259140 ATTAAGCTTGAT-ACAATGCA
1 ATTAAGC-TGATGACAATGCA
25259160 ATTACAGCTGATGACAATG
1 ATTA-AGCTGATGACAATG
25259179 GTCTTGCCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (20 bp):
ATTAAGCTGATGACAATGCA
Found at i:25260012 original size:23 final size:23
Alignment explanation
Indices: 25259967--25260012 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25259957 ATTAGTAGGG
* *
25259967 TTGTCAAAATGGGATTACCAACA
1 TTGTCAAAATGGGATCACAAACA
* *
25259990 TTGTGAAAATGGGATCAGAAACA
1 TTGTCAAAATGGGATCACAAACA
25260013 AAAGCAGTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (23 bp):
TTGTCAAAATGGGATCACAAACA
Found at i:25262358 original size:41 final size:42
Alignment explanation
Indices: 25262313--25262427 Score: 112
Period size: 39 Copynumber: 2.8 Consensus size: 42
25262303 TTTATAACAA
*
25262313 AAACGCCGCAAAAGGTCAAGCATTAGCGGCG-TTTCTGAAAC
1 AAACGCCACAAAAGGTCAAGCATTAGCGGCGCTTTCTGAAAC
* * * *
25262354 AAACGTCACTATAGGTCAAGCATTAGCGGCGCTTTTTG--A-
1 AAACGCCACAAAAGGTCAAGCATTAGCGGCGCTTTCTGAAAC
* * * * *
25262393 AAACGCCACTATAGATCAAGCATTGGCGGCCCTTT
1 AAACGCCACAAAAGGTCAAGCATTAGCGGCGCTTT
25262428 TAGAAAAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.48
40 1 0.02
41 27 0.42
42 5 0.08
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (42 bp):
AAACGCCACAAAAGGTCAAGCATTAGCGGCGCTTTCTGAAAC
Found at i:25262412 original size:39 final size:40
Alignment explanation
Indices: 25262328--25262462 Score: 166
Period size: 39 Copynumber: 3.4 Consensus size: 40
25262318 CCGCAAAAGG
* * *
25262328 TCAAGCATTAGCGGCG-TTTCTGAAACAAACGTCACTATAGG
1 TCAAGCATTAGCGGCGCTTTTTG-AA-AAACGCCACTATAGA
25262369 TCAAGCATTAGCGGCGCTTTTTG-AAAACGCCACTATAGA
1 TCAAGCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGA
* * * * *
25262408 TCAAGCATTGGCGGCCCTTTTAGAAAAATGCCGCTATAGA
1 TCAAGCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGA
25262448 TCAAGCATTAGCGGC
1 TCAAGCATTAGCGGC
25262463 ATTTCTCGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.40
40 29 0.35
41 16 0.19
42 5 0.06
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (40 bp):
TCAAGCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGA
Found at i:25262474 original size:40 final size:38
Alignment explanation
Indices: 25262328--25262476 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 38
25262318 CCGCAAAAGG
* * *
25262328 TCAAGCATTAGCGGCGTTTCTGAAACAAACGTCACTATAGG
1 TCAAGCATTAGCGGCCTTT-TG-AA-AAACGCCACTATAGA
25262369 TCAAGCATTAGCGGCGCTTTTTG-AAAACGCCACTATAGA
1 TCAAGCATTAGCGGC-C-TTTTGAAAAACGCCACTATAGA
* * *
25262408 TCAAGCATTGGCGGCCCTTTTAGAAAAATGCCGCTATAGA
1 TCAAGCATTAGCGG-CCTTTT-GAAAAACGCCACTATAGA
*
25262448 TCAAGCATTAGCGGCATTTCTCGAAAAAC
1 TCAAGCATTAGCGGCCTTT-T-GAAAAAC
25262477 ACCGCTACAA
Statistics
Matches: 92, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
38 4 0.04
39 32 0.35
40 36 0.39
41 15 0.16
42 2 0.02
43 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (38 bp):
TCAAGCATTAGCGGCCTTTTGAAAAACGCCACTATAGA
Found at i:25262737 original size:154 final size:154
Alignment explanation
Indices: 25262443--25262894 Score: 601
Period size: 154 Copynumber: 2.9 Consensus size: 154
25262433 AAATGCCGCT
* * ** * * * *
25262443 ATAGATCAAGCATTAGCGGCATTTCTCGAAAAACACCGCTA-CAATCGAGCA-TAGTGGCGCTTT
1 ATAGATCGAGAATTAGCGGCGCTTATTGAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTT
*
25262506 TCGGAGAACGCCACAAAAAAGTTGAGCAAAACACGTCG-TT-TTGTTGAGCTTTAGTGGCATTAG
66 TCGGAGAATGCCACAAAAAA-TTGAGCAAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAG
* *
25262569 AGGCTCTTTTGTAAAAAACACCACA
130 CGGCGCTTTTGTAAAAAACACCACA
* * *
25262594 ATAGATCGAGAATTAGCGGCGCTTGTTGAAAAACGCCGCTATAAATCGAGCATTAGTGACACTTT
1 ATAGATCGAGAATTAGCGGCGCTTATTGAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTT
25262659 TCGGAGAATGCCACAAAAAATTGAGCAAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGC
66 TCGGAGAATGCCACAAAAAATTGAGCAAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGC
*
25262724 GGCGCTTTTGTAAAAAACACCGCA
131 GGCGCTTTTGTAAAAAACACCACA
* * * *
25262748 ATAGATCGAGAATTAGCGGCGCTTATTGAAAAATGCCACTATAGATCGAGCATTAGCGGCGCTTT
1 ATAGATCGAGAATTAGCGGCGCTTATTGAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTT
* * * *
25262813 TCGCAAAATGCCGA-AAAAAGTTGAG-AAAACGACGTCATTTGTTGTTGAGCTTTAGTGGCATTA
66 TCGGAGAATGCC-ACAAAAAATTGAGCAAAAC-ACGTCGTTTGTTGTTGAGCTTTAGTGGCATTA
* *
25262876 GCAGCGTTTTTGATAAAAA
129 GCGGCGCTTTTG-TAAAAA
25262895 CGCTACAAAA
Statistics
Matches: 267, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
151 34 0.13
152 26 0.10
153 36 0.13
154 164 0.61
155 7 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (154 bp):
ATAGATCGAGAATTAGCGGCGCTTATTGAAAAACGCCGCTATAAATCGAGCATTAGTGGCGCTTT
TCGGAGAATGCCACAAAAAATTGAGCAAAACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGC
GGCGCTTTTGTAAAAAACACCACA
Found at i:25262780 original size:41 final size:40
Alignment explanation
Indices: 25262718--25262813 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
25262708 CTTTAGTGGC
*
25262718 ATTAGCGGCGCTTTTGTAAAAAACACCGCAATAGATCGAGA
1 ATTAGCGGCGCTTTTGT-AAAAACACCACAATAGATCGAGA
** * *
25262759 ATTAGCGGCGCTTATTG-AAAAATGCCACTATAGATCGAGC
1 ATTAGCGGCGCTT-TTGTAAAAACACCACAATAGATCGAGA
25262799 ATTAGCGGCGCTTTT
1 ATTAGCGGCGCTTTT
25262814 CGCAAAATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.04
40 31 0.63
41 13 0.27
42 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTGTAAAAACACCACAATAGATCGAGA
Found at i:25262792 original size:40 final size:40
Alignment explanation
Indices: 25262748--25262824 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
25262738 AAACACCGCA
25262748 ATAGATCGAGAATTAGCGGCGCTTATT-GAAAAATGCCACT
1 ATAGATCGAGAATTAGCGGCGCTT-TTCGAAAAATGCCACT
* *
25262788 ATAGATCGAGCATTAGCGGCGCTTTTCGCAAAATGCC
1 ATAGATCGAGAATTAGCGGCGCTTTTCGAAAAATGCC
25262825 GAAAAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (40 bp):
ATAGATCGAGAATTAGCGGCGCTTTTCGAAAAATGCCACT
Found at i:25263020 original size:14 final size:14
Alignment explanation
Indices: 25263003--25263046 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
25262993 TATTTTGGGA
25263003 TTAGAGTTT-TGAGT
1 TTAGAGTTTATG-GT
*
25263017 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
*
25263031 TTAGAGTTTGTGGT
1 TTAGAGTTTATGGT
25263045 TT
1 TT
25263047 GGGGTCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:25263229 original size:7 final size:7
Alignment explanation
Indices: 25263219--25263424 Score: 119
Period size: 7 Copynumber: 29.4 Consensus size: 7
25263209 GTAATATATA
25263219 TTTAGGG
1 TTTAGGG
25263226 TTTAGGG
1 TTTAGGG
*
25263233 TGTA-GG
1 TTTAGGG
*
25263239 TTTATGG
1 TTTAGGG
* *
25263246 CTTATGG
1 TTTAGGG
*
25263253 TTTAAGG
1 TTTAGGG
*
25263260 TTTAGGA
1 TTTAGGG
* *
25263267 TTTATGA
1 TTTAGGG
*
25263274 TTTAGTG
1 TTTAGGG
* *
25263281 TTAAGAG
1 TTTAGGG
*
25263288 TTTAGTG
1 TTTAGGG
* *
25263295 TTTAAGA
1 TTTAGGG
25263302 TTTAGGG
1 TTTAGGG
*
25263309 TGTA-GG
1 TTTAGGG
*
25263315 TTTATGG
1 TTTAGGG
*
25263322 TTTAGTG
1 TTTAGGG
*
25263329 TTTATGG
1 TTTAGGG
*
25263336 TTTATGG
1 TTTAGGG
*
25263343 TTTAGAG
1 TTTAGGG
* *
25263350 ATTAGAG
1 TTTAGGG
25263357 TTTAGGG
1 TTTAGGG
*
25263364 TTTATGG
1 TTTAGGG
**
25263371 TTTAAAG
1 TTTAGGG
25263378 TTTAGGAG
1 TTTAGG-G
*
25263386 CTTAGGGG
1 TTTA-GGG
*
25263394 CTTAGGG
1 TTTAGGG
*
25263401 TTTATGG
1 TTTAGGG
*
25263408 TTTAGTG
1 TTTAGGG
25263415 TTTAGGG
1 TTTAGGG
25263422 TTT
1 TTT
25263425 GATTTTAAAC
Statistics
Matches: 153, Mismatches: 42, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
6 10 0.07
7 132 0.86
8 9 0.06
9 2 0.01
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:25264111 original size:22 final size:23
Alignment explanation
Indices: 25264075--25264117 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
25264065 ACTCTTTTTC
*
25264075 AAAAGGTTGATGGTCAAATTTGA
1 AAAAGATTGATGGTCAAATTTGA
25264098 AAAAGATTGA-GGTCAAATTT
1 AAAAGATTGATGGTCAAATTT
25264118 AACTGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (23 bp):
AAAAGATTGATGGTCAAATTTGA
Found at i:25266360 original size:6 final size:6
Alignment explanation
Indices: 25266349--25266388 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
25266339 TCATACTCTT
* * *
25266349 ATTTTA ATTTTA ATTTTA ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTT
25266389 ATTTGCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:25266366 original size:12 final size:12
Alignment explanation
Indices: 25266349--25266388 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
25266339 TCATACTCTT
*
25266349 ATTTTAATTTTA
1 ATTTTAATTTTG
25266361 ATTTTAATTTTG
1 ATTTTAATTTTG
*
25266373 ATTTTGATTTTG
1 ATTTTAATTTTG
25266385 ATTT
1 ATTT
25266389 ATTTGCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:25270252 original size:39 final size:36
Alignment explanation
Indices: 25270209--25270280 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 36
25270199 AAAATTAAAA
*
25270209 ATATTTCTTTTAT-AATTTTTATATTTTTAAATAATTTTT
1 ATATTT-TTTT-TGAATTTTT-TATATTTAAA-AATTTTT
25270248 ATATTTTTTTTGAATTTTTTATATTTAAAAATT
1 ATATTTTTTTTGAATTTTTTATATTTAAAAATT
25270281 AATTAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
36 4 0.13
37 10 0.32
38 11 0.35
39 6 0.19
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (36 bp):
ATATTTTTTTTGAATTTTTTATATTTAAAAATTTTT
Found at i:25270263 original size:19 final size:18
Alignment explanation
Indices: 25270209--25270273 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 18
25270199 AAAATTAAAA
25270209 ATATTTCTTTTATAATTTTT
1 ATATTT-TTTT-TAATTTTT
**
25270229 ATATTTTTAAATAATTTTT
1 ATATTTTT-TTTAATTTTT
25270248 ATATTTTTTTTGAATTTTTT
1 ATATTTTTTTT-AA-TTTTT
25270268 ATATTT
1 ATATTT
25270274 AAAAATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.53
20 17 0.45
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
ATATTTTTTTTAATTTTT
Found at i:25270273 original size:9 final size:9
Alignment explanation
Indices: 25270216--25270273 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
25270206 AAAATATTTC
*
25270216 TTTTATAAT
1 TTTTATATT
25270225 TTTTATATT
1 TTTTATATT
* *
25270234 TTTAAATAAT
1 TTT-TATATT
25270244 TTTTATATT
1 TTTTATATT
*
25270253 TTTTTTGAATT
1 TTTTAT--ATT
25270264 TTTTATATT
1 TTTTATATT
25270273 T
1 T
25270274 AAAAATTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 24 0.62
10 7 0.18
11 8 0.21
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATATT
Found at i:25271569 original size:21 final size:20
Alignment explanation
Indices: 25271543--25271586 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
25271533 ATTTTAAATT
25271543 TTTTTTATATA-TTCTTTATGA
1 TTTTTTATATAGTT-TTTAT-A
*
25271564 TTTTTTTTATAGTTTTTATA
1 TTTTTTATATAGTTTTTATA
25271584 TTT
1 TTT
25271587 GTTAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 15 0.71
22 2 0.10
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (20 bp):
TTTTTTATATAGTTTTTATA
Found at i:25274235 original size:21 final size:21
Alignment explanation
Indices: 25274211--25274263 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
25274201 CATTGTTTCT
*
25274211 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
25274232 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
25274253 AATCTCACCGC
1 AATCTCACCGC
25274264 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:25275505 original size:54 final size:54
Alignment explanation
Indices: 25275426--25275529 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
25275416 TTGTTATTAG
* * *
25275426 ATATCGATTATATTGTAATATGATTTGGATTATATCTTGTCTTTATTTAATTCA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATCTTGTCTTTATTTAATTCA
* * * *
25275480 ATATCAATTATACTGTACTAGGATTTTGATTATATTTTTTCTTTATTTAA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATCTTGTCTTTATTTAA
25275530 AAATAAGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.53
Consensus pattern (54 bp):
ATATCAATTATACTGTAATAGGATTTGGATTATATCTTGTCTTTATTTAATTCA
Found at i:25277581 original size:17 final size:17
Alignment explanation
Indices: 25277552--25277640 Score: 58
Period size: 18 Copynumber: 5.0 Consensus size: 17
25277542 TTCAAGTAGT
25277552 AAATAATATATTTTTTA
1 AAATAATATATTTTTTA
25277569 AAAT-ATATAATTTTTTTA
1 AAATAATAT-A-TTTTTTA
* * **
25277587 TATTTTTACTATTTTTTA
1 AAATAATA-TATTTTTTA
25277605 AAATTTGAA-ATTATTTTTTA
1 AAA--T-AATA-TATTTTTTA
25277625 AAA-AATATATTTTTTA
1 AAATAATATATTTTTTA
25277641 TTTTTTGAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
16 15 0.27
17 6 0.11
18 17 0.30
19 3 0.05
20 15 0.27
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
AAATAATATATTTTTTA
Found at i:25292541 original size:41 final size:41
Alignment explanation
Indices: 25292495--25292609 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
25292485 ACCGGATTTT
* *
25292495 AGCCTGCTAGACTTATTGTCCG-A-AATGTATCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCCGAATAAT-T-TCACCGGCATCA
* * *
25292536 AGCCTGTTAGACTTATAGTCTGAATAATTTCACCTGCATCA
1 AGCCTGCTAGACTTATAGTCCGAATAATTTCACCGGCATCA
* * * *
25292577 AGCCTGCTAGACATAAAGTCTGAATTATTTCAC
1 AGCCTGCTAGACTTATAGTCCGAATAATTTCAC
25292610 TGACAATAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 58 0.92
42 2 0.03
43 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCCGAATAATTTCACCGGCATCA
Found at i:25297302 original size:13 final size:13
Alignment explanation
Indices: 25297286--25297311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25297276 AAAACAATCC
25297286 CTAAAAATCAGTA
1 CTAAAAATCAGTA
25297299 CTAAAAATCAGTA
1 CTAAAAATCAGTA
25297312 ACTTCCTAAG
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
CTAAAAATCAGTA
Found at i:25297515 original size:25 final size:25
Alignment explanation
Indices: 25297481--25297533 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
25297471 GCGTTCTTAG
25297481 TAATTTCAAATGGAAAACATTGTAC
1 TAATTTCAAATGGAAAACATTGTAC
25297506 TAATTTCAAATGGAAAACATTGTAC
1 TAATTTCAAATGGAAAACATTGTAC
25297531 TAA
1 TAA
25297534 CCTTGTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (25 bp):
TAATTTCAAATGGAAAACATTGTAC
Found at i:25303540 original size:20 final size:20
Alignment explanation
Indices: 25303503--25303540 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25303493 AAAAAAACTC
*
25303503 AAAATAATTTTCAGATTTTT
1 AAAATAATTTTCAAATTTTT
*
25303523 AAAATAATTTTTAAATTT
1 AAAATAATTTTCAAATTT
25303541 AAAAATATTT
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:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAATAATTTTCAAATTTTT
Found at i:25303547 original size:19 final size:20
Alignment explanation
Indices: 25303503--25303547 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
25303493 AAAAAAACTC
* *
25303503 AAAATAATTTTCAGATTTTT
1 AAAATAATTTTCAGAATTTA
*
25303523 AAAATAATTTTTA-AATTTA
1 AAAATAATTTTCAGAATTTA
25303542 AAAATA
1 AAAATA
25303548 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATAATTTTCAGAATTTA
Found at i:25303556 original size:11 final size:10
Alignment explanation
Indices: 25303535--25303612 Score: 50
Period size: 10 Copynumber: 7.3 Consensus size: 10
25303525 AATAATTTTT
25303535 AAATTTAAAA
1 AAATTTAAAA
*
25303545 ATATTTATAAA
1 AAATTTA-AAA
25303556 AAATTTAAAA
1 AAATTTAAAA
* *
25303566 TTTATATTTTTAAA
1 ---A-AATTTAAAA
*
25303580 AAA-TTATAA
1 AAATTTAAAA
25303589 AAATTCTAAAA
1 AAATT-TAAAA
*
25303600 AAATATAAAA
1 AAATTTAAAA
25303610 AAA
1 AAA
25303613 AGTTAAAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
9 7 0.13
10 19 0.37
11 18 0.35
13 1 0.02
14 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:25304709 original size:19 final size:20
Alignment explanation
Indices: 25304685--25304725 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
25304675 GAATTTAGGA
*
25304685 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
25304704 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
25304724 AA
1 AA
25304726 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:25310220 original size:2 final size:2
Alignment explanation
Indices: 25310213--25310237 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25310203 AGCTTGTCTT
25310213 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
25310238 TAAAAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25311251 original size:17 final size:18
Alignment explanation
Indices: 25311219--25311252 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25311209 AGTAAAACTC
25311219 AAGATGAATATATATAAT
1 AAGATGAATATATATAAT
*
25311237 AAGAT-AATGTATATAA
1 AAGATGAATATATATAA
25311253 AATAACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAGATGAATATATATAAT
Found at i:25312801 original size:25 final size:25
Alignment explanation
Indices: 25312759--25312811 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
25312749 AGCATCCCAG
25312759 CGGGGTCCCCAGCCAACTAACTTTA
1 CGGGGTCCCCAGCCAACTAACTTTA
* ** *
25312784 CGGGGTCCTCAGTGAACTATCTTTA
1 CGGGGTCCCCAGCCAACTAACTTTA
25312809 CGG
1 CGG
25312812 TGAACATTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.25
Consensus pattern (25 bp):
CGGGGTCCCCAGCCAACTAACTTTA
Found at i:25315029 original size:23 final size:23
Alignment explanation
Indices: 25315002--25315077 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
25314992 AGTGTTATTG
*
25315002 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
25315025 TTCAGTGGCAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25315048 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25315071 ATCAGTG
1 ATCAGTG
25315078 TTGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25317676 original size:25 final size:24
Alignment explanation
Indices: 25317648--25317705 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
25317638 ACATAACAAA
25317648 AAGCTCAT-GTGAGCTGTATAACGGG
1 AAGCTCATCG-GA-CTGTATAACGGG
*
25317673 AAGCTTATCCGGACTGTATAACGGG
1 AAGCTCAT-CGGACTGTATAACGGG
*
25317698 ACGCTCAT
1 AAGCTCAT
25317706 AAGAGCCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 25 0.89
26 2 0.07
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (24 bp):
AAGCTCATCGGACTGTATAACGGG
Found at i:25317894 original size:25 final size:25
Alignment explanation
Indices: 25317817--25317900 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
25317807 AGTCATATTT
* **
25317817 GGAAGCTCCGGAGAGCCATTAATTA
1 GGAAGCTCCGAAGAGCCATTAATCG
* * *
25317842 GGAAGTTCACAAAGAGCCTTTAATCG
1 GGAAGCTC-CGAAGAGCCATTAATCG
25317868 GGAAGCTCCGAAGAGCCATATAA-CG
1 GGAAGCTCCGAAGAGCCAT-TAATCG
*
25317893 GGATGCTC
1 GGAAGCTC
25317901 ATAAGAGCTA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 25 0.53
26 22 0.47
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCG
Found at i:25318229 original size:20 final size:20
Alignment explanation
Indices: 25318204--25318242 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
25318194 GCATTTATAC
25318204 AATTC-ACATATACAATATTA
1 AATTCAACATATA-AATATTA
25318224 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
25318243 ACACAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCAACATATAAATATTA
Found at i:25322353 original size:25 final size:25
Alignment explanation
Indices: 25322325--25322391 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
25322315 TCATGTACAT
*
25322325 GTATGCTCATACGAGCTG-TGAATCG
1 GTATGCTCATACGAGCTGAAG-ATCG
**
25322350 GTATGCTCATTTGAGCTGAAGATCG
1 GTATGCTCATACGAGCTGAAGATCG
25322375 GTATGCTC-TCACGAGCT
1 GTATGCTCAT-ACGAGCT
25322392 ATATATCGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGAAGATCG
Found at i:25322889 original size:14 final size:15
Alignment explanation
Indices: 25322853--25322889 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
25322843 AATTGCTAAT
25322853 TTTATCAAAAATTCC
1 TTTATCAAAAATTCC
*
25322868 TTTA-CAAAAATT-G
1 TTTATCAAAAATTCC
25322881 TTTATCAAA
1 TTTATCAAA
25322890 CAACAACCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 12 0.60
15 4 0.20
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTATCAAAAATTCC
Found at i:25323856 original size:69 final size:69
Alignment explanation
Indices: 25323705--25324009 Score: 203
Period size: 69 Copynumber: 4.4 Consensus size: 69
25323695 AGCTTTCTTC
* * * * * * * *
25323705 TCGCTAACTGTTTTAGAGGCTGC-GACTCTTTGCCTACGAACATTGTTTTCACAATTGGGAGCTT
1 TCGCTAACAGTTTTAGAGGCTGCAG-CTCTATACCTGCAAACATTGTTTTTACAATTGAGAGATT
*
25323769 TGCTT
65 TGCTA
** * * * *
25323774 TTACTAATC-GTTTTAGAGGCTGCAGCTCTATACCTGCGAACCTTATTTTTACAACTGAGAGATT
1 TCGCTAA-CAGTTTTAGAGGCTGCAGCTCTATACCTGCAAACATTGTTTTTACAATTGAGAGATT
25323838 TGCTA
65 TGCTA
* * * * *
25323843 TCGCTAACAGTTTTAAAGGCTACGGCTCT-T-CGCTTGCAAACATTGTTTTTACAGTTGAGAGTT
1 TCGCTAACAGTTTTAGAGGCTGCAGCTCTATAC-C-TGCAAACATTGTTTTTACAATTGAGAGAT
*
25323906 TTGCTC
64 TTGCTA
* * * * *
25323912 TCGCTAACTA-TTTTAGAGGCTGTAGCTC-ATCACATGCAAACCTTGTTTTTTACAGTTGA-AAA
1 TCGCTAAC-AGTTTTAGAGGCTGCAGCTCTAT-ACCTGCAAACATTG-TTTTTACAATTGAGAGA
*
25323974 CTTTGCTC
63 -TTTGCTA
* * *
25323982 TCG-TTACACTGTTTAGAAGCTGCAGCTC
1 TCGCTAACAGT-TTTAGAGGCTGCAGCTC
25324010 CTCGTCTGCG
Statistics
Matches: 188, Mismatches: 35, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
67 1 0.01
68 4 0.02
69 141 0.75
70 41 0.22
71 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (69 bp):
TCGCTAACAGTTTTAGAGGCTGCAGCTCTATACCTGCAAACATTGTTTTTACAATTGAGAGATTT
GCTA
Found at i:25323997 original size:70 final size:69
Alignment explanation
Indices: 25323877--25324033 Score: 174
Period size: 70 Copynumber: 2.3 Consensus size: 69
25323867 GCTCTTCGCT
* ** * * *
25323877 TGCAAACATTGTTTTTACAGTTGAGAGTTTTGCTCTCGCTAACTATTTTAGAGGCTGTAGCTCAT
1 TGCAAACATTGTTTTTACAGTTGAAAACTTTGCTCTCGCTAACTAGTTTAGAAGCTGCAGCTCAT
25323942 CACA
66 CACA
* *
25323946 TGCAAACCTTGTTTTTTACAGTTGAAAACTTTGCTCTCGTTACACT-GTTTAGAAGCTGCAGCTC
1 TGCAAACATTG-TTTTTACAGTTGAAAACTTTGCTCTCGCTA-ACTAGTTTAGAAGCTGCAGCTC
* *
25324010 CTCGTC-
64 ATC-ACA
*
25324016 TGCGAACATTGTTTTTAC
1 TGCAAACATTGTTTTTAC
25324034 CGACGATAGT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
69 17 0.23
70 52 0.71
71 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (69 bp):
TGCAAACATTGTTTTTACAGTTGAAAACTTTGCTCTCGCTAACTAGTTTAGAAGCTGCAGCTCAT
CACA
Found at i:25337975 original size:31 final size:31
Alignment explanation
Indices: 25337940--25338007 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
25337930 TACAAAATGA
*
25337940 TCACTGAATTA-TCTGAAAGTTTTCATTTAAG
1 TCACTAAATTATTC-GAAAGTTTTCATTTAAG
** *
25337971 TCACTAAATTATTCGAATTTTTTTATTTAAG
1 TCACTAAATTATTCGAAAGTTTTCATTTAAG
25338002 TCACTA
1 TCACTA
25338008 GACTGTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (31 bp):
TCACTAAATTATTCGAAAGTTTTCATTTAAG
Found at i:25338381 original size:29 final size:30
Alignment explanation
Indices: 25338322--25338382 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
25338312 TTTAAATAAA
* * **
25338322 AATTTTTAAATAATTCAATAATTAATTTAT
1 AATTTTTAAATAATTAAATAATCAAAATAT
*
25338352 AATTTTTTAA-AATTAAATAATCAAAATAT
1 AATTTTTAAATAATTAAATAATCAAAATAT
25338381 AA
1 AA
25338383 AATTACTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
AATTTTTAAATAATTAAATAATCAAAATAT
Found at i:25345528 original size:88 final size:87
Alignment explanation
Indices: 25345406--25345706 Score: 433
Period size: 88 Copynumber: 3.4 Consensus size: 87
25345396 TTAATGGTGT
* * * *
25345406 AAAAA-ACCCTCAAACTTTTTTCAGAAAAAGCAATTAAGCCCCTCCTTTTTTTCCACTCAATTGA
1 AAAAAGACCCTCAAAC-TTCTTC-GAAAAAGCAATTAAGCCCCTACTTTTTTTTCACTCAATTGG
*
25345470 GCACTTGAACTTTCAAAATGCATC
64 GTACTTGAACTTTCAAAATGCATC
25345494 AAAAAGACCCTCAAACTTCTTCGAAAAGAGCAATTAAGCCCCTACTTTTTTTTCACTCAATTGGG
1 AAAAAGACCCTCAAACTTCTTCGAAAA-AGCAATTAAGCCCCTACTTTTTTTTCACTCAATTGGG
* *
25345559 TACTTGAAATTTTAAAATGCATC
65 TACTTGAACTTTCAAAATGCATC
* * * *
25345582 AAAAAGACCCTCAAGCTTCTTTGACAAAAGCAATAAAGCCCCTACTTTTTTTTCACTTAATTGGG
1 AAAAAGACCCTCAAACTTCTTCGA-AAAAGCAATTAAGCCCCTACTTTTTTTTCACTCAATTGGG
25345647 TACTTGAACTTTCAAAATGCATC
65 TACTTGAACTTTCAAAATGCATC
* * *
25345670 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAG
1 AAAAAGACCCTCAAACTTCTTCGAAAAAGCAATTAAG
25345707 TCTCTGCTCT
Statistics
Matches: 191, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
87 17 0.09
88 161 0.84
89 13 0.07
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (87 bp):
AAAAAGACCCTCAAACTTCTTCGAAAAAGCAATTAAGCCCCTACTTTTTTTTCACTCAATTGGGT
ACTTGAACTTTCAAAATGCATC
Found at i:25345771 original size:19 final size:18
Alignment explanation
Indices: 25345739--25345786 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
25345729 GAAAAAAAAC
* *
25345739 AAATTTTAGAAAAATTATT
1 AAATTTTA-AAAAAATATA
25345758 AAATTTTAATAAAAATATA
1 AAATTTTAA-AAAAATATA
*
25345777 AAAATTTAAA
1 AAATTTTAAA
25345787 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AAATTTTAAAAAAATATA
Found at i:25345796 original size:18 final size:18
Alignment explanation
Indices: 25345775--25345817 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
25345765 AATAAAAATA
25345775 TAAAAATTTA-AATTTTAT
1 TAAAAA-TTAGAATTTTAT
25345793 TAAAAATTAGAATTTTAT
1 TAAAAATTAGAATTTTAT
25345811 TATAAAA
1 TA-AAAA
25345818 ATCGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.13
18 16 0.70
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TAAAAATTAGAATTTTAT
Found at i:25345809 original size:25 final size:26
Alignment explanation
Indices: 25345749--25345809 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
25345739 AAATTTTAGA
25345749 AAAATTATTAAATTTTAATAAAAATAT
1 AAAATT-TTAAATTTTAATAAAAATAT
* *
25345776 AAAAATTTAAATTTTATTAAAAAT-T
1 AAAATTTTAAATTTTAATAAAAATAT
*
25345801 AGAATTTTA
1 AAAATTTTA
25345810 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.27
26 17 0.57
27 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AAAATTTTAAATTTTAATAAAAATAT
Found at i:25346077 original size:29 final size:29
Alignment explanation
Indices: 25346044--25346113 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
25346034 TTACATTTTG
25346044 TATAATTTTCTTACGA-CTTTATAAAATTT
1 TATAATTTT-TTACGATCTTTATAAAATTT
*
25346073 TATAATTTTTTACGATTTTTATAAAATTT
1 TATAATTTTTTACGATCTTTATAAAATTT
* *
25346102 TACATTTTTTTA
1 TATAATTTTTTA
25346114 ATATTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 6 0.16
29 31 0.84
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (29 bp):
TATAATTTTTTACGATCTTTATAAAATTT
Found at i:25346094 original size:19 final size:18
Alignment explanation
Indices: 25346070--25346151 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 18
25346060 CTTTATAAAA
25346070 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTAC-AT
**
25346089 TTTTATAAAATTTTACAT
1 TTTTATAATTTTTTACAT
* *
25346107 TTTTTTAATATTTTTATATT
1 TTTTATAAT-TTTTTACA-T
*
25346127 TTTTCTAATTTTTAATACAT
1 TTTTATAATTTTT--TACAT
25346147 TTTTA
1 TTTTA
25346152 ATATTTAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
18 9 0.18
19 24 0.48
20 14 0.28
21 3 0.06
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTTACAT
Found at i:25346119 original size:29 final size:29
Alignment explanation
Indices: 25346061--25346124 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
25346051 TTCTTACGAC
* *
25346061 TTTATAAAATTTTATAATTTTTTACGATT
1 TTTATAAAATTTTACAATTTTTTAAGATT
* *
25346090 TTTATAAAATTTTACATTTTTTTAATATT
1 TTTATAAAATTTTACAATTTTTTAAGATT
25346119 TTTATA
1 TTTATA
25346125 TTTTTTCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTATAAAATTTTACAATTTTTTAAGATT
Found at i:25346128 original size:18 final size:19
Alignment explanation
Indices: 25346107--25346157 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
25346097 AATTTTACAT
* *
25346107 TTTTTTAATATTTTTATAT
1 TTTTTTAATATTTTAATAC
25346126 TTTTTCTAAT-TTTTAATAC
1 TTTTT-TAATATTTTAATAC
*
25346145 ATTTTTAATATTT
1 TTTTTTAATATTT
25346158 AAATTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTAATATTTTAATAC
Found at i:25346177 original size:36 final size:38
Alignment explanation
Indices: 25346069--25346179 Score: 90
Period size: 36 Copynumber: 3.0 Consensus size: 38
25346059 ACTTTATAAA
* * *
25346069 ATTTTATAATTTTTTACGATTTTTA-TAAAATTT--TAC
1 ATTTTTTAATATTTTA-AATTTTTATTAAAATTTAATAC
* **
25346105 ATTTTTTTAATATTTTTATATTTTT-TCTAATTTTTAATAC
1 A-TTTTTTAATA-TTTTAAATTTTTAT-TAAAATTTAATAC
25346145 A-TTTTTAATA-TTTAAATTTTTATTAAAATTTAATA
1 ATTTTTTAATATTTTAAATTTTTATTAAAATTTAATA
25346180 ATATTTATAG
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
36 21 0.35
37 15 0.25
38 20 0.33
40 4 0.07
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (38 bp):
ATTTTTTAATATTTTAAATTTTTATTAAAATTTAATAC
Found at i:25347398 original size:15 final size:15
Alignment explanation
Indices: 25347378--25347407 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25347368 TATGTATGAG
25347378 ATAATTAAACTTCGT
1 ATAATTAAACTTCGT
25347393 ATAATTAAACTTCGT
1 ATAATTAAACTTCGT
25347408 GTAGATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
ATAATTAAACTTCGT
Found at i:25347575 original size:39 final size:40
Alignment explanation
Indices: 25347514--25347603 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
25347504 TACTTTTGTA
* * *
25347514 CTCCTTATAGCACATTCATGCTCAT-TTAGCATTACAGTG
1 CTCCTGATAGCACATTCATGCTCATGTTAACACTACAGTG
* *
25347553 CTCCTGATAGCACATAT-GTGCTCTTGTTAACACTACAGTG
1 CTCCTGATAGCACAT-TCATGCTCATGTTAACACTACAGTG
*
25347593 CTCCTGTTAGC
1 CTCCTGATAGC
25347604 TACACATTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
39 20 0.47
40 23 0.53
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (40 bp):
CTCCTGATAGCACATTCATGCTCATGTTAACACTACAGTG
Found at i:25348764 original size:12 final size:12
Alignment explanation
Indices: 25348749--25348778 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25348739 CCATAAAAAT
25348749 AACAATAATAAC
1 AACAATAATAAC
*
25348761 AACAATAATAAT
1 AACAATAATAAC
25348773 AACAAT
1 AACAAT
25348779 GAAAGTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (12 bp):
AACAATAATAAC
Found at i:25350548 original size:44 final size:44
Alignment explanation
Indices: 25350343--25351061 Score: 351
Period size: 44 Copynumber: 16.1 Consensus size: 44
25350333 GAATTGGTGT
* * * * * *
25350343 TTCGATTTGCTCCAATGTAATTTCAGGGAGAAAAGACTTGTAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAGC
* * * **
25350387 TTCGATCTACT-CAGCTGTAACTTCAAGGAGATAAGAATTGGTAAT
1 TTCGATCTGCTCCA-CTGCAACTTCAGGGAGATAAGAATT-GTAGC
* * * * * ** *
25350432 TTCAACCTGCTCTACTACAACTTCAAGGAGATAAGGTTTGGGTA-T
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATT--GTAGC
** * * *
25350477 TTTTATCCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGC
1 TTCGAT-CTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAGC
* * * * *
25350522 ATCGATCTGCTCCAATGTAATTTCAGGGAGA-AGAGATTTGTAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATA-AGAATTGTAGC
* * * * ** *
25350566 TTCGATCTACTCCGCTGGAACATCAATGAGATAAGAATTGGTAAC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATT-GTAGC
* * * ** *
25350611 TTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGT-GTAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAG--C
** *
25350656 TTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
1 TTCGAT-CTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAGC
* * * * * *
25350701 TTCGATTTGCTCCAATGTAATTTCAGGAAGA-AGAGATTTGTAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATA-AGAATTGTAGC
* ** * * *
25350745 TTCGATCTACTCTGCTGGAACTTCACGGAGATAAGAATTGGTAAC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATT-GTAGC
* * * ** *
25350790 TTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT-GTAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAG--C
** * * * * *
25350835 TTTTATCTTGCTCTATTGCAACTTCAGTGAGATAAGGATTGTGGC
1 TTCGATC-TGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAGC
* * * *
25350880 TTCGATCTGCTTCAATGTAATTTCA---ATGATAAGAGATTTGTAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-A-TTGTAGC
* * * * *
25350924 TTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAAC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATT-GTAGC
* * * * * ** *
25350969 TTCAACCTACTTCACTACAACTTCAGGGAGATAAGGTTTGT-GTAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAG--C
** * *
25351014 TTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
1 TTCGAT-CTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAGC
25351059 TTC
1 TTC
25351062 ACCGATATGT
Statistics
Matches: 502, Mismatches: 142, Indels: 61
0.71 0.20 0.09
Matches are distributed among these distances:
41 1 0.00
42 6 0.01
43 5 0.01
44 189 0.38
45 163 0.32
46 134 0.27
47 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (44 bp):
TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAGC
Found at i:25350650 original size:179 final size:179
Alignment explanation
Indices: 25350343--25351061 Score: 1134
Period size: 179 Copynumber: 4.0 Consensus size: 179
25350333 GAATTGGTGT
* * * * *
25350343 TTCGATTTGCTCCAATGTAATTTCAGGGAGAAAAGACTTGTAGCTTCGATCTACTCAGCTGTAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* *
25350408 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCTACTACAACTTCA-AGGAGATAAGGTTTG
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGA-GAGATAAGGTTTG
* * *
25350472 GGTATTTTTATCCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGC
130 TGTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
*
25350522 ATCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * *
25350587 ATCAATGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGT
25350652 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
* * *
25350701 TTCGATTTGCTCCAATGTAATTTCAGGAAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* *
25350766 TTCACGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGT
* * * * *
25350831 GTATTTTTATCTTGCTCTATTGCAACTTCAGTGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
* ** *
25350880 TTCGATCTGCTTCAATGTAATTTCAATGATAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * *
25350945 TTCAAGGAGATAAGAATTGGTAACTTCAACCTACTTCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGT
*
25351010 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
25351059 TTC
1 TTC
25351062 ACCGATATGT
Statistics
Matches: 497, Mismatches: 42, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
179 496 1.00
180 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (179 bp):
TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGT
GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
Found at i:25350669 original size:46 final size:46
Alignment explanation
Indices: 25350405--25351056 Score: 312
Period size: 46 Copynumber: 14.5 Consensus size: 46
25350395 ACTCAGCTGT
* * * * * * *
25350405 AACTTCAAGGAGATAAGAATTG-GTAATTTCAACCTGCTCTACTAC
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
* * * * * * *
25350450 AACTTCAAGGAGATAAGGTTTGGGTATTTTTATCCTGCTCTACTAC
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
* * * * * *
25350496 AACTTCAGGGAGATAAGAATTGTG-GCATCGAT-CTGCTCCAATGT
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
* * * * *
25350540 AATTTCAGGGAG--AAGAGATT-TGTAGCTTCGAT-CTACTCCGCTGG
1 AACTTCAGGGAGATAAG-GATTGTGTA-CTTTGATCCTGCTCCACTGC
* ** * * *
25350584 AACATCAATGAGATAAGAATTG-GTAAC-TTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGT-ACTTTGATCCTGCTCCACTGC
* * * *
25350629 AACTTCAGAGAGATAAGGTTTGTGTATTTTTATCCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
* * * * * *
25350675 AACTTCAGGGAGATAAGAATTGTG-GCTTCGAT-TTGCTCCAATGT
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
* * * * ** *
25350719 AATTTCA-GGA-AGAAGAGATT-TGTAGCTTCGAT-CTACTCTGCTGG
1 AACTTCAGGGAGATAAG-GATTGTGTA-CTTTGATCCTGCTCCACTGC
* * * * *
25350763 AACTTCACGGAGATAAGAATTG-GTAAC-TTCAACCTGCTCCACTAC
1 AACTTCAGGGAGATAAGGATTGTGT-ACTTTGATCCTGCTCCACTGC
* * * * * *
25350808 AACTTCAGGGAGATAAGGTTTGTGTATTTTTATCTTGCTCTATTGC
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
* * * * * *
25350854 AACTTCAGTGAGATAAGGATTGTG-GCTTCGAT-CTGCTTCAATGT
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
* * * * *
25350898 AATTTCA---ATGATAAGAGATT-TGTAGCTTCGAT-CTACTCCGCTGG
1 AACTTCAGGGA-GATAAG-GATTGTGTA-CTTTGATCCTGCTCCACTGC
* * * * * * *
25350942 AACTTCAAGGAGATAAGAATTG-GTAAC-TTCAACCTACTTCACTAC
1 AACTTCAGGGAGATAAGGATTGTGT-ACTTTGATCCTGCTCCACTGC
* * *
25350987 AACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
25351033 AACTTCAGGGAGATAAGGATTGTG
1 AACTTCAGGGAGATAAGGATTGTG
25351057 GCTTCACCGA
Statistics
Matches: 451, Mismatches: 123, Indels: 65
0.71 0.19 0.10
Matches are distributed among these distances:
41 1 0.00
42 19 0.04
43 13 0.03
44 114 0.25
45 134 0.30
46 169 0.37
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (46 bp):
AACTTCAGGGAGATAAGGATTGTGTACTTTGATCCTGCTCCACTGC
Found at i:25354759 original size:9 final size:9
Alignment explanation
Indices: 25354745--25354791 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
25354735 TGGTTAAAAT
*
25354745 TTAACCAAA
1 TTAACCGAA
25354754 TTAACCGAA
1 TTAACCGAA
**
25354763 TTAACTTAA
1 TTAACCGAA
*
25354772 TTACCCGAA
1 TTAACCGAA
25354781 TTAACCGAA
1 TTAACCGAA
25354790 TT
1 TT
25354792 GAATTACTAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (9 bp):
TTAACCGAA
Found at i:25354884 original size:6 final size:6
Alignment explanation
Indices: 25354873--25354901 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
25354863 ACTTTTAGAC
25354873 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
25354902 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:25354925 original size:20 final size:20
Alignment explanation
Indices: 25354873--25354914 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
25354863 ACTTTTAGAC
25354873 TTTAGTTTTAG--TTTTAGT
1 TTTAGTTTTAGAATTTTAGT
*
25354891 TTTAGTTTTAGAATTTTATT
1 TTTAGTTTTAGAATTTTAGT
25354911 TTTA
1 TTTA
25354915 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
20 10 0.48
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTAGAATTTTAGT
Found at i:25362155 original size:24 final size:24
Alignment explanation
Indices: 25362128--25362181 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
25362118 ATGAGATACT
*
25362128 GACCTTTTCGTTGATATCCTTTTC
1 GACCTTTTCATTGATATCCTTTTC
*
25362152 GACCTTTTCATTTATATCCTTTTC
1 GACCTTTTCATTGATATCCTTTTC
*
25362176 AACCTT
1 GACCTT
25362182 CTTTAATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.07, T:0.50
Consensus pattern (24 bp):
GACCTTTTCATTGATATCCTTTTC
Found at i:25367032 original size:21 final size:23
Alignment explanation
Indices: 25367008--25367050 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
25366998 ACAATTTTTT
*
25367008 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
25367029 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
25367051 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:25369180 original size:16 final size:16
Alignment explanation
Indices: 25369159--25369194 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25369149 TTTTTATATT
25369159 TTTTTGAATTTTTAAA
1 TTTTTGAATTTTTAAA
25369175 TTTTTGAATTTTTAAA
1 TTTTTGAATTTTTAAA
25369191 TTTT
1 TTTT
25369195 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTGAATTTTTAAA
Found at i:25369199 original size:9 final size:8
Alignment explanation
Indices: 25369159--25369199 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
25369149 TTTTTATATT
*
25369159 TTTTTGAA
1 TTTTTAAA
25369167 TTTTTAAA
1 TTTTTAAA
*
25369175 TTTTTGAA
1 TTTTTAAA
25369183 TTTTTAAA
1 TTTTTAAA
25369191 TTTTATAAA
1 TTTT-TAAA
25369200 ATTAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 25 0.86
9 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (8 bp):
TTTTTAAA
Found at i:25370830 original size:14 final size:12
Alignment explanation
Indices: 25370798--25370845 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
25370788 TTTATATATA
25370798 TAATTTTTTATT
1 TAATTTTTTATT
*
25370810 GAATTTTTATGATT
1 TAATTTTT-T-ATT
25370824 TAATTTTTT-TT
1 TAATTTTTTATT
25370835 TATATTTTTTA
1 TA-ATTTTTTA
25370846 GAATTCTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 4 0.13
12 14 0.47
13 2 0.07
14 10 0.33
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (12 bp):
TAATTTTTTATT
Found at i:25370841 original size:26 final size:24
Alignment explanation
Indices: 25370780--25370843 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
25370770 AATTTATTAG
* *
25370780 TTTTTAAATTTATATATATAATTT
1 TTTTTTAATTTTTATATATAATTT
* *
25370804 TTTATTGAATTTTTATGATTTAATTT
1 TTT-TTTAATTTTTAT-ATATAATTT
25370830 TTTTTTATATTTTT
1 TTTTTTA-ATTTTT
25370844 TAGAATTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 13 0.39
26 17 0.52
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTTTTAATTTTTATATATAATTT
Found at i:25384731 original size:13 final size:13
Alignment explanation
Indices: 25384713--25384744 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
25384703 TTTCCAGCAA
25384713 TTATGAATTTATT
1 TTATGAATTTATT
25384726 TTATGAATTTATT
1 TTATGAATTTATT
*
25384739 TGATGA
1 TTATGA
25384745 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:25384952 original size:50 final size:50
Alignment explanation
Indices: 25384839--25385080 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
25384829 ATTTGGGTAA
* * *
25384839 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
25384895 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
25384945 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
25384995 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
25385045 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
25385081 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:25385028 original size:100 final size:103
Alignment explanation
Indices: 25384839--25385088 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
25384829 ATTTGGGTAA
25384839 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
25384904 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
25384945 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
25385007 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
25385045 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
25385089 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:25387808 original size:50 final size:50
Alignment explanation
Indices: 25387684--25387932 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
25387674 GATAATAACA
* * ** * *
25387684 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
25387735 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
25387785 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
25387835 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
25387890 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
25387933 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:25387862 original size:100 final size:104
Alignment explanation
Indices: 25387683--25387932 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
25387673 TGATAATAAC
**
25387683 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
25387748 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
25387785 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
25387848 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
25387890 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25387933 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:25388048 original size:13 final size:13
Alignment explanation
Indices: 25388027--25388058 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
25388017 GCTTGGATCA
*
25388027 TCATCAAATAAAT
1 TCATAAAATAAAT
25388040 TCATAAAATAAAT
1 TCATAAAATAAAT
25388053 TCATAA
1 TCATAA
25388059 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:25393795 original size:22 final size:21
Alignment explanation
Indices: 25393767--25393820 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
25393757 GTTCGTGTAA
25393767 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
25393789 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
25393808 TGTGAATTGTATA
1 T-TAAATTGTATA
25393821 ATTGCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:25410231 original size:19 final size:19
Alignment explanation
Indices: 25410207--25410274 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
25410197 TGTAAACTTT
25410207 ATTTATATATATTTTTATA
1 ATTTATATATATTTTTATA
* * *
25410226 ATTTATATGTTTTTTTCTA
1 ATTTATATATATTTTTATA
*
25410245 GA-TTATATATATTTTTGATT
1 -ATTTATATATATTTTT-ATA
*
25410265 TTTTATATAT
1 ATTTATATAT
25410275 TTATTTTGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
19 28 0.74
20 10 0.26
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTATATATATTTTTATA
Found at i:25410270 original size:20 final size:21
Alignment explanation
Indices: 25410247--25410287 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25410237 TTTTTCTAGA
25410247 TTATATATAT-TTTTGATTTT
1 TTATATATATATTTTGATTTT
*
25410267 TTATATATTTATTTTGATTTT
1 TTATATATATATTTTGATTTT
25410288 AAATGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTATATATATATTTTGATTTT
Found at i:25410880 original size:27 final size:25
Alignment explanation
Indices: 25410811--25410881 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 25
25410801 TAGTTTCTAA
25410811 TATATTTAT-AT-TAAATATTAAAC
1 TATATTTATGATATAAATATTAAAC
* *
25410834 T-TATTTTATGTTATATAATAGTTAAAG
1 TATA-TTTATGATATA-AATA-TTAAAC
25410861 TATATTTATGATAATAAATAT
1 TATATTTATGAT-ATAAATAT
25410882 ATATTTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
22 2 0.05
23 6 0.16
24 1 0.03
25 2 0.05
26 5 0.13
27 17 0.45
28 5 0.13
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (25 bp):
TATATTTATGATATAAATATTAAAC
Found at i:25418939 original size:16 final size:14
Alignment explanation
Indices: 25418897--25418935 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
25418887 TGTTTGACTT
25418897 AAAATAA-TTTTAA
1 AAAATAATTTTTAA
25418910 AAAATAATTTTTAA
1 AAAATAATTTTTAA
25418924 AAAATAATTTTT
1 AAAATAATTTTT
25418936 TTAAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:25418949 original size:18 final size:16
Alignment explanation
Indices: 25418904--25418945 Score: 61
Period size: 14 Copynumber: 2.7 Consensus size: 16
25418894 CTTAAAATAA
25418904 TTTTAAAAAATAA--T
1 TTTTAAAAAATAATTT
25418918 TTTTAAAAAATAATTT
1 TTTTAAAAAATAATTT
25418934 TTTTAAGAAAAT
1 TTTTAA-AAAAT
25418946 TAATACATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 13 0.52
16 7 0.28
17 5 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTTAAAAAATAATTT
Found at i:25419246 original size:28 final size:28
Alignment explanation
Indices: 25419207--25419263 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 28
25419197 AAATATTTTG
25419207 TAATAATCAATG-TT-ATATATAAACTTAA
1 TAATAATCAATGCTTAAT-TA-AAACTTAA
25419235 TAATAGAT-AATGCTTAATTAAAACTTAA
1 TAATA-ATCAATGCTTAATTAAAACTTAA
25419263 T
1 T
25419264 TAAATTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
28 18 0.69
29 6 0.23
30 2 0.08
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (28 bp):
TAATAATCAATGCTTAATTAAAACTTAA
Found at i:25423485 original size:3 final size:3
Alignment explanation
Indices: 25423477--25423505 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
25423467 GGATAAACTA
25423477 ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25423506 CCATCTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:25428908 original size:30 final size:30
Alignment explanation
Indices: 25428872--25428928 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
25428862 AATTATAAAC
*
25428872 AAATTA-TACAAAATATA-TAAATTTATTTCA
1 AAATTATTA-AAAA-ATATTAAAGTTATTTCA
25428902 AAATTATTAAAAAATATTAAAGTTATT
1 AAATTATTAAAAAATATTAAAGTTATT
25428929 AAAAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 19 0.79
31 2 0.08
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (30 bp):
AAATTATTAAAAAATATTAAAGTTATTTCA
Found at i:25431654 original size:22 final size:21
Alignment explanation
Indices: 25431626--25431679 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
25431616 GTTCGTGTAA
*
25431626 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATATTAAT-TGTT
25431648 TTAAATTG-A-ATTAATTGTT
1 TTAAATTGTATATTAATTGTT
*
25431667 TGTTAATTGTATA
1 T-TAAATTGTATA
25431680 ATTTCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 2 0.07
22 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTAATTGTT
Found at i:25433820 original size:16 final size:16
Alignment explanation
Indices: 25433799--25433834 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25433789 TTTGGTTCGC
25433799 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25433815 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25433831 TGTA
1 TGTA
25433835 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25434094 original size:18 final size:17
Alignment explanation
Indices: 25434073--25434107 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25434063 TTATTATTAA
*
25434073 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25434091 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25434108 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25434253 original size:157 final size:159
Alignment explanation
Indices: 25433964--25434276 Score: 531
Period size: 157 Copynumber: 2.0 Consensus size: 159
25433954 CCCTTAGCAT
*
25433964 AAATTTGTTTCGGTAAATGATTATTGTTATTTTTATTTAAATTTTAATAAGATTATTATTATTAT
1 AAATTTGTTTCGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA-TATTAT
* * *
25434029 CAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
65 CAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAATATA
25434094 TAATTTAATAAAATTCTTAATAATTACCAG
130 TAATTTAATAAAATTCTTAATAATTACCAG
* *
25434124 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA-A-TATC
1 AAATTTGTTTCGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATATTATC
* *
25434187 AATAATAAATAATTTAATTATATTTAAGCATAATAATTATTAAATATATTATAATTAAAATATAT
66 AATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAATATAT
25434252 AATTTAATAAAATTCTTAATAATTA
131 AATTTAATAAAATTCTTAATAATTA
25434277 ATATTCTTAT
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
157 89 0.61
158 1 0.01
160 55 0.38
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (159 bp):
AAATTTGTTTCGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATATTATC
AATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAATATAT
AATTTAATAAAATTCTTAATAATTACCAG
Found at i:25434310 original size:61 final size:61
Alignment explanation
Indices: 25434245--25434432 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
25434235 TTATAATTAA
*
25434245 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
* * * * * * * *
25434306 AATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATAAATTTACTCA-AATCA
*
25434364 A
61 T
*
25434365 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
25434426 AATATAT
1 AATATAT
25434433 GATACTATAA
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 27 0.28
60 16 0.17
61 34 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
Found at i:25434351 original size:120 final size:120
Alignment explanation
Indices: 25434208--25434505 Score: 485
Period size: 120 Copynumber: 2.5 Consensus size: 120
25434198 ATTTAATTAT
*
25434208 ATTTAAGCATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAA-CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
25434273 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
25434330 A-TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
25434394 TTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
25434449 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25434506 TAAAATAATT
Statistics
Matches: 167, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
119 7 0.04
120 153 0.92
121 6 0.04
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:25434378 original size:14 final size:15
Alignment explanation
Indices: 25434329--25434380 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25434319 GTAAAATATA
25434329 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25434344 TATTAAATATATTAT
1 AATTAAATATATTAT
25434359 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25434372 AATTTAATA
1 AATTAAATA
25434381 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25434598 original size:92 final size:92
Alignment explanation
Indices: 25434502--25434729 Score: 225
Period size: 92 Copynumber: 2.5 Consensus size: 92
25434492 GATTTAATAA
* * *
25434502 AATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAA
1 AATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA
*
25434564 TTATTACATATAATTTAATAATTAATATTG
64 -TATTAAATATAATTTAATAATTAATATTG
* * * * *
25434594 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
* *
25434659 TTAAATATAATTTAAT-AGTGATATAT-
66 TTAAATATAATTTAATAATTAATAT-TG
* ** *
25434685 AATTTCATAAAATTGTTAATAATAAAATGT-TCTTATATGAATTTA
1 AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
25434730 CTAAAATCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
91 27 0.23
92 81 0.69
93 9 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
TTAAATATAATTTAATAATTAATATTG
Found at i:25476267 original size:21 final size:21
Alignment explanation
Indices: 25476243--25476324 Score: 53
Period size: 21 Copynumber: 3.7 Consensus size: 21
25476233 AAAAAACGTA
25476243 AATTAAAATAGAAAGAAAGAT
1 AATTAAAATAGAAAGAAAGAT
25476264 AATTTAAATGAAATGAGAAA-AAA-ATT
1 AA-TT--A--AAAT-AGAAAGAAAGA-T
*
25476290 AAATTAAAATGGAAAGAAAGAT
1 -AATTAAAATAGAAAGAAAGAT
*
25476312 AATTTAAAT-GAAA
1 AATTAAAATAGAAA
25476325 TGAGAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 21
0.68 0.03 0.29
Matches are distributed among these distances:
20 4 0.08
21 14 0.29
22 10 0.20
23 1 0.02
24 2 0.04
25 1 0.02
26 10 0.20
27 7 0.14
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (21 bp):
AATTAAAATAGAAAGAAAGAT
Found at i:25476271 original size:27 final size:26
Alignment explanation
Indices: 25476241--25476320 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
25476231 TGAAAAAACG
25476241 TAAATTAAAATAGAAAGAAAGATAATT
1 TAAATTAAAAT-GAAAGAAAGATAATT
* *
25476268 TAAA-TGAAATG--AGAAA-A-AAAT
1 TAAATTAAAATGAAAGAAAGATAATT
25476289 TAAATTAAAATGGAAAGAAAGATAATT
1 TAAATTAAAAT-GAAAGAAAGATAATT
25476316 TAAAT
1 TAAAT
25476321 GAAATGAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
21 7 0.16
22 6 0.14
23 6 0.14
25 6 0.14
26 6 0.14
27 12 0.28
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (26 bp):
TAAATTAAAATGAAAGAAAGATAATT
Found at i:25476293 original size:48 final size:47
Alignment explanation
Indices: 25476232--25476469 Score: 274
Period size: 48 Copynumber: 5.1 Consensus size: 47
25476222 AAATTAATAT
**
25476232 GAAAAAACGTAAATTAAAATAGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAATTAAATTAAAAT-GAAAGAAAGATAATTTAAATGAAATGA
25476280 GAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAATTAAATTAAAAT-GAAAGAAAGATAATTTAAATGAAATGA
* * * *
25476328 GAAAAAAATTCAATGT-AAATGGAA-AAA-ATAATTTAAATAAAATAA
1 GAAAAAAATTAAAT-TAAAATGAAAGAAAGATAATTTAAATGAAATGA
* *
25476373 GAAAAAAATTAAATTAAAATGGGAAGATAGATAATTTAAATGAAAT--
1 GAAAAAAATTAAATTAAAAT-GAAAGAAAGATAATTTAAATGAAATGA
* * *
25476419 -AAAAAAATAAAATTTAAATGAAAAAAAGAGATAATTTAAATGAAATG-
1 GAAAAAAATTAAATTAAAATG-AAAGAA-AGATAATTTAAATGAAATGA
25476466 GAAA
1 GAAA
25476470 TGAAAATTGA
Statistics
Matches: 166, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
44 2 0.01
45 53 0.32
46 25 0.15
47 5 0.03
48 80 0.48
49 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (47 bp):
GAAAAAAATTAAATTAAAATGAAAGAAAGATAATTTAAATGAAATGA
Found at i:25476331 original size:27 final size:27
Alignment explanation
Indices: 25476248--25476331 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 27
25476238 ACGTAAATTA
25476248 AAAT-AGAAAGAAAGATAATTTAAATG
1 AAATGAGAAAGAAAGATAATTTAAATG
*
25476274 AAATGAG--A-AAA-A-AA-TTAAATTA
1 AAATGAGAAAGAAAGATAATTTAAA-TG
25476296 AAATG-GAAAGAAAGATAATTTAAATG
1 AAATGAGAAAGAAAGATAATTTAAATG
25476322 AAATGAGAAA
1 AAATGAGAAA
25476332 AAAATTCAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
21 6 0.13
22 8 0.17
23 2 0.04
24 6 0.13
25 2 0.04
26 12 0.26
27 11 0.23
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATGAGAAAGAAAGATAATTTAAATG
Found at i:25476337 original size:22 final size:23
Alignment explanation
Indices: 25476264--25476519 Score: 144
Period size: 22 Copynumber: 11.1 Consensus size: 23
25476254 AAAGAAAGAT
25476264 AATTTAAATGAAATGAGAAA-AA
1 AATTTAAATGAAATGAGAAATAA
* * *
25476286 AA-TTAAATTAAAATGGAAAGAAAGAT
1 AATTTAAA-TGAAAT-G--AGAAATAA
25476312 AATTTAAATGAAATGAGAAA-AA
1 AATTTAAATGAAATGAGAAATAA
* *
25476334 AA-TTCAATGTAAATG-GAAAAAA
1 AATTTAAATG-AAATGAGAAATAA
* *
25476356 TAATTTAAATAAAATAAGAAA-AA
1 -AATTTAAATGAAATGAGAAATAA
* *
25476379 AA-TTAAATTAAAATGGGAAGATAGA
1 AATTTAAA-TGAAATGAGAA-ATA-A
* *
25476404 TAATTTAAATGAAATAAAAAAATAA
1 -AATTTAAATGAAAT-GAGAAATAA
*
25476429 AATTTAAATGAAA--A-AAAGAGA
1 AATTTAAATGAAATGAGAAATA-A
25476450 TAATTTAAATGAAATG-GAAATGAA
1 -AATTTAAATGAAATGAGAAAT-AA
*
25476474 AATTGAAATGAAATG-GAAATACA
1 AATTTAAATGAAATGAGAAATA-A
* *
25476497 AA-TGAAATGAAATGA-AAAAAA
1 AATTTAAATGAAATGAGAAATAA
25476518 AA
1 AA
25476520 GGTGAAATGA
Statistics
Matches: 190, Mismatches: 18, Indels: 53
0.73 0.07 0.20
Matches are distributed among these distances:
20 4 0.02
21 25 0.13
22 58 0.31
23 37 0.19
24 27 0.14
25 9 0.05
26 18 0.09
27 12 0.06
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (23 bp):
AATTTAAATGAAATGAGAAATAA
Found at i:25476346 original size:27 final size:25
Alignment explanation
Indices: 25476267--25476348 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 25
25476257 GAAAGATAAT
25476267 TTAAATGAAATGAGAAAAAAATTAAA
1 TTAAATGAAATGAGAAAAAAATT-AA
25476293 TT--A--AAATG-GAAAGAAAGA-TAA
1 TTAAATGAAATGAGAAA-AAA-ATTAA
25476314 TTTAAATGAAATGAGAAAAAAATTCAA
1 -TTAAATGAAATGAGAAAAAAATT-AA
25476341 TGTAAATG
1 T-TAAATG
25476349 GAAAAAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 21
0.68 0.00 0.32
Matches are distributed among these distances:
21 6 0.13
22 11 0.24
23 1 0.02
24 2 0.04
25 1 0.02
26 12 0.27
27 12 0.27
ACGTcount: A:0.60, C:0.01, G:0.15, T:0.24
Consensus pattern (25 bp):
TTAAATGAAATGAGAAAAAAATTAA
Found at i:25476365 original size:93 final size:93
Alignment explanation
Indices: 25476260--25476492 Score: 287
Period size: 93 Copynumber: 2.5 Consensus size: 93
25476250 ATAGAAAGAA
25476260 AGATAATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA
1 AGATAATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA
** *
25476325 TGAGAAAAAAATTCAATGTAAATG-GAAAA-
66 T---AAAAAAATAAAATGTAAATGAAAAAAG
* * * *
25476354 A-ATAATTTAAATAAAATAAGAAAAAAATTAAATTAAAATGGGAAGATAGATAATTTAAATGAAA
1 AGATAATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA
*
25476418 TAAAAAAATAAAATTTAAATGAAAAAAAG
66 TAAAAAAATAAAATGTAAATG-AAAAAAG
*
25476447 AGATAATTTAAATGAAATG-GAAATGAAAATTGAAA-TGAAATGGAAA
1 AGATAATTTAAATGAAATGAGAAA--AAAATT-AAATTAAAATGGAAA
25476493 TACAAATGAA
Statistics
Matches: 120, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
90 17 0.14
92 4 0.03
93 65 0.54
94 16 0.13
95 15 0.12
96 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (93 bp):
AGATAATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA
TAAAAAAATAAAATGTAAATGAAAAAAG
Found at i:25476386 original size:21 final size:21
Alignment explanation
Indices: 25476267--25476392 Score: 74
Period size: 21 Copynumber: 5.5 Consensus size: 21
25476257 GAAAGATAAT
* *
25476267 TTAAATGAAATGAGAAAAAAA
1 TTAAATAAAATAAGAAAAAAA
*
25476288 TTAAATTAAAATGGAAAGAAAGATAAT
1 TTAAA-TAAAAT---AAGAAA-A-AAA
* *
25476315 TTAAATGAAATGAGAAAAAAA
1 TTAAATAAAATAAGAAAAAAA
* * *
25476336 TTCAATGTAAATGGAA-AAAATAAT
1 TTAAAT-AAAAT--AAGAAAA-AAA
25476360 TTAAATAAAATAAGAAAAAAA
1 TTAAATAAAATAAGAAAAAAA
25476381 TTAAATTAAAAT
1 TTAAA-TAAAAT
25476393 GGGAAGATAG
Statistics
Matches: 80, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
21 21 0.26
22 20 0.25
23 13 0.16
24 8 0.10
25 5 0.06
26 6 0.08
27 7 0.09
ACGTcount: A:0.63, C:0.01, G:0.11, T:0.25
Consensus pattern (21 bp):
TTAAATAAAATAAGAAAAAAA
Found at i:25476474 original size:5 final size:5
Alignment explanation
Indices: 25476456--25476513 Score: 62
Period size: 5 Copynumber: 10.6 Consensus size: 5
25476446 GAGATAATTT
*
25476456 AAATG AAATGG AAATG AAAATTG AAATG AAATGG AAATAC AAATG AAATG
1 AAATG AAAT-G AAATG -AAA-TG AAATG AAAT-G AAAT-G AAATG AAATG
25476506 AAATG AAA
1 AAATG AAA
25476514 AAAAAAGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 24 0.52
6 20 0.43
7 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.19, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:25476486 original size:17 final size:17
Alignment explanation
Indices: 25476459--25476508 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
25476449 ATAATTTAAA
25476459 TGAAATGGAAATGAAAAT
1 TGAAAT-GAAATGAAAAT
*
25476477 TGAAATGAAATGGAAAT
1 TGAAATGAAATGAAAAT
**
25476494 ACAAATGAAATGAAA
1 TGAAATGAAATGAAA
25476509 TGAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.20, T:0.20
Consensus pattern (17 bp):
TGAAATGAAATGAAAAT
Found at i:25476493 original size:23 final size:23
Alignment explanation
Indices: 25476451--25476510 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
25476441 AAAAAGAGAT
*
25476451 AATTTAAATGAAATGGAAATGA-A
1 AATTGAAATGAAATGGAAAT-ACA
25476474 AATTGAAATGAAATGGAAATACA
1 AATTGAAATGAAATGGAAATACA
25476497 AA-TGAAATGAAATG
1 AATTGAAATGAAATG
25476511 AAAAAAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.57, C:0.02, G:0.18, T:0.23
Consensus pattern (23 bp):
AATTGAAATGAAATGGAAATACA
Found at i:25476825 original size:22 final size:25
Alignment explanation
Indices: 25476782--25476830 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
25476772 GACTACTTCT
25476782 AATTGATATAAAAAAATATGAAATG
1 AATTGATATAAAAAAATATGAAATG
*
25476807 AATTGA-A-AAAAAAAT-TGAATTG
1 AATTGATATAAAAAAATATGAAATG
25476829 AA
1 AA
25476831 AAAAGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 1 0.04
25 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (25 bp):
AATTGATATAAAAAAATATGAAATG
Found at i:25476928 original size:5 final size:5
Alignment explanation
Indices: 25476920--25477036 Score: 67
Period size: 5 Copynumber: 21.4 Consensus size: 5
25476910 AAAAAAAAAT
* * *
25476920 AATGA AATGA AATGTTA AATGAA ATATGA ATATAA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
25476972 AATGA ATATGA AATGTTA AATGA ATATGA AATGA AATGA AATG- -ATGA
1 AATGA A-ATGA AATG--A AATGA A-ATGA AATGA AATGA AATGA AATGA
* *
25477019 TTATGA AATGG AATGA AA
1 -AATGA AATGA AATGA AA
25477037 GTTTAAATGA
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
3 3 0.03
5 46 0.51
6 26 0.29
7 15 0.17
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (5 bp):
AATGA
Found at i:25476928 original size:19 final size:20
Alignment explanation
Indices: 25476891--25476931 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
25476881 GTATATTAGG
**
25476891 AAAAAAAATAAATTTAATGA
1 AAAAAAAATAAATGAAATGA
25476911 AAAAAAAAT-AATGAAATGA
1 AAAAAAAATAAATGAAATGA
25476930 AA
1 AA
25476932 TGTTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAAAAAATAAATGAAATGA
Found at i:25476959 original size:18 final size:18
Alignment explanation
Indices: 25476936--25477028 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 18
25476926 ATGAAATGTT
*
25476936 AAATGAAATATGAATATA
1 AAATGAAATATGAATATG
* *
25476954 AAATGAAATGT-AATTTG
1 AAATGAAATATGAATATG
*
25476971 TAATG-AATATGAA-ATG
1 AAATGAAATATGAATATG
25476987 TTAAATG-AATATGAA-ATG
1 --AAATGAAATATGAATATG
*
25477005 AAATGAAATGATGATTATG
1 AAATGAAAT-ATGAATATG
25477024 AAATG
1 AAATG
25477029 GAATGAAAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
16 11 0.18
17 13 0.21
18 29 0.48
19 8 0.13
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
AAATGAAATATGAATATG
Found at i:25476977 original size:52 final size:53
Alignment explanation
Indices: 25476919--25477048 Score: 169
Period size: 52 Copynumber: 2.5 Consensus size: 53
25476909 GAAAAAAAAA
25476919 TAATGAAATGAAATGTTAAATGAAATATGAATATAAAATGAAATG-TAATT-TG
1 TAATGAAATGAAATGTTAAATGAAATATGAA-ATAAAATGAAATGATAATTATG
* *
25476971 TAATGAATATGAAATGTTAAATG-AATATGAAATGAAATGAAATGATGATTATG
1 TAATGAA-ATGAAATGTTAAATGAAATATGAAATAAAATGAAATGATAATTATG
* *
25477024 AAATGGAATGAAA-GTTTAAATGAAA
1 TAATGAAATGAAATG-TTAAATGAAA
25477049 ATAAATTATA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
51 13 0.19
52 32 0.46
53 24 0.35
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.31
Consensus pattern (53 bp):
TAATGAAATGAAATGTTAAATGAAATATGAAATAAAATGAAATGATAATTATG
Done.