Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, 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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 65
Found at i:6224190 original size:124 final size:122
Alignment explanation
Indices: 6223962--6224193 Score: 279
Period size: 124 Copynumber: 1.9 Consensus size: 122
6223952 AGTTCACAAT
* * * * *
6223962 GAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGAGTAGCATCAACCTT
1 GAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGAGTAACATCAACC--
* **
6224027 TCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAACTCATCTAAAGAG
64 TCCAGAAAAAGTTCATAATGAGAAGAACTAATCCAAAGAAGAAGAACTCATCTAAAGAG
* * *
6224086 GAGAAGAGCTTATTCAATCTTTTGAATAACTCTATCACAGAAGGAAATAG-GTCAACATCATCC-
1 GAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGAGT-AACATCAACCT
* *
6224149 CCAGTGGAAAAGTTCATAATGAGAATAACTAATCCCAAAGAAGAA
65 CCA--GAAAAAGTTCATAATGAGAAGAACTAAT-CCAAAGAAGAA
6224194 TTAGATCAAC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
121 3 0.03
123 27 0.30
124 61 0.67
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (122 bp):
GAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGAGTAACATCAACCTC
CAGAAAAAGTTCATAATGAGAAGAACTAATCCAAAGAAGAAGAACTCATCTAAAGAG
Found at i:6224341 original size:3 final size:3
Alignment explanation
Indices: 6224335--6224383 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
6224325 TTCATTTAAA
6224335 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TA- TAT ATAT TAT TAT ATAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
6224381 TAT
1 TAT
6224384 ACAAGCCCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 3 0.07
3 31 0.76
4 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6224377 original size:12 final size:12
Alignment explanation
Indices: 6224335--6224380 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
6224325 TTCATTTAAA
*
6224335 TATTATTTATAT
1 TATTATATATAT
6224347 TATTAT-TATTAT
1 TATTATATA-TAT
6224359 TATTATATATAT
1 TATTATATATAT
6224371 TATTATATAT
1 TATTATATAT
6224381 TATACAAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTATATATAT
Found at i:6226005 original size:23 final size:26
Alignment explanation
Indices: 6225973--6226022 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
6225963 CCTTTTCTGA
*
6225973 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
6225996 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
6226022 T
1 T
6226023 TTTCTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:6233124 original size:39 final size:39
Alignment explanation
Indices: 6233045--6233124 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 39
6233035 TTAATGACTT
* * * * * *
6233045 AATTGATATTATTTAAATATTTAAGCGATGTGATTGAAA
1 AATTAATATCATTTAAATAATTAAGCGATATAATTCAAA
* *
6233084 AATTAATATCATTTATATAATTAAGTGATATAATTCAAA
1 AATTAATATCATTTAAATAATTAAGCGATATAATTCAAA
6233123 AA
1 AA
6233125 AAAATTAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (39 bp):
AATTAATATCATTTAAATAATTAAGCGATATAATTCAAA
Found at i:6239064 original size:23 final size:23
Alignment explanation
Indices: 6239037--6239082 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6239027 TTTATGTGTT
6239037 TTTTTAAATATATATATAATTTTA
1 TTTTTAAAT-TATATATAATTTTA
* *
6239061 TTTTTTAATTTTATATAATTTT
1 TTTTTAAATTATATATAATTTT
6239083 TAAAATTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTAAATTATATATAATTTTA
Found at i:6239837 original size:16 final size:16
Alignment explanation
Indices: 6239816--6239904 Score: 79
Period size: 16 Copynumber: 5.1 Consensus size: 16
6239806 TGCAGATTTT
*
6239816 TTATATTATAATATTG
1 TTATATTATAATATTA
*
6239832 TTATATTATAAATTTTTA
1 TTATATTAT-AA-TATTA
6239850 TTATATTAATAATATTAA
1 TTATATT-ATAATATT-A
*
6239868 TTATAAATTTATAATATTT
1 TTAT--A-TTATAATATTA
*
6239887 TTAAATTATAATATTA
1 TTATATTATAATATTA
6239903 TT
1 TT
6239905 TGATAAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
16 21 0.35
17 6 0.10
18 17 0.28
19 5 0.08
20 9 0.15
21 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TTATATTATAATATTA
Found at i:6240745 original size:22 final size:23
Alignment explanation
Indices: 6240717--6240763 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
6240707 GTAAAAAATT
* *
6240717 ACCTAAAACAT-TATTTTTTTTA
1 ACCTAAAACATCAATGTTTTTTA
6240739 ACCTAAAACATCAATGTTTTTTA
1 ACCTAAAACATCAATGTTTTTTA
6240762 AC
1 AC
6240764 ATTTTCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (23 bp):
ACCTAAAACATCAATGTTTTTTA
Found at i:6240797 original size:27 final size:27
Alignment explanation
Indices: 6240759--6240822 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
6240749 TCAATGTTTT
6240759 TTAACATTTTCAATAAAGTGTCCAATA
1 TTAACATTTTCAATAAAGTGTCCAATA
6240786 TTAACATTTTCAATAAAGTGTCCAATA
1 TTAACATTTTCAATAAAGTGTCCAATA
6240813 TTAACATTTT
1 TTAACATTTT
6240823 TGGTAGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (27 bp):
TTAACATTTTCAATAAAGTGTCCAATA
Found at i:6243701 original size:42 final size:41
Alignment explanation
Indices: 6243607--6243704 Score: 108
Period size: 42 Copynumber: 2.4 Consensus size: 41
6243597 ATGTCTTACG
*
6243607 GATGGCCCGAAGGACCTATCATCTTGCTCAAAAGACTTATA
1 GATGGCCCGAAGGACCTATCATCATGCTCAAAAGACTTATA
* * ** **
6243648 GATGACTCGAAGGATTTAATCATCATGCTGGAAAGACTTA-A
1 GATGGCCCGAAGGACCT-ATCATCATGCTCAAAAGACTTATA
6243689 TGATGGCCCGAAGGAC
1 -GATGGCCCGAAGGAC
6243705 TTCCTATATT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 14 0.31
42 31 0.69
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (41 bp):
GATGGCCCGAAGGACCTATCATCATGCTCAAAAGACTTATA
Found at i:6243916 original size:41 final size:42
Alignment explanation
Indices: 6243851--6243966 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 42
6243841 AAACATCCTA
* * * * *
6243851 CTCGAATGTCTTACGGATGGCCCGATGAACTT-ATCATCATT
1 CTCGAAAGACTTACAGATGGCCCGAAGAACTTAATCATCATG
* * * *
6243892 CTCGAAATACTTACAGATGACCCGAAGGATTTAATCATCATG
1 CTCGAAAGACTTACAGATGGCCCGAAGAACTTAATCATCATG
* *
6243934 CTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1 CTCGAAAGACTTACAGATGGCCCGAAGAACTTA
6243967 CCAATTTGGG
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
41 24 0.39
42 37 0.61
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
CTCGAAAGACTTACAGATGGCCCGAAGAACTTAATCATCATG
Found at i:6243920 original size:259 final size:254
Alignment explanation
Indices: 6243451--6244330 Score: 1185
Period size: 259 Copynumber: 3.5 Consensus size: 254
6243441 GTAGTCAGAT
* * *
6243451 CAATTTTGGAAATAGTTTACTGGGTAAGAAACTTTTGAAATCGCTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTT
* * * * * *
6243516 CATTTT-ATGAAAACATTAAATGAAAAACTTTGGATATTGCTTTTTTATTTTTTTAAATAT-ATG
66 CATTTTCA-GAAAAGATTAAATGAGAAACTTTGGAAATCGCTTTCTCA--TTTTTAAA-ATCATG
* * * * *
6243579 TAAAAACATCATACCTGAATGTCTTACGGATGGCCCGAAGGACCTATCATCTTGCTCAAAAGACT
127 TGAAAACATCCTACC-GAATGTCTTACGGATGGCCCG-ATGACTTATCATCTTGCTCGAAAGACT
* * * *
6243644 TATAGATGACTCGAAGGATTTAATCATCATGCTGGAAAGACTTAATGATGGCCCGAAGGACTT-C
190 TACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* * * * **
6243708 CTATATTGGGAAATAGTTTACTGGGTAAGAAACTTCGGTAATCGCTTTCTTGTTTTTCAAAAATT
1 CAAT-TTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
*
6243773 TCATTTTCAGAAAAGATTTAAATGAGAAACTTTAGAAATCGCTTTCTCATTTTTCAAAAATCATG
65 TCATTTTCAGAAAAGA-TTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTT--AAAATCATG
*
6243838 TGAAAACATCCTACTCGAATGTCTTACGGATGGCCCGATGAACTTATCATCATT-CTCGAAATAC
127 TGAAAACATCCTAC-CGAATGTCTTACGGATGGCCCGATG-ACTTATCATC-TTGCTCGAAAGAC
6243902 TTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
189 TTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
6243967 C
254 C
6243968 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTT
*
6244033 CATTTTCTGAAAAGATTAAATGAGAAACTTTGGAAATCGCTTTCTCA----T----TCATGTGAA
66 CATTTTCAGAAAAGATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTAAAATCATGTGAA
* *
6244090 AACATCCTACCCGAAGGTCTTACGGATGGCCCGAATGACTTATCATCTTGATCGAAAGACTTACA
131 AACATCCTA-CCGAATGTCTTACGGATGGCCCG-ATGACTTATCATCTTGCTCGAAAGACTTACA
* * * *
6244155 GATGACCCGAAAGATTTAATAATCACGCTCGAAAGACTTACTGATGGCCCGAATGACTTAC
194 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
6244216 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTT
* * * **
6244281 CATTTTCAG-AAA-ATTAATTGAAAAACATTGGAAATCAATTTCTCATTTTT
66 CATTTTCAGAAAAGATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTT
6244331 GGAAACAACT
Statistics
Matches: 561, Mismatches: 45, Indels: 41
0.87 0.07 0.06
Matches are distributed among these distances:
246 28 0.05
247 5 0.01
248 192 0.34
249 4 0.01
250 1 0.00
254 1 0.00
257 8 0.01
258 102 0.18
259 213 0.38
260 7 0.01
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (254 bp):
CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTT
CATTTTCAGAAAAGATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTAAAATCATGTGAA
AACATCCTACCGAATGTCTTACGGATGGCCCGATGACTTATCATCTTGCTCGAAAGACTTACAGA
TGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
Found at i:6244167 original size:20 final size:20
Alignment explanation
Indices: 6244142--6244215 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
6244132 TCATCTTGAT
6244142 CGAAAGACTTACAGATGACC
1 CGAAAGACTTACAGATGACC
* * *
6244162 CGAAAGATTTA-ATAATCACGC
1 CGAAAGACTTACA-GATGAC-C
* *
6244183 TCGAAAGACTTACTGATGGCC
1 -CGAAAGACTTACAGATGACC
*
6244204 CGAATGACTTAC
1 CGAAAGACTTAC
6244216 CAATTTGGGA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
19 1 0.02
20 25 0.61
21 2 0.05
22 13 0.32
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (20 bp):
CGAAAGACTTACAGATGACC
Found at i:6245498 original size:25 final size:25
Alignment explanation
Indices: 6245452--6245509 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
6245442 AAAAAAAATG
*
6245452 AAAAATA-TCAATTAAAAGAATTTTA
1 AAAAATATTCAATCAAAAGAA-TTTA
* *
6245477 AAAAATATTTAATCAAAA-AATTTG
1 AAAAATATTCAATCAAAAGAATTTA
6245501 AAAAATATT
1 AAAAATATT
6245510 GCCCCTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.41
25 9 0.31
26 8 0.28
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (25 bp):
AAAAATATTCAATCAAAAGAATTTA
Found at i:6246452 original size:14 final size:14
Alignment explanation
Indices: 6246433--6246502 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
6246423 ACTTGATTTA
6246433 TTTTCTTTCTTCTT
1 TTTTCTTTCTTCTT
6246447 TTTTC--TCTTC-T
1 TTTTCTTTCTTCTT
* *
6246458 TTTTC-ATCTCTGTT
1 TTTTCTTTCT-TCTT
6246472 TTTTCTTTCTAT-TT
1 TTTTCTTTCT-TCTT
6246486 TTCTT-TTTCTTCTT
1 TT-TTCTTTCTTCTT
6246500 TTT
1 TTT
6246503 ATTGGATGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
11 6 0.13
12 8 0.17
13 3 0.06
14 24 0.51
15 6 0.13
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTTCTTTCTTCTT
Found at i:6246455 original size:12 final size:12
Alignment explanation
Indices: 6246440--6246489 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
6246430 TTATTTTCTT
6246440 TCTTCTTTTTTC
1 TCTTCTTTTTTC
6246452 TCTTC-TTTTTC
1 TCTTCTTTTTTC
*
6246463 ATCTCTGTTTTTTC
1 -TCT-TCTTTTTTC
6246477 T-TTCTATTTTTC
1 TCTTCT-TTTTTC
6246489 T
1 T
6246490 TTTTCTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 8 0.25
12 16 0.50
13 2 0.06
14 6 0.19
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (12 bp):
TCTTCTTTTTTC
Found at i:6248740 original size:21 final size:18
Alignment explanation
Indices: 6248711--6248768 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 18
6248701 CTTGGAGCAT
6248711 TGGGGGTATCGGTACCCC
1 TGGGGGTATCGGTACCCC
*
6248729 TGGATAGGGTATCGATACCTCC
1 TGG---GGGTATCGGTACC-CC
6248751 TGGGGAGTATCGGTACCC
1 TGGGG-GTATCGGTACCC
6248769 TTCGAGCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 3 0.09
19 3 0.09
20 10 0.30
21 12 0.36
22 5 0.15
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (18 bp):
TGGGGGTATCGGTACCCC
Found at i:6248849 original size:19 final size:20
Alignment explanation
Indices: 6248807--6248846 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6248797 AAATCTTACA
*
6248807 TGGGGGTATCGGTACCCTCT
1 TGGGGATATCGGTACCCTCT
6248827 TGGGGATATCGGTACCCTCT
1 TGGGGATATCGGTACCCTCT
6248847 GGGAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (20 bp):
TGGGGATATCGGTACCCTCT
Found at i:6275875 original size:23 final size:23
Alignment explanation
Indices: 6275831--6275875 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6275821 ATTATTATAT
*
6275831 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
6275854 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
6275876 AGTTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:6279131 original size:18 final size:18
Alignment explanation
Indices: 6279088--6279124 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6279078 ACCGGTCTAT
6279088 GGCAG-TGGACGACTAGG
1 GGCAGTTGGACGACTAGG
6279105 GGCAGTTGGACGACTAGG
1 GGCAGTTGGACGACTAGG
6279123 GG
1 GG
6279125 TTGTTGGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.22, C:0.16, G:0.49, T:0.14
Consensus pattern (18 bp):
GGCAGTTGGACGACTAGG
Found at i:6281238 original size:26 final size:28
Alignment explanation
Indices: 6281208--6281268 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
6281198 CGTTAAGCTT
*
6281208 GTTAAAA-TT-TTTCTCGACTCGTGCTC
1 GTTAAAACTTGTTACTCGACTCGTGCTC
*
6281234 GTTAAAAACCTTGTTACTCGACTTGTGCTC
1 GTT-AAAA-CTTGTTACTCGACTCGTGCTC
6281264 GTTAA
1 GTTAA
6281269 GCTCGTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 3 0.10
27 4 0.14
29 4 0.14
30 18 0.62
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (28 bp):
GTTAAAACTTGTTACTCGACTCGTGCTC
Found at i:6282445 original size:11 final size:11
Alignment explanation
Indices: 6282429--6282470 Score: 84
Period size: 11 Copynumber: 3.8 Consensus size: 11
6282419 CATCTGATTC
6282429 TTTTATTTTTT
1 TTTTATTTTTT
6282440 TTTTATTTTTT
1 TTTTATTTTTT
6282451 TTTTATTTTTT
1 TTTTATTTTTT
6282462 TTTTATTTT
1 TTTTATTTT
6282471 ATTTATTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:6282448 original size:9 final size:9
Alignment explanation
Indices: 6282429--6282485 Score: 57
Period size: 8 Copynumber: 6.7 Consensus size: 9
6282419 CATCTGATTC
6282429 TTTTATTTT
1 TTTTATTTT
*
6282438 TTTT-TTAT
1 TTTTATTTT
6282446 TTTT-TTTT
1 TTTTATTTT
*
6282454 TATT-TTTT
1 TTTTATTTT
6282462 TTTTATTTT
1 TTTTATTTT
* *
6282471 ATTTATTTC
1 TTTTATTTT
6282480 TTTTAT
1 TTTTAT
6282486 AGGCCCAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
8 20 0.50
9 20 0.50
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTATTTT
Found at i:6283604 original size:153 final size:153
Alignment explanation
Indices: 6283336--6283631 Score: 405
Period size: 153 Copynumber: 1.9 Consensus size: 153
6283326 GTAAGAGTTA
* * * * *
6283336 TGTTGTATAATTGTTGATGGCAAGTTATTTTCATGCATTTCTTAAGGACAAGCAAATACTTAGAT
1 TGTTGTATAATTGTTAAGGGCAAGTTATTATCATGCATTGCTTAAGGACAAGCAAACACTTAGAT
* * * * *
6283401 TTGGGGTTGTGATAACTTTCCAAAAGAGTTATCATTTAGTGCCTTCTTACCTAAGTT-AAGTTTT
66 TTGGGGTTATGATAACTCTCCAAAAGAGATATCATTTAGTGCCTTCTTACCTAAGTTAAACTTGT
6283465 CACTTTAGCATTTTGTAAGAAATG
131 -ACTTTAGCATTTTGTAAGAAATG
* * * *
6283489 TGTTGTCTAATTGTTAAGGGCAAGTTGTTATCATGCATTGCTTGAGGACAAGCAAACACTTAGGT
1 TGTTGTATAATTGTTAAGGGCAAGTTATTATCATGCATTGCTTAAGGACAAGCAAACACTTAGAT
* * * * *
6283554 TTGGGGTTATGATAACTCTCCTAAAGAGATATTATTTAGTGTCTTTTTACCTAGGTTAAACTTGT
66 TTGGGGTTATGATAACTCTCCAAAAGAGATATCATTTAGTGCCTTCTTACCTAAGTTAAACTTGT
6283619 ACTTTAGCATTTT
131 ACTTTAGCATTTT
6283632 TAGAATTATA
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
153 118 0.96
154 5 0.04
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (153 bp):
TGTTGTATAATTGTTAAGGGCAAGTTATTATCATGCATTGCTTAAGGACAAGCAAACACTTAGAT
TTGGGGTTATGATAACTCTCCAAAAGAGATATCATTTAGTGCCTTCTTACCTAAGTTAAACTTGT
ACTTTAGCATTTTGTAAGAAATG
Found at i:6286164 original size:355 final size:356
Alignment explanation
Indices: 6285484--6286196 Score: 1410
Period size: 355 Copynumber: 2.0 Consensus size: 356
6285474 GGCTGGAAAC
6285484 CTAAGGTTCTATAAACCTCCATTAAACCTTTTTTTTTTGTCACTAAGGCCAAAACTTGATCTTAA
1 CTAAGGTTCTATAAACCTCCATTAAACCTTTTTTTTTTGTCACTAAGGCCAAAACTTGATCTTAA
*
6285549 TGGCATGAAAGAAAGCTAGAGAGATGGAGGAATGAATGGCTAACAAAGTTAATACCTTTGTTGCT
66 TGGCATGAAAGAAAGCTAGAGAGATGGAGGAATGAATGGCTAACAAAGTTAATACCTTTGTTCCT
6285614 TGGGTGGAAGAAAGAATAAAGGATGAAGAAGAACAAACAAATAAGAGTTGGGAAAATGAGGTGTC
131 TGGGTGGAAGAAAGAATAAAGGATGAAGAAGAACAAACAAATAAGAGTTGGGAAAATGAGGTGTC
6285679 AGACGTGATATCATCAACAATGAATGAAATTCAGTATTTGTTTCAAAAGATGAGTTATTTGCTCA
196 AGACGTGATATCATCAACAATGAATGAAATTCAGTATTTGTTTCAAAAGATGAGTTATTTGCTCA
6285744 ATTAGTCCCTCTTCTTTTGGTCTAAGATTAAAAACATCATTTTTATCATATTGGGCTCATATCAA
261 ATTAGTCCCTCTTCTTTTGGTCTAAGATTAAAAACATCATTTTTATCATATTGGGCTCATATCAA
6285809 GCCCAAACCAATACCCATTAGGGACAAGCCT
326 GCCCAAACCAATACCCATTAGGGACAAGCCT
6285840 CTAAGGTTCTATAAACCTCCATTAAACC-TTTTTTTTTGTCACTAAGGCCAAAACTTGATCTTAA
1 CTAAGGTTCTATAAACCTCCATTAAACCTTTTTTTTTTGTCACTAAGGCCAAAACTTGATCTTAA
6285904 TGGCATGAAAGAAAGCTAGAGAGATGGAGGAATGAATGGCTAACAAAGTTAATACCTTTGTTCCT
66 TGGCATGAAAGAAAGCTAGAGAGATGGAGGAATGAATGGCTAACAAAGTTAATACCTTTGTTCCT
6285969 TGGGTGGAAGAAAGAATAAAGGATGAAGAAGAACAAACAAATAAGAGTTGGGAAAATGAGGTGTC
131 TGGGTGGAAGAAAGAATAAAGGATGAAGAAGAACAAACAAATAAGAGTTGGGAAAATGAGGTGTC
6286034 AGACGTGATATCATCAACAATGAATGAAATTCAGTATTTGTTTCAAAAGATGAGTTATTTGCTCA
196 AGACGTGATATCATCAACAATGAATGAAATTCAGTATTTGTTTCAAAAGATGAGTTATTTGCTCA
6286099 ATTAGTCCCTCTTCTTTTGGTCTAAGATTAAAAACATCATTTTTATCATATTGGGCTCATATCAA
261 ATTAGTCCCTCTTCTTTTGGTCTAAGATTAAAAACATCATTTTTATCATATTGGGCTCATATCAA
6286164 GCCCAAACCAATACCCATTAGGGACAAGCCT
326 GCCCAAACCAATACCCATTAGGGACAAGCCT
6286195 CT
1 CT
6286197 TATAAACTAA
Statistics
Matches: 356, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
355 328 0.92
356 28 0.08
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (356 bp):
CTAAGGTTCTATAAACCTCCATTAAACCTTTTTTTTTTGTCACTAAGGCCAAAACTTGATCTTAA
TGGCATGAAAGAAAGCTAGAGAGATGGAGGAATGAATGGCTAACAAAGTTAATACCTTTGTTCCT
TGGGTGGAAGAAAGAATAAAGGATGAAGAAGAACAAACAAATAAGAGTTGGGAAAATGAGGTGTC
AGACGTGATATCATCAACAATGAATGAAATTCAGTATTTGTTTCAAAAGATGAGTTATTTGCTCA
ATTAGTCCCTCTTCTTTTGGTCTAAGATTAAAAACATCATTTTTATCATATTGGGCTCATATCAA
GCCCAAACCAATACCCATTAGGGACAAGCCT
Found at i:6287122 original size:16 final size:16
Alignment explanation
Indices: 6287101--6287136 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
6287091 ATTTTTTCGG
6287101 TTAAAAAACCGGTTTT
1 TTAAAAAACCGGTTTT
6287117 TTAAAAAAACCGGTTTT
1 TT-AAAAAACCGGTTTT
6287134 TTA
1 TTA
6287137 TCCGGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (16 bp):
TTAAAAAACCGGTTTT
Found at i:6287123 original size:39 final size:41
Alignment explanation
Indices: 6287065--6287160 Score: 135
Period size: 39 Copynumber: 2.4 Consensus size: 41
6287055 TTCGGTTTGC
*
6287065 AAAAAACCGG-TTTTAAAAAAAACCGGATTTTT-T-CGGTT
1 AAAAAACCGGTTTTTAAAAAAAACCGGATTTTTATCCGGAT
* *
6287103 AAAAAACCGGTTTTTTAAAAAAACCGGTTTTTTATCCGGAT
1 AAAAAACCGGTTTTTAAAAAAAACCGGATTTTTATCCGGAT
*
6287144 AAAAAACCGATTTTTAA
1 AAAAAACCGGTTTTTAA
6287161 TCCGGTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 10 0.20
39 20 0.40
40 1 0.02
41 19 0.38
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (41 bp):
AAAAAACCGGTTTTTAAAAAAAACCGGATTTTTATCCGGAT
Found at i:6287151 original size:24 final size:24
Alignment explanation
Indices: 6287118--6287178 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
6287108 ACCGGTTTTT
*
6287118 TAAAAAAACCGGTTTTTTATCCGG
1 TAAAAAAACCGGTTTTTAATCCGG
*
6287142 -ATAAAAAACCGATTTTTAATCCGG
1 TA-AAAAAACCGGTTTTTAATCCGG
6287166 TAAAAAAACCGGT
1 TAAAAAAACCGGT
6287179 CGTTCAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (24 bp):
TAAAAAAACCGGTTTTTAATCCGG
Found at i:6305242 original size:133 final size:133
Alignment explanation
Indices: 6304996--6305269 Score: 505
Period size: 133 Copynumber: 2.1 Consensus size: 133
6304986 CAAGATTCAA
*
6304996 AGAT-GTGCAGATTAACTTTGATTCCCTAGCGGGTGATGTTAGACTAGCAGATTTTGTGGGAAGA
1 AGATGGTGCAGATTAACTTTGATTCCCTAGCGGGTGATGTTAGACTAGCAGATTATGTGGGAAGA
*
6305060 AAGAAGAAAGGTTGTACTTCATCCTCCTGTTGGGTTCCTCCTCCTTCAGGGTTTGTTAAAGTAAA
66 AAGAAGAAAGGTTGTACTTCATCCTCCTGCTGGGTTCCTCCTCCTTCAGGGTTTGTTAAAGTAAA
6305125 TGT
131 TGT
* *
6305128 AGATGGTGTAGATTAACTTTGATTCCCTAGTGGGTGATGTTAGACTAGCAGATTATGTGGGAAGA
1 AGATGGTGCAGATTAACTTTGATTCCCTAGCGGGTGATGTTAGACTAGCAGATTATGTGGGAAGA
6305193 AAGAAGAAAGGTTGTACTTCATCCTCCTGCTGGGTTCCTCCTCCTTCAGGGTTTGTTAAAGTAAA
66 AAGAAGAAAGGTTGTACTTCATCCTCCTGCTGGGTTCCTCCTCCTTCAGGGTTTGTTAAAGTAAA
6305258 TGT
131 TGT
6305261 AGATGGTGC
1 AGATGGTGC
6305270 GATGTCTAAG
Statistics
Matches: 136, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
132 4 0.03
133 132 0.97
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (133 bp):
AGATGGTGCAGATTAACTTTGATTCCCTAGCGGGTGATGTTAGACTAGCAGATTATGTGGGAAGA
AAGAAGAAAGGTTGTACTTCATCCTCCTGCTGGGTTCCTCCTCCTTCAGGGTTTGTTAAAGTAAA
TGT
Found at i:6329804 original size:1 final size:1
Alignment explanation
Indices: 6329798--6329829 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
6329788 ACCCAAAATT
6329798 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6329830 CCTTACAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6333502 original size:20 final size:20
Alignment explanation
Indices: 6333482--6333521 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6333472 TAAAATTAAA
6333482 CATTAAAACATAATATAAAAC
1 CATT-AAACATAATATAAAAC
*
6333503 CATTTAACATAATATAAAA
1 CATTAAACATAATATAAAA
6333522 ACACAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (20 bp):
CATTAAACATAATATAAAAC
Found at i:6335630 original size:20 final size:20
Alignment explanation
Indices: 6335599--6335656 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
6335589 GTTAATATAT
6335599 TAAAAT-TTAAAATATTTAA
1 TAAAATATTAAAATATTTAA
* *
6335618 TAAAATATTAAAAAATTAAA
1 TAAAATATTAAAATATTTAA
6335638 TAAACATAATT-AAATATTT
1 TAAA-AT-ATTAAAATATTT
6335657 TTAACATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.19
20 15 0.47
21 8 0.25
22 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATATTAAAATATTTAA
Found at i:6339636 original size:20 final size:20
Alignment explanation
Indices: 6339526--6339639 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
6339516 AATGACAAAT
6339526 AAATTCGCAACGCGAT-CTC
1 AAATTCGCAACGCGATACTC
*
6339545 AAAATCGCAACGCGA-ACTCC
1 AAATTCGCAACGCGATACT-C
* * * **
6339565 AATTTCGTAAC-CCAGTTTTC
1 AAATTCGCAACGCGA-TACTC
* * * * *
6339585 AATTTCGCAACACAAAAGTC
1 AAATTCGCAACGCGATACTC
*
6339605 AAATTCGCAACGCGATAGTC
1 AAATTCGCAACGCGATACTC
6339625 AAATTCGCAACGCGA
1 AAATTCGCAACGCGA
6339640 AAGACAAATG
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
19 18 0.24
20 53 0.72
21 3 0.04
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (20 bp):
AAATTCGCAACGCGATACTC
Found at i:6339647 original size:20 final size:20
Alignment explanation
Indices: 6339583--6339648 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
6339573 AACCCAGTTT
* * *
6339583 TCAATTTCGCAACACAAAAG
1 TCAAATTCGCAACGCGAAAG
*
6339603 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGAAAG
6339623 TCAAATTCGCAACGCGAAAG
1 TCAAATTCGCAACGCGAAAG
*
6339643 ACAAAT
1 TCAAAT
6339649 GTTTTTACGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.18
Consensus pattern (20 bp):
TCAAATTCGCAACGCGAAAG
Found at i:6339648 original size:40 final size:39
Alignment explanation
Indices: 6339526--6339648 Score: 102
Period size: 40 Copynumber: 3.1 Consensus size: 39
6339516 AATGACAAAT
* ***
6339526 AAATTCGCAACGCGATCTCAAAATCGCAACGCGAACTCC
1 AAATTCGCAACGCGATCTCAAATTCGCAACGCGAAAGAC
* * * * * * * * *
6339565 AATTTCGTAACCCAGTTTTCAATTTCGCAACACAAAAGTC
1 AAATTCGCAACGC-GATCTCAAATTCGCAACGCGAAAGAC
*
6339605 AAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGAC
1 AAATTCGCAACGCGAT-CTCAAATTCGCAACGCGAAAGAC
6339645 AAAT
1 AAAT
6339649 GTTTTTACGC
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
39 12 0.20
40 49 0.80
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (39 bp):
AAATTCGCAACGCGATCTCAAATTCGCAACGCGAAAGAC
Found at i:6340304 original size:20 final size:20
Alignment explanation
Indices: 6340279--6340350 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
6340269 ATCGCAACGT
*
6340279 GATTTT-AGTTTCGTGTTTGC
1 GATTTTCAGTTTCGCG-TTGC
*
6340299 GATTTTCATTTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
*
6340319 GATTTTCATTTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
*
6340339 GATTTTAAGTTT
1 GATTTTCAGTTT
6340351 TAGAAACTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
20 40 0.85
21 7 0.15
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.53
Consensus pattern (20 bp):
GATTTTCAGTTTCGCGTTGC
Found at i:6342060 original size:21 final size:21
Alignment explanation
Indices: 6342036--6342085 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
6342026 GTTAGGGGAA
*
6342036 TTACGTGATGAGATCGGTGCT
1 TTACGTGATGAGATCGGTACT
* * * *
6342057 TTACATCATGAGGTCGGTATT
1 TTACGTGATGAGATCGGTACT
6342078 TTACGTGA
1 TTACGTGA
6342086 AGATAATGGT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (21 bp):
TTACGTGATGAGATCGGTACT
Found at i:6342534 original size:21 final size:21
Alignment explanation
Indices: 6342495--6342555 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
6342485 TGCACCTATC
*
6342495 ATCATTCAATAAGCGCCTCCT
1 ATCATTCAATAAGCCCCTCCT
6342516 ATCATTCAA-AAGGCCCCT-CT
1 ATCATTCAATAA-GCCCCTCCT
*
6342536 CATCA-TCGATGAAGCCCCTC
1 -ATCATTCAAT-AAGCCCCTC
6342556 TCACCGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 7 0.21
21 24 0.73
22 2 0.06
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.25
Consensus pattern (21 bp):
ATCATTCAATAAGCCCCTCCT
Found at i:6344130 original size:20 final size:20
Alignment explanation
Indices: 6344101--6344138 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6344091 GCAATGCGCT
*
6344101 TTTCGGTTTGCGAATTTGAC
1 TTTCGCTTTGCGAATTTGAC
6344121 TTTCGCTTTGCGAATTTG
1 TTTCGCTTTGCGAATTTG
6344139 GCTATCGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.47
Consensus pattern (20 bp):
TTTCGCTTTGCGAATTTGAC
Found at i:6344146 original size:20 final size:20
Alignment explanation
Indices: 6344107--6344146 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6344097 CGCTTTTCGG
*
6344107 TTTGCGAATTTGACTTTCGC
1 TTTGCGAATTTGACTATCGC
*
6344127 TTTGCGAATTTGGCTATCGC
1 TTTGCGAATTTGACTATCGC
6344147 AACGCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (20 bp):
TTTGCGAATTTGACTATCGC
Found at i:6344159 original size:34 final size:34
Alignment explanation
Indices: 6344121--6344208 Score: 142
Period size: 34 Copynumber: 2.6 Consensus size: 34
6344111 CGAATTTGAC
*
6344121 TTTCGCTTTGCGAATTTGGCTATCGCAACGCTTA
1 TTTCGCTTTGCGAATTTGACTATCGCAACGCTTA
*
6344155 TTTCGCGTTGCGAATTTGACTATCGCAACGCTTA
1 TTTCGCTTTGCGAATTTGACTATCGCAACGCTTA
6344189 TTTCG-TGTTGCGAATTTGAC
1 TTTCGCT-TTGCGAATTTGAC
6344209 ATTCGCGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (34 bp):
TTTCGCTTTGCGAATTTGACTATCGCAACGCTTA
Found at i:6346806 original size:24 final size:24
Alignment explanation
Indices: 6346772--6346825 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
6346762 CCATCACATC
6346772 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
6346796 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
6346820 ATCAAA
1 ATCAAA
6346826 TTTCAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:6347547 original size:16 final size:15
Alignment explanation
Indices: 6347525--6347563 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6347515 GAAATCATTG
6347525 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
6347541 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
6347556 AAAAATTA
1 AAAAATTA
6347564 GAGATGAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:6347595 original size:21 final size:23
Alignment explanation
Indices: 6347561--6347604 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
6347551 TAAAAAAAAA
*
6347561 TTAGAGATGAGGAA-GGATGTCG
1 TTAGAGATGAGGAACGAATGTCG
*
6347583 TTAGATAT-AGGAACGAATGTCG
1 TTAGAGATGAGGAACGAATGTCG
6347605 CCGGAGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.07, G:0.34, T:0.25
Consensus pattern (23 bp):
TTAGAGATGAGGAACGAATGTCG
Found at i:6347738 original size:20 final size:20
Alignment explanation
Indices: 6347700--6347852 Score: 136
Period size: 20 Copynumber: 7.8 Consensus size: 20
6347690 CAAAACATTT
**
6347700 GTGTTGCGAAACT-AAATTC
1 GTGTTGCGAATTTGAAATTC
*
6347719 GTGTTACGAATTTGAAATTC
1 GTGTTGCGAATTTGAAATTC
*
6347739 -AGTTGCGAATTTGAAATTC
1 GTGTTGCGAATTTGAAATTC
*
6347758 -AGTTGCGAATTTGAAATTCC
1 GTGTTGCGAATTTGAAATT-C
* ** *
6347778 GCGTTGCGAATTTGACTTTT
1 GTGTTGCGAATTTGAAATTC
*
6347798 GTGTTGCGAATTTG-ACTTC
1 GTGTTGCGAATTTGAAATTC
* *
6347817 TGTGTTACGAATTTG-ACTATC
1 -GTGTTGCGAATTTGAAAT-TC
6347838 GTGTTGCGAATTTGA
1 GTGTTGCGAATTTGA
6347853 CTTATGTGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
19 47 0.42
20 49 0.43
21 17 0.15
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (20 bp):
GTGTTGCGAATTTGAAATTC
Found at i:6347744 original size:38 final size:38
Alignment explanation
Indices: 6347702--6347776 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
6347692 AAACATTTGT
*
6347702 GTTGCGAAACT-AAATTCGTGTTACGAATTTGAAATTCA
1 GTTGCGAAACTGAAATTC-AGTTACGAATTTGAAATTCA
** *
6347740 GTTGCGAATTTGAAATTCAGTTGCGAATTTGAAATTC
1 GTTGCGAAACTGAAATTCAGTTACGAATTTGAAATTC
6347777 CGCGTTGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 26 0.81
39 6 0.19
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (38 bp):
GTTGCGAAACTGAAATTCAGTTACGAATTTGAAATTCA
Found at i:6347747 original size:19 final size:19
Alignment explanation
Indices: 6347725--6347792 Score: 109
Period size: 19 Copynumber: 3.5 Consensus size: 19
6347715 ATTCGTGTTA
6347725 CGAATTTGAAATTCAGTTG
1 CGAATTTGAAATTCAGTTG
6347744 CGAATTTGAAATTCAGTTG
1 CGAATTTGAAATTCAGTTG
*
6347763 CGAATTTGAAATTCCGCGTTG
1 CGAATTTGAAATT-C-AGTTG
6347784 CGAATTTGA
1 CGAATTTGA
6347793 CTTTTGTGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 32 0.70
20 1 0.02
21 13 0.28
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (19 bp):
CGAATTTGAAATTCAGTTG
Found at i:6347808 original size:60 final size:59
Alignment explanation
Indices: 6347740--6347866 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 59
6347730 TTGAAATTCA
* *
6347740 GTTGCGAATTTGAAATTC-AGTTGCGAATTTGAA-ATTCCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTG-AATTCGAGTTACGAATTTGAATA-T-CGCGTTGCGAATTTGACTTATGT
* * * *
6347800 GTTGCGAATTTGACTTCTGTGTTACGAATTTGACTATCGTGTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGAATTC-GAGTTACGAATTTGAATATCGCGTTGCGAATTTGACTTATGT
6347860 GTTGCGA
1 GTTGCGA
6347867 TTTACAAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
59 4 0.07
60 40 0.69
61 13 0.22
62 1 0.02
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.41
Consensus pattern (59 bp):
GTTGCGAATTTGAATTCGAGTTACGAATTTGAATATCGCGTTGCGAATTTGACTTATGT
Found at i:6347853 original size:20 final size:20
Alignment explanation
Indices: 6347780--6347866 Score: 115
Period size: 20 Copynumber: 4.3 Consensus size: 20
6347770 GAAATTCCGC
* *
6347780 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGT
6347800 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GT
*
6347820 GTTACGAATTTGACTATCGT
1 GTTGCGAATTTGACTATCGT
6347840 GTTGCGAATTTGACTTAT-GT
1 GTTGCGAATTTGAC-TATCGT
6347860 GTTGCGA
1 GTTGCGA
6347867 TTTACAAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.02
20 55 0.90
21 5 0.08
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGT
Found at i:6347884 original size:20 final size:20
Alignment explanation
Indices: 6347861--6347906 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6347851 GACTTATGTG
6347861 TTGCGATTTACAAATTCGCA
1 TTGCGATTTACAAATTCGCA
* *
6347881 TTGCGATTTACAGATTCGCG
1 TTGCGATTTACAAATTCGCA
6347901 TTGCGA
1 TTGCGA
6347907 AAATGGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATTTACAAATTCGCA
Found at i:6347885 original size:40 final size:40
Alignment explanation
Indices: 6347801--6347886 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
6347791 GACTTTTGTG
* * **
6347801 TTGCGAATTTGACTTCTGTGTTACGAATTTGACTATCGTG
1 TTGCGAATTTGACTTATGTGTTACGAATTTGACAATCGCA
*
6347841 TTGCGAATTTGACTTATGTGTTGCG-ATTT-ACAAATTCGCA
1 TTGCGAATTTGACTTATGTGTTACGAATTTGAC-AA-TCGCA
6347881 TTGCGA
1 TTGCGA
6347887 TTTACAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
38 2 0.05
39 5 0.13
40 32 0.82
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (40 bp):
TTGCGAATTTGACTTATGTGTTACGAATTTGACAATCGCA
Found at i:6358515 original size:21 final size:22
Alignment explanation
Indices: 6358473--6358522 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
6358463 GAACAATATT
6358473 GATACCATATGGAAGAGGTATC
1 GATACCATATGGAAGAGGTATC
6358495 GATACCTATATGG-AG-GGTATC
1 GATACC-ATATGGAAGAGGTATC
6358516 GATACCA
1 GATACCA
6358523 GGGAACATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 8 0.30
23 6 0.22
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (22 bp):
GATACCATATGGAAGAGGTATC
Found at i:6361653 original size:66 final size:64
Alignment explanation
Indices: 6361546--6361708 Score: 154
Period size: 66 Copynumber: 2.5 Consensus size: 64
6361536 TTTGTTGAAG
* * * * *
6361546 GTGCATCGATGCACATGGAGTGTATCGATGCA-CTCATTTAAAATAAATGAACATCGAAT-GCCA
1 GTGCATCGATGCATAAGAAGTGCATCGATGCACCTCA-TTAAAATAAA--AACATAGAATAG-CA
6361609 TTA
62 TTA
* *
6361612 GTGCATCGATGCATAAGAAGTGCATCGATGCACCTGC-TTAAAATACAAACATAGAATAGGATTA
1 GTGCATCGATGCATAAGAAGTGCATCGATGCACCT-CATTAAAATAAAAACATAGAATAGCATTA
* ** *
6361676 -TGCACCGATGCATGGGTAGTGCATCGATGCACC
1 GTGCATCGATGCATAAGAAGTGCATCGATGCACC
6361709 CGTCAAGGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
63 29 0.35
64 13 0.16
65 1 0.01
66 37 0.45
67 2 0.02
68 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATAAGAAGTGCATCGATGCACCTCATTAAAATAAAAACATAGAATAGCATTA
Found at i:6362282 original size:22 final size:22
Alignment explanation
Indices: 6362257--6362334 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
6362247 TGATATATTA
*
6362257 GTCATTCGGGATGTATCCAGTG
1 GTCATTCGGGACGTATCCAGTG
6362279 GTCATTCGGGACGTATCCAGTG
1 GTCATTCGGGACGTATCCAGTG
* *
6362301 GTCCTTCAGGACGTATCCAGTG
1 GTCATTCGGGACGTATCCAGTG
*
6362323 GTCCTTCGGGAC
1 GTCATTCGGGAC
6362335 AAATACTGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.28
Consensus pattern (22 bp):
GTCATTCGGGACGTATCCAGTG
Found at i:6366528 original size:22 final size:22
Alignment explanation
Indices: 6366503--6366558 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
6366493 GGGTATATTA
* *
6366503 GTCCTTTGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
**
6366525 GTCCTTCAAGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
6366547 GTCCTTCGGGAC
1 GTCCTTCGGGAC
6366559 ATAGTGGTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:6366566 original size:18 final size:18
Alignment explanation
Indices: 6366543--6366577 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6366533 AGACGTATCC
*
6366543 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
6366561 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
6366578 AATACTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:6369192 original size:21 final size:21
Alignment explanation
Indices: 6369154--6369205 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
6369144 ATGTATGGGG
* *
6369154 TATCGATACATGTATGAACAA
1 TATCGATACCTATATGAACAA
* * *
6369175 TATCGATACCTATGTGAAGAG
1 TATCGATACCTATATGAACAA
6369196 TATCGATACC
1 TATCGATACC
6369206 AGGGAACATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (21 bp):
TATCGATACCTATATGAACAA
Found at i:6371407 original size:19 final size:19
Alignment explanation
Indices: 6371361--6371414 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
6371351 AGGGTGTCAA
*
6371361 AGTGCATCCATGCACCCTGT
1 AGTGCATCCATGCA-CCTGC
*
6371381 AGTACATCCATGCACCTGC
1 AGTGCATCCATGCACCTGC
6371400 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
6371415 TGTGCATCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (19 bp):
AGTGCATCCATGCACCTGC
Found at i:6371421 original size:15 final size:15
Alignment explanation
Indices: 6371401--6371430 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6371391 TGCACCTGCA
6371401 GTGCATCCATGCACT
1 GTGCATCCATGCACT
*
6371416 GTGCATCGATGCACT
1 GTGCATCCATGCACT
6371431 CCATTTCGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (15 bp):
GTGCATCCATGCACT
Found at i:6371563 original size:21 final size:21
Alignment explanation
Indices: 6371537--6371587 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
6371527 GAAGGGGTAT
6371537 CGATGCACCTTGATAGTGTAC
1 CGATGCACCTTGATAGTGTAC
6371558 CGATGCACCTTGATAGTGTAC
1 CGATGCACCTTGATAGTGTAC
6371579 CGATGCACC
1 CGATGCACC
6371588 ATGTTATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (21 bp):
CGATGCACCTTGATAGTGTAC
Found at i:6372980 original size:19 final size:19
Alignment explanation
Indices: 6372941--6372980 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6372931 AAGATTGAAA
*
6372941 TTAGGGTGTTTTTAAAGTT
1 TTAGGGTGTTTTTAAAATT
6372960 TTAGGG-GTTTTTAATAATT
1 TTAGGGTGTTTTTAA-AATT
6372979 TT
1 TT
6372981 GAAATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (19 bp):
TTAGGGTGTTTTTAAAATT
Found at i:6373953 original size:2 final size:2
Alignment explanation
Indices: 6373946--6373989 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6373936 TTTCCCTAAT
6373946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6373988 TA
1 TA
6373990 AACAAACTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6382895 original size:14 final size:14
Alignment explanation
Indices: 6382876--6382904 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6382866 ATAGTCAATA
6382876 AGATAAGAACTTGT
1 AGATAAGAACTTGT
6382890 AGATAAGAACTTGT
1 AGATAAGAACTTGT
6382904 A
1 A
6382905 TTGATGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AGATAAGAACTTGT
Found at i:6385221 original size:2 final size:2
Alignment explanation
Indices: 6385214--6385251 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6385204 ATTTTTAAGA
6385214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6385252 TTATTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6385277 original size:23 final size:23
Alignment explanation
Indices: 6385248--6385291 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6385238 ATATATATAT
*
6385248 ATATTTATTTATTTATAAATAAG
1 ATATTTATTTATTTAGAAATAAG
6385271 ATATTTATTTATTTAGAAATA
1 ATATTTATTTATTTAGAAATA
6385292 TCAGAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
ATATTTATTTATTTAGAAATAAG
Found at i:6385613 original size:3 final size:3
Alignment explanation
Indices: 6385607--6385638 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6385597 ACATATATTT
*
6385607 ATA ATA ATA ATA ATA ATA TTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6385639 GAAATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:6386895 original size:3 final size:3
Alignment explanation
Indices: 6386887--6386945 Score: 82
Period size: 3 Copynumber: 19.0 Consensus size: 3
6386877 AATATTTATT
* *
6386887 TAA TAA TAA TAAA TAA TAA TAA TAA TAA TGTA TAA TGA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
6386934 TAA TAA TAA TAA
1 TAA TAA TAA TAA
6386946 ATAAAAGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 45 0.90
4 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6387324 original size:73 final size:73
Alignment explanation
Indices: 6387205--6387534 Score: 543
Period size: 73 Copynumber: 4.5 Consensus size: 73
6387195 TAAAATCTCA
* ** *
6387205 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGCTTTAAAATCAAAAAGCTCCC
1 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
6387270 GAAGGCTT
66 GAAGGCTT
* * *
6387278 TTTGAAAACATCATGCACTGGAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCTC
1 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
6387343 GAAGGCTTT
66 GAAGGC-TT
* *
6387352 TTTGAAAACATCATGCACTTTAGGTCTTACAGATGACCCTGAGGCTTTAATATCAAAAAGCTCCC
1 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
6387417 GAAGGCTT
66 GAAGGCTT
6387425 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
1 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
6387490 GAAGGCTT
66 GAAGGCTT
* * *
6387498 TTTGAAAACATCCTGCACTGAAGGGCTTACAGATGAC
1 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGAC
6387535 TTGAAGGTTT
Statistics
Matches: 240, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
73 171 0.71
74 69 0.29
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (73 bp):
TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
GAAGGCTT
Found at i:6387472 original size:147 final size:146
Alignment explanation
Indices: 6387205--6387534 Score: 552
Period size: 147 Copynumber: 2.3 Consensus size: 146
6387195 TAAAATCTCA
** *
6387205 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGCTTTAAAATCAAAAAGCTCCC
1 TTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
*
6387270 GAAGGCTTTTTGAAAACATCATGCACTGGAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAA
66 GAAGGCTTTTTGAAAACATCATGCACTGGAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAA
*
6387335 AAGCTCTCGAAGGCTTT
131 AAGCTCCCGAAGGC-TT
* * *
6387352 TTTGAAAACATCATGCACTTTAGGTCTTACAGATGACCCTGAGGCTTTAATATCAAAAAGCTCCC
1 TTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
*
6387417 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAA
66 GAAGGCTTTTTGAAAACATCATGCACTGGAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAA
6387482 AAGCTCCCGAAGGCTT
131 AAGCTCCCGAAGGCTT
* *
6387498 TTTGAAAACATCCTGCACTGAAGGGCTTACAGATGAC
1 TTTGAAAACATCCTGCACTGTAGGTCTTACAGATGAC
6387535 TTGAAGGTTT
Statistics
Matches: 170, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
146 35 0.21
147 135 0.79
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (146 bp):
TTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCC
GAAGGCTTTTTGAAAACATCATGCACTGGAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAA
AAGCTCCCGAAGGCTT
Found at i:6387556 original size:45 final size:45
Alignment explanation
Indices: 6387487--6387757 Score: 425
Period size: 45 Copynumber: 6.0 Consensus size: 45
6387477 TCAAAAAGCT
* *
6387487 CCCGAAGGCTTTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
** * *
6387534 CTTGAAGGTTTTGAAAATATCCTGCACTGAAGGACTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
6387579 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
6387624 CCCGAAGGTTTTGAAAACATCATGCACTGAAAGACTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
6387669 CCCGAAGGTTTTGAAAACATCCTGCACTGAAGGACTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
6387714 CCCGAAGGTTTTGAAAACATCATGCACTGAGGGGCTTACAGATG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATG
6387758 TGGGAAATAG
Statistics
Matches: 208, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 202 0.97
47 6 0.03
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:6388453 original size:20 final size:22
Alignment explanation
Indices: 6388417--6388493 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
6388407 AATAAAGCTC
*
6388417 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
*
6388439 TTATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
*
6388461 TCATATTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
6388483 TCATCTTTGAA
1 TCATCTTTGAA
6388494 TAGTGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:6392238 original size:32 final size:32
Alignment explanation
Indices: 6392197--6392258 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6392187 GAAGAAATGA
* * *
6392197 TTGTTATGCTTATATGGTAGAGATATTTCTCG
1 TTGTTATGCTCATATCGTAGAGATACTTCTCG
*
6392229 TTGTTATGCTCATCTCGTAGAGATACTTCT
1 TTGTTATGCTCATATCGTAGAGATACTTCT
6392259 TGTTTCCAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (32 bp):
TTGTTATGCTCATATCGTAGAGATACTTCTCG
Found at i:6392738 original size:20 final size:20
Alignment explanation
Indices: 6392713--6392751 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6392703 TCTTGGTTCA
6392713 ATTTTTTCCT-TTTTCTTTTT
1 ATTTTTTCCTCTTTT-TTTTT
6392733 ATTTTTTCCTCTTTTTTTT
1 ATTTTTTCCTCTTTTTTTT
6392752 CTTTCTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTTTTCCTCTTTTTTTTT
Found at i:6395511 original size:8 final size:8
Alignment explanation
Indices: 6395498--6395550 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
6395488 AAATGTAATT
*
6395498 ATGCAAAG
1 ATGCAAAA
6395506 ATGC--AA
1 ATGCAAAA
6395512 ATGCAAAA
1 ATGCAAAA
*
6395520 ATGAAAAAA
1 ATG-CAAAA
6395529 ATGCAAAA
1 ATGCAAAA
6395537 ATGC-AAA
1 ATGCAAAA
6395544 ATGCAAA
1 ATGCAAA
6395551 TGCAAATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 5 0.13
7 7 0.18
8 19 0.50
9 7 0.18
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.13
Consensus pattern (8 bp):
ATGCAAAA
Found at i:6395532 original size:17 final size:18
Alignment explanation
Indices: 6395510--6395544 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
6395500 GCAAAGATGC
6395510 AAATGCAAAAATG-AAAA
1 AAATGCAAAAATGCAAAA
6395527 AAATGCAAAAATGCAAAA
1 AAATGCAAAAATGCAAAA
6395545 TGCAAATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (18 bp):
AAATGCAAAAATGCAAAA
Found at i:6395792 original size:43 final size:43
Alignment explanation
Indices: 6395712--6395794 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
6395702 GCATTAAAAA
* *
6395712 AAAACTTTACTTATAGGGGACAACTTTCAATCGTAACTTCAAC
1 AAAACTTTACATATAGGGGACAACTTTCAATCCTAACTTCAAC
* * **
6395755 AAAACTTTACATATATGGGATAACTTTCCCTCCTAACTTC
1 AAAACTTTACATATAGGGGACAACTTTCAATCCTAACTTC
6395795 TCTAAAGCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (43 bp):
AAAACTTTACATATAGGGGACAACTTTCAATCCTAACTTCAAC
Found at i:6397760 original size:26 final size:25
Alignment explanation
Indices: 6397695--6397789 Score: 81
Period size: 26 Copynumber: 3.8 Consensus size: 25
6397685 ATTTAAATAC
6397695 TGAAAATAA-AATA-A-AAATATTA
1 TGAAAATAATAATATATAAATATTA
** *
6397717 AAAAAATAATATACATATAAATATTA
1 TGAAAATAATA-ATATATAAATATTA
* *
6397743 TGAAAATAATAAGTATATAAAAATTT
1 TGAAAATAATAA-TATATAAATATTA
*
6397769 TGAAAAGAAATAAT-TATAAAT
1 TGAAAA-TAATAATATATAAAT
6397790 TAAATATATA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
22 7 0.12
23 1 0.02
24 2 0.04
25 8 0.14
26 34 0.60
27 5 0.09
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (25 bp):
TGAAAATAATAATATATAAATATTA
Found at i:6398646 original size:3 final size:3
Alignment explanation
Indices: 6398640--6398668 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6398630 ACATATATTT
6398640 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6398669 TAAATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6400006 original size:3 final size:3
Alignment explanation
Indices: 6399998--6400072 Score: 87
Period size: 3 Copynumber: 24.0 Consensus size: 3
6399988 AATATTTATT
* * *
6399998 TAA TAA TAA TAA TAAA TAT TAA TAA AAA TAA TAA TGTA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
6400045 TAA TAA TAA TAA TAA TAAA TAA AAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA
6400073 ACTGAAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 53 0.87
4 8 0.13
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6400021 original size:19 final size:18
Alignment explanation
Indices: 6399997--6400062 Score: 87
Period size: 19 Copynumber: 3.6 Consensus size: 18
6399987 TAATATTTAT
6399997 TTAATAATAATAATAAATA
1 TTAATAATAATAAT-AATA
* *
6400016 TTAATAAAAATAATAATG
1 TTAATAATAATAATAATA
6400034 TATAATAATAATAATAATA
1 T-TAATAATAATAATAATA
*
6400053 ATAATAATAA
1 TTAATAATAA
6400063 ATAAAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 13 0.32
19 28 0.68
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TTAATAATAATAATAATA
Found at i:6400029 original size:25 final size:25
Alignment explanation
Indices: 6399999--6400073 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
6399989 ATATTTATTT
*
6399999 AATAATAATAATAAATATTAATAAA
1 AATAATAATAATAAATAATAATAAA
* *
6400024 AATAATAAT-GTATAATAATAATAAT
1 AATAATAATAATA-AATAATAATAAA
*
6400049 AATAATAATAATAAATAAAAATAAA
1 AATAATAATAATAAATAATAATAAA
6400074 CTGAAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 38 0.90
26 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (25 bp):
AATAATAATAATAAATAATAATAAA
Found at i:6400030 original size:22 final size:21
Alignment explanation
Indices: 6400002--6400072 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
6399992 TTTATTTAAT
6400002 AATAATAATAAATATTAATAAA
1 AATAATAAT-AATATTAATAAA
* * *
6400024 AATAATAATGTATAATAATAAT
1 AATAATAAT-AATATTAATAAA
*
6400046 AATAATAATAATAATAAATAAA
1 AATAATAATAAT-ATTAATAAA
6400068 AATAA
1 AATAA
6400073 ACTGAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (21 bp):
AATAATAATAATATTAATAAA
Found at i:6402400 original size:42 final size:44
Alignment explanation
Indices: 6402351--6402436 Score: 124
Period size: 42 Copynumber: 2.0 Consensus size: 44
6402341 TATGAATATT
*
6402351 TTAAAATAATATATT-TATAATTA-TTTATTATGTTTTA-AATTA
1 TTAAAATAATATATTATATAATAATTTTA-TATGTTTTATAATTA
*
6402393 TTAAAATAATATATTATATAATAATTTTATATTTTTTATAATTA
1 TTAAAATAATATATTATATAATAATTTTATATGTTTTATAATTA
6402437 AAGAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 15 0.38
43 15 0.38
44 9 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (44 bp):
TTAAAATAATATATTATATAATAATTTTATATGTTTTATAATTA
Found at i:6402430 original size:43 final size:43
Alignment explanation
Indices: 6402351--6402436 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
6402341 TATGAATATT
*
6402351 TTAAAATAATATATTTATAATTATTTATTATGTTTTA-AATTA
1 TTAAAATAATATATTTATAATAATTTATTATGTTTTATAATTA
*
6402393 TTAAAATAATATATTATATAATAATTT-TATATTTTTTATAATTA
1 TTAAAATAATATATT-TATAATAATTTAT-TATGTTTTATAATTA
6402437 AAGAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 16 0.41
43 18 0.46
44 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (43 bp):
TTAAAATAATATATTTATAATAATTTATTATGTTTTATAATTA
Found at i:6402437 original size:41 final size:43
Alignment explanation
Indices: 6402351--6402456 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 43
6402341 TATGAATATT
* *
6402351 TTAAAATAATATATT-TATAATTATTTATTATGTTTTAAATTA
1 TTAAAATAATATATTATATAATAATTTATTATGTTTTAAATAA
*
6402393 TTAAAATAATATATTATATAATAATTT-TATAT-TTTT-TATAA
1 TTAAAATAATATATTATATAATAATTTAT-TATGTTTTAAATAA
* *
6402434 TTAAAGAAAATATTTTA-ATAATA
1 TTAAA-ATAATATATTATATAATA
6402457 TAAAAATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
41 14 0.25
42 29 0.52
43 13 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (43 bp):
TTAAAATAATATATTATATAATAATTTATTATGTTTTAAATAA
Found at i:6403770 original size:6 final size:6
Alignment explanation
Indices: 6403761--6403789 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6403751 CTTACCCAAA
6403761 CCCACT CCCACT CCCACT CCCACT CCCAC
1 CCCACT CCCACT CCCACT CCCACT CCCAC
6403790 CAAAATCAAC
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:0.69, G:0.00, T:0.14
Consensus pattern (6 bp):
CCCACT
Found at i:6403776 original size:18 final size:18
Alignment explanation
Indices: 6403755--6403789 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6403745 AATTCCCTTA
6403755 CCCAAACCCACTCCCACT
1 CCCAAACCCACTCCCACT
**
6403773 CCCACTCCCACTCCCAC
1 CCCAAACCCACTCCCAC
6403790 CAAAATCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.66, G:0.00, T:0.11
Consensus pattern (18 bp):
CCCAAACCCACTCCCACT
Found at i:6405912 original size:178 final size:178
Alignment explanation
Indices: 6405613--6405969 Score: 687
Period size: 178 Copynumber: 2.0 Consensus size: 178
6405603 ATCACTACGG
6405613 TTGTGCTTACTATTGTGATCATTTGTTGTTGTATCCTGGGAGACCGACATCCAACGTTACTCAAA
1 TTGTGCTTACTATTGTGATCATTTGTTGTTGTATCCTGGGAGACCGACATCCAACGTTACTCAAA
* *
6405678 GCATCGAGGAGAGGATGAATCTGTCTTAAGGAAGCTGTTCATACAATACAAGCCTCAACAAAAAT
66 GCACCGAGGAGAGGATGAATCTGTCTTAAAGAAGCTGTTCATACAATACAAGCCTCAACAAAAAT
6405743 CCTTCTTCGGTTTATCATACTCTACTCATCCGATTAATTGTCTAAATA
131 CCTTCTTCGGTTTATCATACTCTACTCATCCGATTAATTGTCTAAATA
*
6405791 TTGTGCTTACTATTGTGATCATTTGTTGTTGTATCTTGGGAGACCGACATCCAACGTTACTCAAA
1 TTGTGCTTACTATTGTGATCATTTGTTGTTGTATCCTGGGAGACCGACATCCAACGTTACTCAAA
6405856 GCACCGAGGAGAGGATGAATCTGTCTTAAAGAAGCTGTTCATACAATACAAGCCTCAACAAAAAT
66 GCACCGAGGAGAGGATGAATCTGTCTTAAAGAAGCTGTTCATACAATACAAGCCTCAACAAAAAT
6405921 CCTTCTTCGGTTTATCATACTCTACTCATCCGATTAATTGTCTAAATA
131 CCTTCTTCGGTTTATCATACTCTACTCATCCGATTAATTGTCTAAATA
6405969 T
1 T
6405970 GAGTAAACCA
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 176 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (178 bp):
TTGTGCTTACTATTGTGATCATTTGTTGTTGTATCCTGGGAGACCGACATCCAACGTTACTCAAA
GCACCGAGGAGAGGATGAATCTGTCTTAAAGAAGCTGTTCATACAATACAAGCCTCAACAAAAAT
CCTTCTTCGGTTTATCATACTCTACTCATCCGATTAATTGTCTAAATA
Found at i:6406237 original size:2 final size:2
Alignment explanation
Indices: 6406230--6406296 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
6406220 GTGAATCCAA
6406230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6406272 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6406297 GTTATAATTC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6411971 original size:25 final size:25
Alignment explanation
Indices: 6411937--6411985 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6411927 GATGCAAGGC
6411937 GCTTTGACTGTCACAAAACATAGAT
1 GCTTTGACTGTCACAAAACATAGAT
6411962 GCTTTGACTGTCACAAAACATAGA
1 GCTTTGACTGTCACAAAACATAGA
6411986 GACATACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (25 bp):
GCTTTGACTGTCACAAAACATAGAT
Found at i:6414529 original size:15 final size:15
Alignment explanation
Indices: 6414509--6414542 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6414499 CCATAGGACC
* *
6414509 ACTACATCTCGAAGT
1 ACTACATCCCGAAGG
6414524 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
6414539 ACTA
1 ACTA
6414543 TTATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:6415124 original size:64 final size:64
Alignment explanation
Indices: 6415055--6415211 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 64
6415045 TAATGAAGGT
* * **
6415055 ATGCATCGATGCACTACTTGTGCATCGGTGC-ATAAAATGCATTCGATGTTT-TATTATTAATGG
1 ATGCATCGATGCACTACTTATGCATCGATGCAAT-AAATGCATTCGATGTTTATATT-TTAAAAG
6415118 A
64 A
* * *
6415119 ATGCATCTATGCA-TGCCTTATGCATCGATGCAATAATTGCATTCGATGTTTATATTTTAAAAGA
1 ATGCATCGATGCACT-ACTTATGCATCGATGCAATAAATGCATTCGATGTTTATATTTTAAAAGA
*
6415183 GTGCATCGATGCACTACTTATGCATCGAT
1 ATGCATCGATGCACTACTTATGCATCGAT
6415212 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 71 0.90
65 7 0.09
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCAATAAATGCATTCGATGTTTATATTTTAAAAGA
Found at i:6418711 original size:16 final size:16
Alignment explanation
Indices: 6418690--6418733 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
6418680 CCAAGGTGAT
6418690 ACACTTGGTCTAATAA
1 ACACTTGGTCTAATAA
6418706 ACACTTGGTCTAATAA
1 ACACTTGGTCTAATAA
* *
6418722 ACCCTTTGTCTA
1 ACACTTGGTCTA
6418734 GTAACTCCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (16 bp):
ACACTTGGTCTAATAA
Found at i:6421598 original size:29 final size:29
Alignment explanation
Indices: 6421556--6421658 Score: 172
Period size: 29 Copynumber: 3.5 Consensus size: 29
6421546 TGTCCATACA
*
6421556 CTCATGTCATTTCTCGTGTGATCATGTAG
1 CTCATGTCATTTCTCTTGTGATCATGTAG
6421585 CTCATGTCATTTCTCTTGTGATCATGTAG
1 CTCATGTCATTTCTCTTGTGATCATGTAG
6421614 CTCATGTCATTTCGT-TTGTGATCATGTAG
1 CTCATGTCATTTC-TCTTGTGATCATGTAG
6421643 CTCATGTCATGTTCTC
1 CTCATGTCAT-TTCTC
6421659 ATATCACATA
Statistics
Matches: 70, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
29 66 0.94
30 4 0.06
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (29 bp):
CTCATGTCATTTCTCTTGTGATCATGTAG
Found at i:6422111 original size:64 final size:64
Alignment explanation
Indices: 6422038--6422191 Score: 179
Period size: 64 Copynumber: 2.4 Consensus size: 64
6422028 TGAAGGTATG
* **
6422038 CATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGATGTTT-TATTATTAATGGAAT
1 CATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATGTTTATATT-TTAAAAGAAT
6422101 A
64 A
* * * * *
6422102 CATCGATGCA-TACCTTATGCATCAATGCACTAATTGCATTCGATGTTTATATTTTAAAAGAGTG
1 CATCGATGCACTA-CTTGTGCATCGATGCACTAAATGCATTCGATGTTTATATTTTAAAAGAATA
*
6422166 CATCGATGCACTACCTGTGCATCGAT
1 CATCGATGCACTACTTGTGCATCGAT
6422192 ACACCTTCAA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
63 2 0.03
64 66 0.88
65 7 0.09
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (64 bp):
CATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTATATTTTAAAAGAATA
Found at i:6423645 original size:68 final size:68
Alignment explanation
Indices: 6423565--6423697 Score: 257
Period size: 68 Copynumber: 2.0 Consensus size: 68
6423555 GAAGAATCTG
*
6423565 AACTACATGAGGCAACAGAGGCTTCTGCTTCTAGCAAAGTCTCTCCCTTCAGCATGTACAAGTTT
1 AACTACATGAGGCAACAGAGGCTTATGCTTCTAGCAAAGTCTCTCCCTTCAGCATGTACAAGTTT
6423630 CTA
66 CTA
6423633 AACTACATGAGGCAACAGAGGCTTATGCTTCTAGCAAAGTCTCTCCCTTCAGCATGTACAAGTTT
1 AACTACATGAGGCAACAGAGGCTTATGCTTCTAGCAAAGTCTCTCCCTTCAGCATGTACAAGTTT
6423698 GCTGATATCT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (68 bp):
AACTACATGAGGCAACAGAGGCTTATGCTTCTAGCAAAGTCTCTCCCTTCAGCATGTACAAGTTT
CTA
Found at i:6426240 original size:18 final size:17
Alignment explanation
Indices: 6426217--6426254 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
6426207 CATTTAAAAA
*
6426217 AATAATTAATTAATGAAT
1 AATAATTAATGAAT-AAT
6426235 AATAATTAATGAATAAT
1 AATAATTAATGAATAAT
6426252 AAT
1 AAT
6426255 TCATTTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
AATAATTAATGAATAAT
Found at i:6426242 original size:14 final size:14
Alignment explanation
Indices: 6426217--6426255 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
6426207 CATTTAAAAA
6426217 AATAATTAATTAATG
1 AATAA-TAATTAATG
6426232 AATAATAATTAATG
1 AATAATAATTAATG
6426246 AATAATAATT
1 AATAATAATT
6426256 CATTTGATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (14 bp):
AATAATAATTAATG
Found at i:6426845 original size:337 final size:329
Alignment explanation
Indices: 6426259--6426859 Score: 1058
Period size: 337 Copynumber: 1.8 Consensus size: 329
6426249 AATAATTCAT
6426259 TTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTTAAACAATTAATTTTA
1 TTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTTAAACAATTAATTTTA
* *
6426324 AAAGTCAATAAATTTTTCAAAAATATATAAATTTATAATTTTTTAAATTATAAAATATTTATTAT
66 AAAGTCAATAAATTTTTAAAAAATATATAAATTTATAATTTTTTAAATTATAAAATACTTATTAT
* *
6426389 CATCATCATCATTTTGTAAAAGAAATATTGGTTATAAAACTTTTATAAAATTATTCATATTTTAA
131 CATCATCATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTTATAAAATTATTCATATTTTAA
*
6426454 AATACTTACCCTCAAAGTTTTCCTATACTAGATTATATGTATTGTGTAATTTCATGCAAAAATCA
196 AATACTTACCCTCAAAGTTTTCCTATACTAGATTATACGTATTGTGTAATTTCATGCAAAAATCA
6426519 AAATAATTTTATTAAAAATGAATAACATTATTAACTGTTGTTAAAAATATAATAATTAATAAAAA
261 AAATAATTTTATTAAAAATGAATAACATTATTAACTGTTGTTAAAAATATAATAATTAATAAAAA
6426584 ATAA
326 ATAA
6426588 TTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTATTTTATATTTTTAAACAATTAATT
1 TTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATA-TT-TTTTATA-TTTTAAACAATTAATT
*
6426653 TTAAAAGTCAATAAATTTTTAAAAAAATATATGAAATTTATAATTTTTTAAATTATAAAGTACTT
63 TTAAAAGTCAATAAATTTTT-AAAAAATATAT-AAATTTATAATTTTTTAAATTATAAAATACTT
*
6426718 ATTATCATCATCATCTTCATTTTGTAAAAGAAATACTAGTTATAAAACTTTTATAAAGTTATTCA
126 ATTATCATCATCA---TCATTTTGTAAAAGAAATACTAGTTATAAAACTTTTATAAAATTATTCA
*
6426783 TATTTTAAAATATTTACCCTCAAAGTTTTCCTATACTAGATTATACGTATTGTGTAATTTCATGC
188 TATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAGATTATACGTATTGTGTAATTTCATGC
6426848 AAAAATCAAAAT
253 AAAAATCAAAAT
6426860 GTATCTAGTT
Statistics
Matches: 256, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
329 37 0.14
330 2 0.01
331 7 0.03
332 36 0.14
333 10 0.04
334 43 0.17
337 121 0.47
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (329 bp):
TTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTTAAACAATTAATTTTA
AAAGTCAATAAATTTTTAAAAAATATATAAATTTATAATTTTTTAAATTATAAAATACTTATTAT
CATCATCATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTTATAAAATTATTCATATTTTAA
AATACTTACCCTCAAAGTTTTCCTATACTAGATTATACGTATTGTGTAATTTCATGCAAAAATCA
AAATAATTTTATTAAAAATGAATAACATTATTAACTGTTGTTAAAAATATAATAATTAATAAAAA
ATAA
Found at i:6428860 original size:21 final size:20
Alignment explanation
Indices: 6428836--6428899 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
6428826 AACTTTGAAA
6428836 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
6428857 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
6428871 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
6428892 AAATGTTT
1 AAATGTTT
6428900 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:6428942 original size:36 final size:36
Alignment explanation
Indices: 6428828--6428949 Score: 167
Period size: 35 Copynumber: 3.4 Consensus size: 36
6428818 TGGTAACCAA
6428828 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
6428865 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
6428900 CTTTGAAAAATAGTTTTTCAAAGTTTAGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
6428937 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
6428950 AATGGGATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:6433469 original size:21 final size:20
Alignment explanation
Indices: 6433445--6433508 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
6433435 AACTTTGAAA
6433445 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
6433466 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
6433480 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
6433501 AAATGTTT
1 AAATGTTT
6433509 CTTTGATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:6433483 original size:35 final size:35
Alignment explanation
Indices: 6433444--6433514 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
6433434 CAACTTTGAA
6433444 AAAATGATTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGATTTTCAAAGTTTGGTAAATGTTTCTTTG
*
6433479 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGATTTTCAAAGTTTGGTAAATGTTTCTTTG
6433514 A
1 A
6433515 TGGTAGATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (35 bp):
AAAATGATTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:6436240 original size:35 final size:35
Alignment explanation
Indices: 6436201--6436267 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
6436191 ATAATGTTTA
6436201 CTAAAAGTTAGAATAGTAAAATATATATACATTTG
1 CTAAAAGTTAGAATAGTAAAATATATATACATTTG
*
6436236 CTAAAAGTTAGAATAGTTAAATATATATACAT
1 CTAAAAGTTAGAATAGTAAAATATATATACAT
6436268 ATGAACACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.34
Consensus pattern (35 bp):
CTAAAAGTTAGAATAGTAAAATATATATACATTTG
Found at i:6438341 original size:3 final size:3
Alignment explanation
Indices: 6438333--6438385 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
6438323 CCTGCAAATG
* * * *
6438333 TAA TAA TAA TAA TAT TAA TAA TAG TAT TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6438381 TAA TA
1 TAA TA
6438386 TAAACCCGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:6439245 original size:17 final size:16
Alignment explanation
Indices: 6439206--6439247 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6439196 CAAATGGAAC
6439206 GTAATAAAA-GTTAAA
1 GTAATAAAATGTTAAA
*
6439221 GTACTAAAATGATTAAA
1 GTAATAAAATG-TTAAA
*
6439238 TTAATAAAAT
1 GTAATAAAAT
6439248 TGAGGGGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 8 0.36
16 1 0.05
17 13 0.59
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (16 bp):
GTAATAAAATGTTAAA
Found at i:6443720 original size:23 final size:23
Alignment explanation
Indices: 6443693--6443749 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
6443683 CGATTTTATG
*
6443693 TTAAAAAATGATCTTATAAAATT
1 TTAAAAAACGATCTTATAAAATT
* *
6443716 TTAAAGAACGATTTTATAAAATT
1 TTAAAAAACGATCTTATAAAATT
* *
6443739 TCAAAGAACGA
1 TTAAAAAACGA
6443750 AAATATGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (23 bp):
TTAAAAAACGATCTTATAAAATT
Found at i:6443872 original size:19 final size:19
Alignment explanation
Indices: 6443848--6443886 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6443838 TAAACTTTTA
6443848 AAATTTTTAA-AAAATAAAT
1 AAATTTTTAATAAAA-AAAT
6443867 AAATTTTTAATAAAAAAAT
1 AAATTTTTAATAAAAAAAT
6443886 A
1 A
6443887 TTTAAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTTTTAATAAAAAAAT
Found at i:6445556 original size:21 final size:20
Alignment explanation
Indices: 6445511--6445557 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
6445501 ATTGTTTACC
*
6445511 TTTTAGTTTTATTAAGTTAA
1 TTTTATTTTTATTAAGTTAA
6445531 TTTTATTTTTATATAA-TTATA
1 TTTTATTTTTAT-TAAGTTA-A
6445552 TTTTAT
1 TTTTAT
6445558 AAAACTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATTTTTATTAAGTTAA
Found at i:6451059 original size:18 final size:18
Alignment explanation
Indices: 6451036--6451087 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
6451026 CAACCCCTCC
6451036 ACAAGTGCCACCCCTAAT
1 ACAAGTGCCACCCCTAAT
*
6451054 ACAAGTTCCACCCCTAAT
1 ACAAGTGCCACCCCTAAT
6451072 ACAAGTGCCACCCCTA
1 ACAAGTGCCACCCCTA
6451088 GGACTCTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.40, G:0.10, T:0.17
Consensus pattern (18 bp):
ACAAGTGCCACCCCTAAT
Found at i:6453835 original size:20 final size:20
Alignment explanation
Indices: 6453802--6453842 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6453792 CACCACGTCA
6453802 CCTTACGTCCACATATAATT
1 CCTTACGTCCACATATAATT
* * *
6453822 CCTTATGTCTACATATTATT
1 CCTTACGTCCACATATAATT
6453842 C
1 C
6453843 TTCTGAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (20 bp):
CCTTACGTCCACATATAATT
Found at i:6453928 original size:19 final size:19
Alignment explanation
Indices: 6453904--6453940 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6453894 TAATCACAAA
6453904 ACAAAACAAAGTAAAAATC
1 ACAAAACAAAGTAAAAATC
* *
6453923 ACAAAATAAAGTGAAAAT
1 ACAAAACAAAGTAAAAAT
6453941 TTATTGGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.11, G:0.08, T:0.14
Consensus pattern (19 bp):
ACAAAACAAAGTAAAAATC
Found at i:6454833 original size:50 final size:50
Alignment explanation
Indices: 6454779--6454877 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
6454769 TATTTGGTTG
6454779 AAATAAGTATACATTTATAAATTTGTATTCAATTAAATAAAAATATATAT
1 AAATAAGTATACATTTATAAATTTGTATTCAATTAAATAAAAATATATAT
6454829 AAATAAGTATACATTTATAAATTTGTATTCAATTAAATAAAAATATATA
1 AAATAAGTATACATTTATAAATTTGTATTCAATTAAATAAAAATATATA
6454878 ATTTATAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (50 bp):
AAATAAGTATACATTTATAAATTTGTATTCAATTAAATAAAAATATATAT
Found at i:6454849 original size:18 final size:18
Alignment explanation
Indices: 6454779--6454850 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 18
6454769 TATTTGGTTG
*
6454779 AAATAAGTATACATTTAT
1 AAATAAGTATACATATAT
** *
6454797 AAATTTGTATTCA-AT-T
1 AAATAAGTATACATATAT
* *
6454813 AAATAA--AAATATATAT
1 AAATAAGTATACATATAT
*
6454829 AAATAAGTATACATTTAT
1 AAATAAGTATACATATAT
6454847 AAAT
1 AAAT
6454851 TTGTATTCAA
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
14 2 0.05
15 2 0.05
16 12 0.32
17 1 0.03
18 21 0.55
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (18 bp):
AAATAAGTATACATATAT
Found at i:6454925 original size:37 final size:37
Alignment explanation
Indices: 6454836--6454927 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
6454826 TATAAATAAG
* **
6454836 TATACATTTATAAATTTGTATTCAATTAAATAAAAATA
1 TATA-ATTTAAAAATTTACATTCAATTAAATAAAAATA
*
6454874 TATAATTTATAAATTTACATTCAATTAAA-ACATAAATA
1 TATAATTTAAAAATTTACATTCAATTAAATA-A-AAATA
*
6454912 TATTA-TTAAAAATTTA
1 TATAATTTAAAAATTTA
6454928 TATTTGATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 1 0.02
37 34 0.71
38 13 0.27
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (37 bp):
TATAATTTAAAAATTTACATTCAATTAAATAAAAATA
Found at i:6457030 original size:32 final size:32
Alignment explanation
Indices: 6456945--6457033 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
6456935 TCACATAAAT
* *
6456945 CAAAATGATTATGTGACATGTTCCATGTCACC
1 CAAAATGATAATGTGACATGTGCCATGTCACC
* * ** *
6456977 TAAAGTGATAACATGATATGTGCCATGTCACC
1 CAAAATGATAATGTGACATGTGCCATGTCACC
*
6457009 CAAAATGATGATGTGACATGTGCCA
1 CAAAATGATAATGTGACATGTGCCA
6457034 CATCAACAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (32 bp):
CAAAATGATAATGTGACATGTGCCATGTCACC
Found at i:6458698 original size:38 final size:38
Alignment explanation
Indices: 6458625--6458786 Score: 158
Period size: 38 Copynumber: 4.4 Consensus size: 38
6458615 TTATTGAAGG
*
6458625 ATTTATATTCAATTAAAATTTG-AATACATTATTTATGA
1 ATTTATATTCAATTAAAA-TTGAAATATATTATTTATGA
* * *
6458663 ATTTATATTCAATTGAAATTGAAATATATTGTTTATAA
1 ATTTATATTCAATTAAAATTGAAATATATTATTTATGA
** **
6458701 ATTTATATTTGATT-AAATACAAAT-TA-TATTTATGA
1 ATTTATATTCAATTAAAATTGAAATATATTATTTATGA
*
6458736 ATTTATATT-AATTAAAATAT-TAATATATTA-TTATGA
1 ATTTATATTCAATTAAAAT-TGAAATATATTATTTATGA
* *
6458772 ATATATATTCGATTA
1 ATTTATATTCAATTA
6458787 GAATACAATA
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
34 3 0.03
35 23 0.22
36 18 0.17
37 17 0.17
38 42 0.41
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (38 bp):
ATTTATATTCAATTAAAATTGAAATATATTATTTATGA
Found at i:6458736 original size:73 final size:72
Alignment explanation
Indices: 6458654--6458794 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 72
6458644 TTGAATACAT
* * * *
6458654 TATTTATGAATTTATATTCAATTGAAAT-TGAAATATATTGTTTATAAATTTATATTTGATTA-A
1 TATTTATGAATTTATATT-AATTAAAATAT-AAATATATT-ATTATAAATATATATTCGATTAGA
6458717 ATACAAATTA
63 ATACAAATTA
* *
6458727 TATTTATGAATTTATATTAATTAAAATATTAATATATTATTATGAATATATATTCGATTAGAATA
1 TATTTATGAATTTATATTAATTAAAATATAAATATATTATTATAAATATATATTCGATTAGAATA
6458792 CAA
66 CAA
6458795 TATTGTAGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
71 18 0.30
72 23 0.38
73 19 0.32
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (72 bp):
TATTTATGAATTTATATTAATTAAAATATAAATATATTATTATAAATATATATTCGATTAGAATA
CAAATTA
Found at i:6458797 original size:36 final size:34
Alignment explanation
Indices: 6458647--6458797 Score: 101
Period size: 36 Copynumber: 4.1 Consensus size: 34
6458637 TTAAAATTTG
* *
6458647 AATACATTATTTATGAATTTATATTCAATTGAAATTGA-
1 AATATATTA-TTATGAATTTATATT-GATT-AAA-T-AC
* *
6458685 AATATATTGTTTATAAATTTATATTTGATTAAATAC
1 AATATATT-ATTATGAATTTATA-TTGATTAAATAC
* *
6458721 AA-AT-TATATTTATGAATTTATATTAATTAAAATATT
1 AATATAT-TA-TTATGAATTTATATTGATT-AAATA-C
*
6458757 AATATATTATTATGAATATATATTCGATTAGAATAC
1 AATATATTATTATGAATTTATATT-GATTA-AATAC
6458793 AATAT
1 AATAT
6458798 TGTAGTTCCG
Statistics
Matches: 91, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
34 6 0.07
35 21 0.23
36 25 0.27
37 14 0.15
38 23 0.25
39 2 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (34 bp):
AATATATTATTATGAATTTATATTGATTAAATAC
Found at i:6461819 original size:12 final size:11
Alignment explanation
Indices: 6461798--6461843 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
6461788 TAACAATTAT
6461798 AAAAAATAAAA
1 AAAAAATAAAA
6461809 AAAAAAGTAAAA
1 AAAAAA-TAAAA
*
6461821 ACAAAAATAGAAT
1 A-AAAAATA-AAA
6461834 AAAAAATAAA
1 AAAAAATAAA
6461844 TACAAGTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 8 0.26
12 15 0.48
13 8 0.26
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (11 bp):
AAAAAATAAAA
Done.