Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 171 of 199
Found at i:49919631 original size:13 final size:13
Alignment explanation
Indices: 49919613--49919644 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
49919603 ATTGTTGTGT
49919613 AAAAGTGATTTTG
1 AAAAGTGATTTTG
*
49919626 AGAAGTGATTTTG
1 AAAAGTGATTTTG
49919639 AAAAGT
1 AAAAGT
49919645 TTAGTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (13 bp):
AAAAGTGATTTTG
Found at i:49920146 original size:10 final size:10
Alignment explanation
Indices: 49920131--49920166 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
49920121 TAAAAGTTGT
49920131 TTGTTTAGTA
1 TTGTTTAGTA
49920141 TTGTTTAGTA
1 TTGTTTAGTA
49920151 TTGTTTAGTA
1 TTGTTTAGTA
49920161 TTGTTT
1 TTGTTT
49920167 GTGATTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.19, T:0.64
Consensus pattern (10 bp):
TTGTTTAGTA
Found at i:49920591 original size:30 final size:30
Alignment explanation
Indices: 49920550--49920606 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
49920540 TAACAAGCAA
* *
49920550 ATGCCTCTAAAATAATTACAAAGTTAACAT
1 ATGCCTCTAAAATAATAACAAAATTAACAT
*
49920580 ATGCCTTTAAAATAATAACAAAATTAA
1 ATGCCTCTAAAATAATAACAAAATTAA
49920607 TAATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (30 bp):
ATGCCTCTAAAATAATAACAAAATTAACAT
Found at i:49921062 original size:19 final size:20
Alignment explanation
Indices: 49921038--49921075 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49921028 TAATTGCTAT
*
49921038 TATTA-TTAAATTACTTAAA
1 TATTATTTAAATTAATTAAA
49921057 TATTATTTAAATTAATTAA
1 TATTATTTAAATTAATTAA
49921076 TTTAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTATTTAAATTAATTAAA
Found at i:49927133 original size:16 final size:17
Alignment explanation
Indices: 49927109--49927141 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49927099 GGGTCTTGAG
49927109 AATTCCATA-TTATAAT
1 AATTCCATATTTATAAT
*
49927125 AATTTCATATTTATAAT
1 AATTCCATATTTATAAT
49927142 TATATTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTCCATATTTATAAT
Found at i:49945021 original size:23 final size:23
Alignment explanation
Indices: 49944995--49945040 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
49944985 ACTAACAAAG
49944995 TATAATCGTTCATAGGCCGCTTC
1 TATAATCGTTCATAGGCCGCTTC
*
49945018 TATAATCGTTGATAGGCCGCTTC
1 TATAATCGTTCATAGGCCGCTTC
49945041 ATCCGTCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (23 bp):
TATAATCGTTCATAGGCCGCTTC
Found at i:49945947 original size:19 final size:20
Alignment explanation
Indices: 49945886--49945948 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
49945876 AAAAAAAATT
*
49945886 ATTTTAAAAAATCA-TTAAA
1 ATTTTAAAAAATTATTTAAA
* *
49945905 ATTATTAAAAAATATTTTTTAA
1 ATT-TTAAAAAAT-TATTTAAA
49945927 ATTTT-AAAAATTATTTAAA
1 ATTTTAAAAAATTATTTAAA
49945946 ATT
1 ATT
49945949 AAGCTGACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 12 0.33
20 15 0.42
21 2 0.06
22 7 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTAAAAAATTATTTAAA
Found at i:49950845 original size:9 final size:9
Alignment explanation
Indices: 49950831--49950866 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
49950821 GGTCATGGCA
49950831 TATGAAAGT
1 TATGAAAGT
49950840 TATGAAAGT
1 TATGAAAGT
*
49950849 TATGAAAGA
1 TATGAAAGT
49950858 TATGAAAGT
1 TATGAAAGT
49950867 CCGCACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (9 bp):
TATGAAAGT
Found at i:49955168 original size:21 final size:21
Alignment explanation
Indices: 49955140--49955194 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
49955130 ATATTTCTTT
*
49955140 TGAA-CCTCTGCTTCTCTCGC
1 TGAAGCCTCTGCTTCCCTCGC
*
49955160 TGAAGCCTCTGCTTCCCTCTC
1 TGAAGCCTCTGCTTCCCTCGC
**
49955181 TGCCGCCTCTGCTT
1 TGAAGCCTCTGCTT
49955195 TAAGTTGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.07, C:0.42, G:0.16, T:0.35
Consensus pattern (21 bp):
TGAAGCCTCTGCTTCCCTCGC
Found at i:49955172 original size:87 final size:87
Alignment explanation
Indices: 49955058--49955234 Score: 239
Period size: 87 Copynumber: 2.0 Consensus size: 87
49955048 TCCTACTCTG
* ** * * *
49955058 CTCTGCTTCTCTCGCTGCAGCCTCTGCTTTTCTGGATGCCGCATCAGCTTTAAGTTGCT-GTTGG
1 CTCTGCTTCTCTCGCTGAAGCCTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTTG-TAGCTGA
*
49955122 AGTTCTTCATATTTCTTTTGAAC
65 AGTTCTTCATATTTCCTTTGAAC
** * *
49955145 CTCTGCTTCTCTCGCTGAAGCCTCTGCTTCCCTCTCTGCCGCCTCTGCTTTAAGTTGTAGCTGAA
1 CTCTGCTTCTCTCGCTGAAGCCTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTTGTAGCTGAA
49955210 GTTCTTCATATTTCCTTTGAAC
66 GTTCTTCATATTTCCTTTGAAC
49955232 CTC
1 CTC
49955235 AACTGTGGTC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 77 0.99
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCTCTCGCTGAAGCCTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTTGTAGCTGAA
GTTCTTCATATTTCCTTTGAAC
Found at i:49958275 original size:9 final size:9
Alignment explanation
Indices: 49958261--49958528 Score: 206
Period size: 9 Copynumber: 32.2 Consensus size: 9
49958251 TAAGGGATAT
49958261 TTATGTAAG
1 TTATGTAAG
49958270 TTATGTAAG
1 TTATGTAAG
49958279 TTATGT-A-
1 TTATGTAAG
* *
49958286 TTAAGTAAA
1 TTATGTAAG
49958295 TTATGTAAG
1 TTATGTAAG
49958304 TTATGT-A-
1 TTATGTAAG
49958311 TTAACTG-AA-
1 TT-A-TGTAAG
49958320 TTATGTAAG
1 TTATGTAAG
49958329 TTATGT-A-
1 TTATGTAAG
*
49958336 TTATGTGAG
1 TTATGTAAG
49958345 TTATGTAAG
1 TTATGTAAG
*
49958354 TTGTGT-A-
1 TTATGTAAG
* *
49958361 TTATGAAAC
1 TTATGTAAG
49958370 TTATGTAAG
1 TTATGTAAG
*
49958379 TTATGT--C
1 TTATGTAAG
*
49958386 TTATGTAGG
1 TTATGTAAG
49958395 TTATGTAAG
1 TTATGTAAG
49958404 TTATGT-A-
1 TTATGTAAG
* *
49958411 TTAAGTAAA
1 TTATGTAAG
49958420 TTATGTAAG
1 TTATGTAAG
*
49958429 -T-TGT--C
1 TTATGTAAG
*
49958434 TTATATAAG
1 TTATGTAAG
49958443 TTATGTAAG
1 TTATGTAAG
49958452 TTATGT-A-
1 TTATGTAAG
49958459 TTATGTAAG
1 TTATGTAAG
49958468 TTATGTAAG
1 TTATGTAAG
*
49958477 TTGTGT-A-
1 TTATGTAAG
*
49958484 TTATGTAAA
1 TTATGTAAG
*
49958493 ATATGTAAG
1 TTATGTAAG
*
49958502 TTATGT--C
1 TTATGTAAG
49958509 TTATGTAAG
1 TTATGTAAG
49958518 TTATGTAAG
1 TTATGTAAG
49958527 TT
1 TT
49958529 TTTTGTTTTT
Statistics
Matches: 208, Mismatches: 26, Indels: 50
0.73 0.09 0.18
Matches are distributed among these distances:
6 1 0.00
7 52 0.25
8 18 0.09
9 137 0.66
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:49958293 original size:25 final size:25
Alignment explanation
Indices: 49958261--49958528 Score: 346
Period size: 25 Copynumber: 10.8 Consensus size: 25
49958251 TAAGGGATAT
49958261 TTATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
49958286 TTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
49958311 TTAACTG-AA-TTATGTAAGTTATGTA
1 TT-A-TGTAAGTTATGTAAGTTATGTA
* *
49958336 TTATGTGAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
49958361 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
49958386 TTATGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
49958411 TTAAGTAAATTATGTAAG-T-TGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
49958434 TTATATAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
49958459 TTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
** *
49958484 TTATGTAAAATATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
49958509 TTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTT
49958529 TTTTGTTTTT
Statistics
Matches: 207, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
23 20 0.10
24 4 0.02
25 179 0.86
26 3 0.01
27 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTATGTA
Found at i:49958957 original size:113 final size:114
Alignment explanation
Indices: 49958784--49959185 Score: 449
Period size: 113 Copynumber: 3.5 Consensus size: 114
49958774 ATTTGTAAGT
** * *
49958784 GCCGCAAAATACCTTAACCAAAACGCTGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTT
1 GCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTT
*
49958849 ACGATAAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGC
66 ACGATAAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGC
* * * **
49958898 GCCGC-AAATATCTTAATCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTGTTAGTGGCGTTT
1 GCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCG-TT
* * * * ****
49958962 TA-AAAAAAACGCCGTAAAAGAACA-TCATTAGTGGCGT-TTATTTTTAAGC
65 TACGATAAAACGCCGCAAAAGAACAGT-ATTAGCGGCGTATTA-CAAAAAGC
* * *
49959011 GCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTT
1 GCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTT
*
49959076 ACGATAAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGC
66 ACGATAAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGC
* ** * * * *
49959125 GCCAC-AAATATCGGT-ACTAAAATGCACCGTTTGGTGTTGAGG-AGGATTAGTATTAGTGGCG
1 GCCGCAAAATA-CCTTAACCAAAACGCACCGTTTGGTTTTGAGGTA-GATTAGAATTAGTGGCG
49959186 CTTATTAAAG
Statistics
Matches: 234, Mismatches: 45, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
112 5 0.02
113 130 0.56
114 95 0.41
115 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (114 bp):
GCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTT
ACGATAAAACGCCGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGC
Found at i:49959085 original size:114 final size:114
Alignment explanation
Indices: 49958721--49959112 Score: 454
Period size: 114 Copynumber: 3.4 Consensus size: 114
49958711 AAACCCGAAC
** * * *
49958721 AATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACA-TCATTAGTGGCGTTTATTTGTAAGTG
1 AATTAGTGGCGTTTACAAAAAAACGCCGTAAAAGAACAGT-ATTAGCGGCGTTTATTTATAAGCG
**
49958785 CCGCAAAATACCTTAACCAAAACGCTGCGTTTGGTTTTGAGGTATATTAG
65 CCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAG
* * * * * ** *
49958835 AATTCGTGGCGTTTACGATAAAACGACGCAAAAGAACAGTATTAGCGGCGTATTA-CAAAAAGCG
1 AATTAGTGGCGTTTACAAAAAAACGCCGTAAAAGAACAGTATTAGCGGCGT-TTATTTATAAGCG
* * * * *
49958899 CCGC-AAATATCTTAATCAAAACGCACCGTTTGGTCTTGAGGTAGATTAG
65 CCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAG
** * *
49958948 TGTTAGTGGCGTTTTA-AAAAAAACGCCGTAAAAGAACA-TCATTAGTGGCGTTTATTTTTAAGC
1 AATTAGTGGCG-TTTACAAAAAAACGCCGTAAAAGAACAGT-ATTAGCGGCGTTTATTTATAAGC
*
49959011 GCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAA
64 GCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAG
* *
49959062 AATTAGTGGCGTTTACGATAAAACGCCGCT-AAAGAACAGTATTAGCGGCGT
1 AATTAGTGGCGTTTACAAAAAAACGCCG-TAAAAGAACAGTATTAGCGGCGT
49959113 ATTACAAAAA
Statistics
Matches: 227, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
112 4 0.02
113 88 0.39
114 129 0.57
115 6 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (114 bp):
AATTAGTGGCGTTTACAAAAAAACGCCGTAAAAGAACAGTATTAGCGGCGTTTATTTATAAGCGC
CGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAG
Found at i:49959118 original size:227 final size:226
Alignment explanation
Indices: 49958722--49959203 Score: 761
Period size: 227 Copynumber: 2.1 Consensus size: 226
49958712 AACCCGAACA
*
49958722 ATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGTGCC
1 ATTAGTGGCG-TTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCC
** * *
49958787 GCAAAATACCTTAACCAAAACGCTGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTTACG
65 GCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACG
* *
49958852 ATAAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCGCAAATATC-TTAATC
130 ATAAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAAT-
49958916 AAAACGCACCGTTTGGTCTTGAGGTA-GATTAGT
194 AAAACGCACCGTTTGGTCTTGAGG-AGGATTAGT
* *
49958949 GTTAGTGGCGTTTTAAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTTTAAGCGCC
1 ATTAGTGGCGTTTT-AAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCC
49959014 GCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACG
65 GCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACG
* * *
49959079 ATAAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTACTA
130 ATAAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAATA
* *
49959144 AAATGCACCGTTTGGTGTTGAGGAGGATTAGT
195 AAACGCACCGTTTGGTCTTGAGGAGGATTAGT
*
49959176 ATTAGTGGCGCTTATTAAAGAAACGCCG
1 ATTAGTGGCG-TT-TTAAAAAAACGCCG
49959204 CCAAATATCG
Statistics
Matches: 234, Mismatches: 16, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
226 5 0.02
227 211 0.90
228 16 0.07
229 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (226 bp):
ATTAGTGGCGTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCG
CAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTACGA
TAAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAATAA
AACGCACCGTTTGGTCTTGAGGAGGATTAGT
Found at i:49959200 original size:114 final size:111
Alignment explanation
Indices: 49958722--49959204 Score: 361
Period size: 114 Copynumber: 4.2 Consensus size: 111
49958712 AACCCGAACA
* * **** *
49958722 ATTAGTGGCGTTTTTAAAAAAACGCCG-TAAAAGAACA-TCATTAGTGGCGT-TTATTTGTAAGT
1 ATTAGTGGCGTTATT-AAAAAACGCCGCT-AAAGAACAGT-ATTAGCGGCGTATTA-CAAAAAGC
* * ** * * *
49958784 GCCGCAAAATACCTTAACCAAAACGCTGCGTTTGGTTTTGAGGTATATTAGA
62 GCCGC-AAATATCTT-ACTAAAACGCACCGTTTGGTCTTGAGGTAGATTAGT
* ** * * *
49958836 ATTCGTGGCGTTTACGATAAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCC
1 ATTAGTGGCG-TTATTAAAAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCC
*
49958901 GCAAATATCTTAATCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGT
65 GCAAATATCTTACT-AAAACGCACCGTTTGGTCTTGAGGTAGATTAGT
* * ****
49958949 GTTAGTGGCGTT-TTAAAAAAAACGCCG-TAAAAGAACA-TCATTAGTGGCGT-TTATTTTTAAG
1 ATTAGTGGCGTTATT--AAAAAACGCCGCT-AAAGAACAGT-ATTAGCGGCGTATTA-CAAAAAG
* * * * * **
49959010 CGCCGCAAAATACCTTAACCAAAACGCAACGTTTGGTTTTGAGGTATATTAAA
61 CGCCGC-AAATATCTT-ACTAAAACGCACCGTTTGGTCTTGAGGTAGATTAGT
** *
49959063 ATTAGTGGCGTTTACGATAAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCC
1 ATTAGTGGCG-TTATTAAAAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCC
* * * *
49959128 ACAAATATCGGTACTAAAATGCACCGTTTGGTGTTGAGG-AGGATTAGT
65 GCAAATATC-TTACTAAAACGCACCGTTTGGTCTTGAGGTA-GATTAGT
49959176 ATTAGTGGCGCTTATTAAAGAAACGCCGC
1 ATTAGTGGCG-TTATTAAA-AAACGCCGC
49959205 CAAATATCGG
Statistics
Matches: 285, Mismatches: 64, Indels: 40
0.73 0.16 0.10
Matches are distributed among these distances:
112 8 0.03
113 128 0.45
114 135 0.47
115 14 0.05
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (111 bp):
ATTAGTGGCGTTATTAAAAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCG
CAAATATCTTACTAAAACGCACCGTTTGGTCTTGAGGTAGATTAGT
Found at i:49962659 original size:44 final size:44
Alignment explanation
Indices: 49962596--49962688 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
49962586 GCTTCTATTA
*
49962596 TTGTTCATTACTGTTTTTTTGAATGGTTTAGGGTGTTAGGAACT
1 TTGTTCATTACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACT
49962640 TTGTTCATTACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACT
1 TTGTTCATTACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACT
*
49962684 GTGTT
1 TTGTT
49962689 TAACTATTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.17, C:0.08, G:0.26, T:0.49
Consensus pattern (44 bp):
TTGTTCATTACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACT
Found at i:49962702 original size:44 final size:44
Alignment explanation
Indices: 49962604--49962704 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
49962594 TATTGTTCAT
* * * *
49962604 TACTGTTTTTTTGAATGGTTTAGGGTGTTAGGAACTTTGTTCAT
1 TACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACTGTGTTAAC
49962648 TACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACTGTGTTTAAC
1 TACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACTGTG-TTAAC
*
49962693 TATTGTTTTTTT
1 TACTGTTTTTTT
49962705 TCTCCAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 37 0.73
45 14 0.27
ACGTcount: A:0.18, C:0.07, G:0.24, T:0.51
Consensus pattern (44 bp):
TACTGTTTTTTTGAACGGTTTAGGGTGTTAGGAACTGTGTTAAC
Found at i:49963411 original size:20 final size:20
Alignment explanation
Indices: 49963373--49963411 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49963363 TTCATTTTGT
* *
49963373 GGTTTGTAAACTATGAATTC
1 GGTTTCTAAACTATCAATTC
*
49963393 GGTTTCTAAACTTTCAATT
1 GGTTTCTAAACTATCAATT
49963412 TATGGTTTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
GGTTTCTAAACTATCAATTC
Found at i:49963939 original size:17 final size:17
Alignment explanation
Indices: 49963917--49963963 Score: 66
Period size: 13 Copynumber: 3.0 Consensus size: 17
49963907 ATATCTATAC
49963917 AAGTTTTCTAAATTTAT
1 AAGTTTTCTAAATTTAT
49963934 AAGTTTTCTAAA---A-
1 AAGTTTTCTAAATTTAT
49963947 AAGTTTTCTAAATTTAT
1 AAGTTTTCTAAATTTAT
49963964 TTGTATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.46
14 1 0.04
16 1 0.04
17 12 0.46
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (17 bp):
AAGTTTTCTAAATTTAT
Found at i:49963979 original size:16 final size:15
Alignment explanation
Indices: 49963955--49963993 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
49963945 AAAAGTTTTC
*
49963955 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
49963970 TAAGATTTATTAGTAT
1 TAA-ATTTATTAGTAT
49963986 TAAATTTA
1 TAAATTTA
49963994 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:49964315 original size:32 final size:29
Alignment explanation
Indices: 49964269--49964349 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
49964259 ACATAAACTT
* *
49964269 ATTATGTAACAACATAATAAACTACATAATA
1 ATTATATAATAACATAATAAACT-CA-AATA
*
49964300 CATTATATAATAACATAAT-AACTTAAATA
1 -ATTATATAATAACATAATAAACTCAAATA
49964329 ACTTATATAATAACATAATAA
1 A-TTATATAATAACATAATAA
49964350 CATAATAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 1 0.02
29 21 0.48
30 2 0.05
31 4 0.09
32 16 0.36
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (29 bp):
ATTATATAATAACATAATAAACTCAAATA
Found at i:49964319 original size:8 final size:8
Alignment explanation
Indices: 49964306--49964358 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
49964296 AATACATTAT
49964306 ATAATAAC
1 ATAATAAC
49964314 ATAATAAC
1 ATAATAAC
*
49964322 TTAAATAAC
1 AT-AATAAC
49964331 TTATATAATAAC
1 ----ATAATAAC
49964343 ATAATAAC
1 ATAATAAC
49964351 ATAATAAC
1 ATAATAAC
49964359 TAACATACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 25 0.66
9 6 0.16
12 6 0.16
13 1 0.03
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.30
Consensus pattern (8 bp):
ATAATAAC
Found at i:49964334 original size:29 final size:28
Alignment explanation
Indices: 49964292--49964359 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 28
49964282 ATAATAAACT
49964292 ACATAAT-ACATTATATAATAACATAATA
1 ACATAATAAC-TTATATAATAACATAATA
*
49964320 ACTTAAATAACTTATATAATAACATAATA
1 ACAT-AATAACTTATATAATAACATAATA
49964349 ACATAATAACT
1 ACATAATAACT
49964360 AACATACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 10 0.28
29 24 0.67
30 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ACATAATAACTTATATAATAACATAATA
Found at i:49964415 original size:9 final size:9
Alignment explanation
Indices: 49964387--49964793 Score: 346
Period size: 9 Copynumber: 46.2 Consensus size: 9
49964377 CATATATAGA
*
49964387 AACTAACAT
1 AACTTACAT
* *
49964396 AAATTAAAT
1 AACTTACAT
49964405 AACTTACAT
1 AACTTACAT
49964414 AACTTACAT
1 AACTTACAT
*
49964423 AAATTA-AGT
1 AACTTACA-T
49964432 AACTTACAT
1 AACTTACAT
49964441 AACTTACAT
1 AACTTACAT
*
49964450 AAACTTGCAT
1 -AACTTACAT
* *
49964460 AAATTAAAT
1 AACTTACAT
49964469 AACTTACAT
1 AACTTACAT
49964478 AACTTACAT
1 AACTTACAT
*
49964487 AACCTACAT
1 AACTTACAT
* *
49964496 AAATTAAAT
1 AACTTACAT
49964505 AACTTACAT
1 AACTTACAT
49964514 AACTTACAT
1 AACTTACAT
*
49964523 AAATTA-AGT
1 AACTTACA-T
49964532 AACTTACAT
1 AACTTACAT
49964541 AACTTACAT
1 AACTTACAT
*
49964550 AAACTTGCAT
1 -AACTTACAT
* *
49964560 AAATTAAAT
1 AACTTACAT
49964569 AACTTACAT
1 AACTTACAT
*
49964578 AACCTACAT
1 AACTTACAT
*
49964587 AAATTA-AGT
1 AACTTACA-T
49964596 AACTTACAT
1 AACTTACAT
49964605 AACTTACAT
1 AACTTACAT
*
49964614 AAACTTGCAT
1 -AACTTACAT
* *
49964624 AAATTAAAT
1 AACTTACAT
49964633 AACTTACAT
1 AACTTACAT
49964642 AACTTACAT
1 AACTTACAT
*
49964651 TA--TACAT
1 AACTTACAT
*
49964658 AACCTT-CTT
1 AA-CTTACAT
49964667 AACTTACAT
1 AACTTACAT
* *
49964676 TA-TT-CAC
1 AACTTACAT
*
49964683 AACTCACAT
1 AACTTACAT
49964692 AA-TTA-AT
1 AACTTACAT
* *
49964699 -ATTATACAC
1 AACT-TACAT
49964708 AACTTACAT
1 AACTTACAT
49964717 AA--TACAT
1 AACTTACAT
*
49964724 TACTTACAT
1 AACTTACAT
49964733 AACTTACAT
1 AACTTACAT
*
49964742 TACTTACAGT
1 AACTTACA-T
49964752 -ACTTACAT
1 AACTTACAT
49964760 AA--TACAT
1 AACTTACAT
49964767 AA--TACAT
1 AACTTACAT
*
49964774 AACTTAGAT
1 AACTTACAT
49964783 AACTTACAT
1 AACTTACAT
49964792 AA
1 AA
49964794 TACATAAAAA
Statistics
Matches: 318, Mismatches: 55, Indels: 50
0.75 0.13 0.12
Matches are distributed among these distances:
6 1 0.00
7 32 0.10
8 14 0.04
9 240 0.75
10 31 0.10
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:49964462 original size:64 final size:64
Alignment explanation
Indices: 49964387--49964650 Score: 383
Period size: 64 Copynumber: 4.1 Consensus size: 64
49964377 CATATATAGA
* * *
49964387 AACTAACATAAATTAAATAACTTACATAACTTACATAAA-TT-AAGTAACTTACATAACTTACAT
1 AACTTACATAAATTAAATAACTTACATAACTTACATAAACTTGAA-TAAATTAAATAACTTACAT
* *
49964450 AAACTTGCATAAATTAAATAACTTACATAACTTACAT-AACCT-ACATAAATTAAATAACTTACA
1 -AACTTACATAAATTAAATAACTTACATAACTTACATAAACTTGA-ATAAATTAAATAACTTACA
49964513 T
64 T
* *
49964514 AACTTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAACTTACATAACTTACATAAACTTGAATAAATTAAATAACTTACAT
* * *
49964578 AACCTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAACTTACATAACTTACATAAACTTGAATAAATTAAATAACTTACAT
49964642 AACTTACAT
1 AACTTACAT
49964651 TATACATAAC
Statistics
Matches: 185, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
63 36 0.19
64 148 0.80
65 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (64 bp):
AACTTACATAAATTAAATAACTTACATAACTTACATAAACTTGAATAAATTAAATAACTTACAT
Found at i:49964772 original size:66 final size:65
Alignment explanation
Indices: 49964637--49964793 Score: 160
Period size: 66 Copynumber: 2.4 Consensus size: 65
49964627 TTAAATAACT
* *
49964637 TACATAACTTACATTATACATAACCTTCTTAACTTACATTATTCACAACTCACATAATTAATATT
1 TACATAACTTACATAATACATAACCTTCATAACTTACATTATTCACAACTCACATAATTAATA-T
49964702 A
65 A
* * *
49964703 TACACAACTTACATAATACATTA-CTTACATAACTTACATTACTT-ACAGTACTTACATAA-TAC
1 TACATAACTTACATAATACATAACCTT-CATAACTTACATTA-TTCACA--ACTCACATAATTA-
49964765 ATA-A
61 ATATA
*
49964769 TACATAACTTAGATAACTTACATAA
1 TACATAACTTACATAA--TACATAA
49964794 TACATAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
65 3 0.04
66 51 0.67
67 4 0.05
68 18 0.24
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.35
Consensus pattern (65 bp):
TACATAACTTACATAATACATAACCTTCATAACTTACATTATTCACAACTCACATAATTAATATA
Found at i:49964779 original size:32 final size:33
Alignment explanation
Indices: 49964409--49964800 Score: 171
Period size: 37 Copynumber: 11.2 Consensus size: 33
49964399 TTAAATAACT
*
49964409 TACATAACTTACATAAATTA-AGTAACTTACATAA
1 TACATAAC-TACATAACTTACA-TAACTTACATAA
* * *
49964443 CTTACATAAACTTGCATAAATTAAATAACTTACATAA
1 --TACAT-AAC-TACATAACTTACATAACTTACATAA
* *
49964480 CTTACATAACCTACATAAATTAAATAACTTACATAA
1 --TACATAA-CTACATAACTTACATAACTTACATAA
*
49964516 CTTACATAAATTA-AGTAACTTACATAACTTACATAAA
1 --TACAT-AACTACA-TAACTTACATAACTTACAT-AA
* * * *
49964553 CTTGCATAAATTAAATAACTTACATAACCTACATAAA
1 --TACAT-AACTACATAACTTACATAACTTACAT-AA
*
49964590 TTA-AGTAACTTACATAACTTACATAAACTTGCATAAA
1 -TACA-TAAC-TACATAACTTACAT-AACTTACAT-AA
* *
49964627 TTAAATAACTTACATAACTTACATTA--TACATAA
1 -TACATAAC-TACATAACTTACATAACTTACATAA
* * * * *
49964660 CCTTCTTAACTTACATTA-TT-CACAACTCACATAA
1 --TACATAAC-TACATAACTTACATAACTTACATAA
* *
49964694 TTA-ATATTA-TACACAACTTACATAA--TACATTACT
1 -TACATA--ACTACATAACTTACATAACTTACA-TA-A
*
49964728 TACATAACTTACATTACTTACAGT-ACTTACATAA
1 TACATAAC-TACATAACTTACA-TAACTTACATAA
*
49964762 TACATAA-TACATAACTTAGATAACTTACATAA
1 TACATAACTACATAACTTACATAACTTACATAA
49964794 TACATAA
1 TACATAA
49964801 AAATATATCA
Statistics
Matches: 294, Mismatches: 35, Indels: 58
0.76 0.09 0.15
Matches are distributed among these distances:
31 1 0.00
32 42 0.14
33 11 0.04
34 49 0.17
35 7 0.02
36 78 0.27
37 103 0.35
38 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (33 bp):
TACATAACTACATAACTTACATAACTTACATAA
Found at i:49970343 original size:21 final size:21
Alignment explanation
Indices: 49970317--49970366 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
49970307 CTACAACTTA
*
49970317 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* **
49970338 AAGCAGAAGTTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
49970359 AAGCAGAG
1 AAGCAGAG
49970367 CAGGCCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:49970735 original size:42 final size:42
Alignment explanation
Indices: 49970685--49970977 Score: 430
Period size: 42 Copynumber: 6.9 Consensus size: 42
49970675 TTTTGTATAA
*
49970685 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCT
* * *
49970727 AAGCGCCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTTCT
1 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGC-GTTTTTTTCT
49970770 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCT
*
49970812 AAGCGCCGCTAAAGAACA-TGATCTTTAGAGGCGTTTTTTTTCT
1 AAGCGCCGCTAAAGAACATTG-TCTTTAGCGGCG-TTTTTTTCT
* *
49970855 AAGCGCCGCTAAAGAACA-TGTTCTTTAGCGGTGTTTTTTTCA
1 AAGCGCCGCTAAAGAACATTG-TCTTTAGCGGCGTTTTTTTCT
49970897 AAGCGCCGCTAAAGAACA-TGTTCTTTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATTG-TCTTTAGCGGCGTTTTTTT-CT
* *
49970940 AAGCGCCGCTAAATAACATGGTCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTT
49970978 GTTTGTAAAC
Statistics
Matches: 231, Mismatches: 15, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
41 2 0.01
42 115 0.50
43 113 0.49
44 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCT
Found at i:49970779 original size:43 final size:43
Alignment explanation
Indices: 49970685--49970977 Score: 448
Period size: 43 Copynumber: 6.9 Consensus size: 43
49970675 TTTTGTATAA
* *
49970685 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGC-ATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCT
* *
49970727 AAGCGCCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCT
*
49970770 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCG-TTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCT
* *
49970812 AAGCGCCGCTAAAGAACATGATCTTTAGAGGCGTTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCT
* * *
49970855 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGTG-TTTTTTTCA
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCT
* *
49970897 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCT
*
49970940 AAGCGCCGCTAAATAACATGGTCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
49970978 GTTTGTAAAC
Statistics
Matches: 230, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
42 109 0.47
43 121 0.53
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCT
Found at i:49970818 original size:85 final size:85
Alignment explanation
Indices: 49970685--49970977 Score: 480
Period size: 85 Copynumber: 3.4 Consensus size: 85
49970675 TTTTGTATAA
* *
49970685 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
*
49970750 TTTAGAGGCATTTTTTTTCT
66 TTTAGAGGCGTTTTTTTTCT
49970770 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
49970835 TTTAGAGGCGTTTTTTTTCT
66 TTTAGAGGCGTTTTTTTTCT
* * *
49970855 AAGCGCCGCTAAAGAACA-TGTTCTTTAGCGGTGTTTTTTTCAAAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATTG-TCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
* *
49970919 CTTTAGCGGCGTTTTTTTCCT
65 CTTTAGAGGCGTTTTTTTTCT
* *
49970940 AAGCGCCGCTAAATAACATGGTCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTT
49970978 GTTTGTAAAC
Statistics
Matches: 195, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
84 2 0.01
85 192 0.98
86 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
TTTAGAGGCGTTTTTTTTCT
Found at i:49971216 original size:12 final size:12
Alignment explanation
Indices: 49971199--49971236 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
49971189 AAGTTATGTA
49971199 TTATTATGTAAG
1 TTATTATGTAAG
*
49971211 TTATTATGTAGG
1 TTATTATGTAAG
*
49971223 ATATTATGTAAG
1 TTATTATGTAAG
49971235 TT
1 TT
49971237 TTTGTTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:49972134 original size:18 final size:19
Alignment explanation
Indices: 49972100--49972137 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49972090 TTTCCTTAAA
49972100 TAAAATAAATAGAATGATT
1 TAAAATAAATAGAATGATT
*
49972119 TAAAATAGAT-GAATGATT
1 TAAAATAAATAGAATGATT
49972137 T
1 T
49972138 TTAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (19 bp):
TAAAATAAATAGAATGATT
Found at i:49974003 original size:115 final size:115
Alignment explanation
Indices: 49973866--49974126 Score: 468
Period size: 115 Copynumber: 2.3 Consensus size: 115
49973856 ATGATAGTCC
** *
49973866 TTTTACGGCGTTTTACAAAAAACGCCACTAAAATTTTGCATCAAAACGTACCGTTTCGCAGTATC
1 TTTTACGGCGTTTTGTATAAAACGCCACTAAAATTTTGCATCAAAACGTACCGTTTCGCAGTATC
*
49973931 AGGCACAAATTTTGCGGCGCAATTTAAAAAAATGCCACTAATTTCTATCA
66 AGGCACAAATTTTGCGGCGCAATTTAAAAAAACGCCACTAATTTCTATCA
49973981 TTTTACGGCGTTTTGTATAAAACGCCACTAAAATTTTGCATCAAAACGTACCGTTTCGCAGTATC
1 TTTTACGGCGTTTTGTATAAAACGCCACTAAAATTTTGCATCAAAACGTACCGTTTCGCAGTATC
49974046 AGGCACAAATTTTGCGGCGCAATTTAAAAAAACGCCACTAATTTCTATCA
66 AGGCACAAATTTTGCGGCGCAATTTAAAAAAACGCCACTAATTTCTATCA
* *
49974096 TTTTGCGGCGTTTGGTATAAAACGCCACTAA
1 TTTTACGGCGTTTTGTATAAAACGCCACTAA
49974127 TAACACAGAT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 140 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (115 bp):
TTTTACGGCGTTTTGTATAAAACGCCACTAAAATTTTGCATCAAAACGTACCGTTTCGCAGTATC
AGGCACAAATTTTGCGGCGCAATTTAAAAAAACGCCACTAATTTCTATCA
Found at i:49974189 original size:73 final size:72
Alignment explanation
Indices: 49974102--49974272 Score: 195
Period size: 73 Copynumber: 2.4 Consensus size: 72
49974092 ATCATTTTGC
** * * *
49974102 GGCGTTTGGTATAAAACGCCACTAATAACACAGATTAAAACG-CAGCGTTTTGCCATTTCTGAAA
1 GGCGTTTTTTATAAAACGCCACTAATAACACAAAATAAAACGTCAGCGTTTTG-CA-TACTGAAA
49974166 CAAAGTTGT
64 CAAAGTTGT
* **
49974175 GGCGTTTTTTAT-AAACGCCACTAGA-AACACAAAATAAAACGTCATCGTTTTGCATACTGTGAC
1 GGCGTTTTTTATAAAACGCCACTA-ATAACACAAAATAAAACGTCAGCGTTTTGCATACTGAAAC
* *
49974238 ATATTTGT
65 AAAGTTGT
49974246 GGCGTTTTTTACTAAAACGCCACTAAT
1 GGCGTTTTTTA-TAAAACGCCACTAAT
49974273 GCATAAACAC
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
71 23 0.28
72 29 0.35
73 31 0.37
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
GGCGTTTTTTATAAAACGCCACTAATAACACAAAATAAAACGTCAGCGTTTTGCATACTGAAACA
AAGTTGT
Found at i:49974204 original size:72 final size:73
Alignment explanation
Indices: 49974113--49974272 Score: 193
Period size: 72 Copynumber: 2.2 Consensus size: 73
49974103 GCGTTTGGTA
* * *
49974113 TAAAACGCCACTAATAACACAGATTAAAACG-CAGCGTTTTGCCATTTCTGAAACAAAGTTGTGG
1 TAAAACGCCACTAATAACACAAAATAAAACGTCAGCGTTTTG-CA-TACTGAAACAAAGTTGTGG
49974177 CGTTTTTTA-
64 CGTTTTTTAC
* ** * *
49974186 T-AAACGCCACTAGA-AACACAAAATAAAACGTCATCGTTTTGCATACTGTGACATATTTGTGGC
1 TAAAACGCCACTA-ATAACACAAAATAAAACGTCAGCGTTTTGCATACTGAAACAAAGTTGTGGC
49974249 GTTTTTTAC
65 GTTTTTTAC
49974258 TAAAACGCCACTAAT
1 TAAAACGCCACTAAT
49974273 GCATAAACAC
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
71 23 0.31
72 29 0.39
73 22 0.30
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (73 bp):
TAAAACGCCACTAATAACACAAAATAAAACGTCAGCGTTTTGCATACTGAAACAAAGTTGTGGCG
TTTTTTAC
Found at i:49975556 original size:31 final size:32
Alignment explanation
Indices: 49975518--49975579 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
49975508 CCAAACCAAA
*
49975518 TATAATAAACCCTAAACCATAAACT-TAAAAT
1 TATAATAAACACTAAACCATAAACTATAAAAT
* *
49975549 TATAATAAACATTAAACCTTAAACTATAAAA
1 TATAATAAACACTAAACCATAAACTATAAAA
49975580 CCCTTAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.27
Consensus pattern (32 bp):
TATAATAAACACTAAACCATAAACTATAAAAT
Found at i:49976081 original size:41 final size:41
Alignment explanation
Indices: 49976032--49976188 Score: 192
Period size: 41 Copynumber: 3.8 Consensus size: 41
49976022 CCCACAACGA
* * **
49976032 TAGCGGCGCTTATATAGAAACGCCGCTAAAGCCCATAGTAT
1 TAGCGGCGCTTATATAAAAACGCCGCTAAAGCCCAGAACAT
* *
49976073 TAGCGGCGCTT-TCATAAAAACGCTGCTAAAGGCCAGAACAT
1 TAGCGGCGCTTAT-ATAAAAACGCCGCTAAAGCCCAGAACAT
* *
49976114 TAGCGGCGCTTATAGAAAAACGCCGCTAAATCCCAGAACAT
1 TAGCGGCGCTTATATAAAAACGCCGCTAAAGCCCAGAACAT
* *
49976155 TAGCGGCGCTTCCT-TATAAACGCCGCTAAAGCCC
1 TAGCGGCGCTT-ATATAAAAACGCCGCTAAAGCCC
49976189 CCGAAAATCG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.01
41 96 0.97
42 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTATATAAAAACGCCGCTAAAGCCCAGAACAT
Found at i:49976139 original size:82 final size:82
Alignment explanation
Indices: 49976032--49976185 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 82
49976022 CCCACAACGA
* * * ** * *
49976032 TAGCGGCGCTTATATAGAAACGCCGCTAAAGCCCATAGTATTAGCGGCGCTTTCATAAAAACGCT
1 TAGCGGCGCTTATAGAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTCCATAAAAACGCC
49976097 GCTAAAGGCCAGAACAT
66 GCTAAAGGCCAGAACAT
* * *
49976114 TAGCGGCGCTTATAGAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTCCTTATAAACGCC
1 TAGCGGCGCTTATAGAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTCCATAAAAACGCC
49976179 GCTAAAG
66 GCTAAAG
49976186 CCCCCGAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 62 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (82 bp):
TAGCGGCGCTTATAGAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTCCATAAAAACGCC
GCTAAAGGCCAGAACAT
Found at i:49976305 original size:39 final size:39
Alignment explanation
Indices: 49976219--49976316 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
49976209 TCGTTGGGTT
*
49976219 TCGATTTTTGCGGCGTTTTTTTAAAAAACGCCACTAATGA
1 TCGATTTTTGCGGCGTTTTTCT-AAAAACGCCACTAATGA
* * ** *
49976259 TC-TTTTTTGCGGCGTTTTATCT-AAAGCGCCGTTAATTA
1 TCGATTTTTGCGGCGTTTT-TCTAAAAACGCCACTAATGA
49976297 TCGATTTTTAGCGGCGTTTT
1 TCGATTTTT-GCGGCGTTTT
49976317 CTCTCCAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
38 14 0.29
39 20 0.42
40 14 0.29
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (39 bp):
TCGATTTTTGCGGCGTTTTTCTAAAAACGCCACTAATGA
Found at i:49985929 original size:13 final size:13
Alignment explanation
Indices: 49985895--49985934 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
49985885 GTTTTCTTAT
49985895 ATATAATAAATCA
1 ATATAATAAATCA
49985908 ATA-AA-AAAT-A
1 ATATAATAAATCA
49985918 ATTATAATAAATCA
1 A-TATAATAAATCA
49985932 ATA
1 ATA
49985935 ATTGAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 2 0.09
11 6 0.26
12 4 0.17
13 9 0.39
14 2 0.09
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATAATAAATCA
Found at i:50004574 original size:22 final size:22
Alignment explanation
Indices: 50004549--50004590 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50004539 AGAAATAGAA
*
50004549 AAAAAAATAAAATAAC-AATGAC
1 AAAAAAA-AAAAGAACGAATGAC
50004571 AAAAAAAAAAAGAACGAATG
1 AAAAAAAAAAAGAACGAATG
50004591 GAAGATGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.74, C:0.07, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAAAAAAAAAGAACGAATGAC
Found at i:50018157 original size:27 final size:27
Alignment explanation
Indices: 50018113--50018234 Score: 82
Period size: 27 Copynumber: 4.5 Consensus size: 27
50018103 CTCGACGAAT
***
50018113 TATCCCATATTACCTGTCTCAACGGAC
1 TATCCCATATTTTTTGTCTCAACGGAC
* * * *
50018140 TATCCCATGTTTTTTGTCTCAGCGAAT
1 TATCCCATATTTTTTGTCTCAACGGAC
* * * *
50018167 TATCCCGTATTTTTTATTTCGACGGAC
1 TATCCCATATTTTTTGTCTCAACGGAC
* ** ** *
50018194 TATCCCGTATTTCCTGTCTTGACAGAC
1 TATCCCATATTTTTTGTCTCAACGGAC
*
50018221 TATCCCATGTTTTT
1 TATCCCATATTTTT
50018235 ATCCCGATGG
Statistics
Matches: 70, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (27 bp):
TATCCCATATTTTTTGTCTCAACGGAC
Found at i:50018257 original size:53 final size:54
Alignment explanation
Indices: 50018189--50018304 Score: 146
Period size: 53 Copynumber: 2.2 Consensus size: 54
50018179 TTTATTTCGA
* * *
50018189 CGGACTATCCCGTATTTCCTGTCTTGACAGACTATCCCATGTTT-TTATCCCGAT
1 CGGACTATCACGTATTTCCTATCTCGACAGACTATCCCATGTTTCTTATCCCG-T
* * * *
50018243 -GGACTATCATGTATTTCTTATCTCGATAGACTATCCCATGTTTCTTATTCCGT
1 CGGACTATCACGTATTTCCTATCTCGACAGACTATCCCATGTTTCTTATCCCGT
50018296 CGGACTATC
1 CGGACTATC
50018305 TGGTGTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 38 0.72
54 15 0.28
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.39
Consensus pattern (54 bp):
CGGACTATCACGTATTTCCTATCTCGACAGACTATCCCATGTTTCTTATCCCGT
Found at i:50018286 original size:27 final size:27
Alignment explanation
Indices: 50018217--50018290 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
50018207 CTGTCTTGAC
50018217 AGACTATCCCATGTTT-TTATCCCGAT
1 AGACTATCCCATGTTTCTTATCCCGAT
* *
50018243 GGACTAT--CATGTATTTCTTATCTCGAT
1 AGACTATCCCATG--TTTCTTATCCCGAT
50018270 AGACTATCCCATGTTTCTTAT
1 AGACTATCCCATGTTTCTTAT
50018291 TCCGTCGGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 4 0.10
26 9 0.22
27 23 0.57
29 4 0.10
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (27 bp):
AGACTATCCCATGTTTCTTATCCCGAT
Found at i:50018301 original size:27 final size:27
Alignment explanation
Indices: 50018218--50018304 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
50018208 TGTCTTGACA
*
50018218 GACTATCCCATGTTT-TTATCCCGATG
1 GACTATCCCATGTTTCTTATTCCGATG
*
50018244 GACTAT--CATGTATTTCTTA-TCTCGATA
1 GACTATCCCATG--TTTCTTATTC-CGATG
50018271 GACTATCCCATGTTTCTTATTCCG-TCG
1 GACTATCCCATGTTTCTTATTCCGAT-G
50018298 GACTATC
1 GACTATC
50018305 TGGTGTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
24 4 0.08
26 11 0.22
27 29 0.58
28 2 0.04
29 4 0.08
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (27 bp):
GACTATCCCATGTTTCTTATTCCGATG
Found at i:50028051 original size:10 final size:10
Alignment explanation
Indices: 50028038--50028062 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50028028 AATTTTATAA
50028038 ATATTTTTAT
1 ATATTTTTAT
50028048 ATATTTTTAT
1 ATATTTTTAT
50028058 ATATT
1 ATATT
50028063 ATCTTGGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:50040939 original size:2 final size:2
Alignment explanation
Indices: 50040932--50040963 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50040922 NNNACTAAGA
50040932 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
50040964 TCACCCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50045937 original size:28 final size:29
Alignment explanation
Indices: 50045873--50045937 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
50045863 GTCGATACTT
* * *
50045873 TATATTTATACAAATTTTGGTATATTTAA
1 TATATTTGTAAAAATTTTGATATATTTAA
50045902 TGA-A-TTGTAAAAATTTTGATATA-TTAA
1 T-ATATTTGTAAAAATTTTGATATATTTAA
50045929 TATATTTGT
1 TATATTTGT
50045938 GTTTTTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.03
27 6 0.20
28 20 0.67
29 2 0.07
30 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (29 bp):
TATATTTGTAAAAATTTTGATATATTTAA
Found at i:50050713 original size:49 final size:47
Alignment explanation
Indices: 50050601--50050719 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 47
50050591 TTACACAAAA
*
50050601 TGGCAGATATGATGGACCACTGGTAGGGCATGCTAGTTGCTAACCAGG
1 TGGCAGA-ATGATGGGCCACTGGTAGGGCATGCTAGTTGCTAACCAGG
* * * ** *
50050649 TGGGAGAATAAGATGGGCCATTGGTAGGGCATGTTAGTTGCTAATTAGAT
1 TGGCAGAAT--GATGGGCCACTGGTAGGGCATGCTAGTTGCTAACCAG-G
50050699 TGGCATGAATGATGGGCCACT
1 TGGCA-GAATGATGGGCCACT
50050720 AGTAAGGTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
47 2 0.03
48 6 0.10
49 42 0.72
50 4 0.07
51 4 0.07
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (47 bp):
TGGCAGAATGATGGGCCACTGGTAGGGCATGCTAGTTGCTAACCAGG
Found at i:50056618 original size:33 final size:32
Alignment explanation
Indices: 50056570--50056650 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 32
50056560 GCGATATTAA
* * * *
50056570 CTGTGATGTTAAATCAGTGAGCTGTTTAGAGG
1 CTGTGATCTTAAATCAGCGAGCTATTTAAAGG
50056602 CTGTGACTCTTAAATCAGCGAGCTATTTAAAGG
1 CTGTGA-TCTTAAATCAGCGAGCTATTTAAAGG
** *
50056635 CTACGATATTAAATCA
1 CTGTGATCTTAAATCA
50056651 ATGAGTCTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 15 0.37
33 26 0.63
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (32 bp):
CTGTGATCTTAAATCAGCGAGCTATTTAAAGG
Found at i:50056636 original size:101 final size:100
Alignment explanation
Indices: 50056511--50056724 Score: 266
Period size: 101 Copynumber: 2.1 Consensus size: 100
50056501 ATTGAAATAA
* * ** * *
50056511 TAAATTAGTGAGCTATTTGGAGGCTGCAATATTAAATCAACAAGCCCTAGCGATATTAACTGTGA
1 TAAATCAGCGAGCTATTTAAAGGCTACAATATTAAATCAACAAGCCCTAGCGATATCAACTGTGA
* * * *
50056576 TGTTAAATCAGTGAGCTGTTTAGAGGCTGTGACTCT
66 TATTAAATCAGAGAGCTGTTTAGAGGCTATGA-TAT
* ** * * *
50056612 TAAATCAGCGAGCTATTTAAAGGCTACGATATTAAATCAATGAGTCTTAGTGATATCAACTGTGA
1 TAAATCAGCGAGCTATTTAAAGGCTACAATATTAAATCAACAAGCCCTAGCGATATCAACTGTGA
50056677 TATTAAATCAGAGAGCTGTTTAGAGGCTATGATAT
66 TATTAAATCAGAGAGCTGTTTAGAGGCTATGATAT
*
50056712 TAAATCAACGAGC
1 TAAATCAGCGAGC
50056725 CCTAGTGATA
Statistics
Matches: 96, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
100 14 0.15
101 82 0.85
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (100 bp):
TAAATCAGCGAGCTATTTAAAGGCTACAATATTAAATCAACAAGCCCTAGCGATATCAACTGTGA
TATTAAATCAGAGAGCTGTTTAGAGGCTATGATAT
Found at i:50056687 original size:68 final size:68
Alignment explanation
Indices: 50056601--50057541 Score: 857
Period size: 68 Copynumber: 13.9 Consensus size: 68
50056591 CTGTTTAGAG
* * ** * * * *
50056601 GCTGTGACTCTTAAATCAGCGAGCTATTTAAAGGCTACGATATTAAATCAATGAGTCTTAGTGAT
1 GCTGTGA-TCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGAT
50056666 ATCA
65 ATCA
* * * ** * *
50056670 ACTGTGATATTAAATCAGA-GAGCTGTTTAGAGGCTATGATATTAAATCAACGAGCCCTAGTGAT
1 GCTGTGATCTTAAATCA-ACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGAT
50056734 ATCA
65 ATCA
* * * * * * ** * *
50056738 GCTGCGATGTTAAATCAACGAGCTATTTGAAGGCTGCGATATTAAATTAGTGAGCGTTAGCGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
50056803 TCA
66 TCA
* ** * * * * *
50056806 ACTACGATGTTAAATCAATGGGCTGTTTGGAGGCTGCGATCTTAAATCAGCAAGCCTTAGTGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
50056871 TCA
66 TCA
* * *
50056874 GCTGCGATCTTAAATCAACGAGTTGTTTGGAGGCTGTGATCTTAAATCAACGAGCCTTAGTGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
50056939 T-A
66 TCA
* * * * *
50056941 GCTGCGATATTAAATCAACGAGCTGCTTGGAGGCTGGGATCTTAAATCAATGAGCCTTAGTGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
50057006 T-A
66 TCA
* * * *
50057008 GGTGCGATCTTAAATCAACGAACTGTTTGGAGGCTGCGGTCTTAAATCAACGAGCCTTAGTGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
50057073 T-A
66 TCA
** * * * * * *
50057075 ATTGTGATATTAAATCAACGAGCTATTTGGAGGCTGTGATATTAAATCAACAAGCCTTAGTGATG
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
50057140 TCA
66 TCA
* ** * * * * *
50057143 ACTACGATATTAAATCAACAAGCTATTTGGAGGCTGCAATCTTAAATCAACGAACCTTAGTGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
*
50057208 TAA
66 TCA
* * * * * * * * * *
50057211 GCAGTGATATTAAATCAGCAAACTCTTTGGAGGCTAG-GATCTTAAGTCAATGAGCCTTAGTTAA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCT-GCGATCTTAAATCAACGAGCCTTAGTGAT
50057275 ATCA
65 ATCA
* * * * * * **
50057279 GCAGTGATCTTAAATCAGCGAGTTGTTTGGAGGCTACGATTTTAAATTAGTGAGCCTTAGTGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
*
50057344 TTA
66 TCA
* * * * * * *
50057347 GTTATGATCTTAAATCAGCGAGTTGTTTGGAGGTTGCGATCTTAAATCAGCAAGCCTTAGTGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
*
50057412 TTA
66 TCA
* * * * * * * ** * *
50057415 ACTCTGATCTTAAATCAATGACCTGTTTGGAGGTTGCGATATTAAATTAGTGAGTCTTAGCGATA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
*
50057480 TTA
66 TCA
* * * * * *
50057483 GCTATGATCTTAAATCAACGAGCTATTTGGAGGTTGCAATATTAAATCAGCGAGCCTTA
1 GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTA
50057542 ATAATACCGG
Statistics
Matches: 731, Mismatches: 136, Indels: 11
0.83 0.15 0.01
Matches are distributed among these distances:
67 179 0.24
68 545 0.75
69 7 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (68 bp):
GCTGTGATCTTAAATCAACGAGCTGTTTGGAGGCTGCGATCTTAAATCAACGAGCCTTAGTGATA
TCA
Found at i:50056715 original size:32 final size:32
Alignment explanation
Indices: 50056573--50056718 Score: 107
Period size: 32 Copynumber: 4.4 Consensus size: 32
50056563 ATATTAACTG
* * *
50056573 TGATGTTAAATCAGTGAGCTGTTTAGAGGCTG
1 TGATATTAAATCAGAGAGCTGTTTAGAGGCTA
* * * *
50056605 TGACTCTTAAATCAGCGAGCTATTTAAAGGCTA
1 TGA-TATTAAATCAGAGAGCTGTTTAGAGGCTA
* * * * *
50056638 CGATATTAAATCA-ATGAGTCTTAGTGATATCA-ACTG
1 TGATATTAAATCAGA-GAG-C-T-GT-TTA-GAGGCTA
50056674 TGATATTAAATCAGAGAGCTGTTTAGAGGCTA
1 TGATATTAAATCAGAGAGCTGTTTAGAGGCTA
50056706 TGATATTAAATCA
1 TGATATTAAATCA
50056719 ACGAGCCCTA
Statistics
Matches: 87, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
31 1 0.01
32 32 0.37
33 29 0.33
34 2 0.02
35 2 0.02
36 19 0.22
37 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (32 bp):
TGATATTAAATCAGAGAGCTGTTTAGAGGCTA
Found at i:50056719 original size:169 final size:169
Alignment explanation
Indices: 50056440--50056754 Score: 396
Period size: 169 Copynumber: 1.9 Consensus size: 169
50056430 AAGGTCGCAA
* ** * * *
50056440 TCTTAAATTAGCAAACTATTTGGAGGCTACGATCTTAAATCAGCGAGCCTTAATGATATCAATTG
1 TCTTAAATCAGCAAACTATTTAAAGGCTACGATATTAAATCAACGAGCCTTAATGATATCAACTG
* * * * *
50056505 AAATAATAAATTAGTGAGCTATTTGGAGGCTGCAATATTAAATCAACAAGCCCTAGCGATATTAA
66 AAATAATAAATCAGAGAGCTATTTAGAGGCTACAATATTAAATCAACAAGCCCTAGCGATATCAA
*
50056570 CTGTGATGTTAAATCAGTGAGCTGTTTAGAGGCTGTGAC
131 CTGCGATGTTAAATCAGTGAGCTGTTTAGAGGCTGTGAC
* * * * *
50056609 TCTTAAATCAGCGAGCTATTTAAAGGCTACGATATTAAATCAATGAGTCTTAGTGATATCAACTG
1 TCTTAAATCAGCAAACTATTTAAAGGCTACGATATTAAATCAACGAGCCTTAATGATATCAACTG
** * * ** * * *
50056674 TGATATTAAATCAGAGAGCTGTTTAGAGGCTATGATATTAAATCAACGAGCCCTAGTGATATCAG
66 AAATAATAAATCAGAGAGCTATTTAGAGGCTACAATATTAAATCAACAAGCCCTAGCGATATCAA
50056739 CTGCGATGTTAAATCA
131 CTGCGATGTTAAATCA
50056755 ACGAGCTATT
Statistics
Matches: 120, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
169 120 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (169 bp):
TCTTAAATCAGCAAACTATTTAAAGGCTACGATATTAAATCAACGAGCCTTAATGATATCAACTG
AAATAATAAATCAGAGAGCTATTTAGAGGCTACAATATTAAATCAACAAGCCCTAGCGATATCAA
CTGCGATGTTAAATCAGTGAGCTGTTTAGAGGCTGTGAC
Found at i:50061552 original size:32 final size:32
Alignment explanation
Indices: 50061516--50061588 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
50061506 TCGGCCAGGC
* *
50061516 CGTGTGGGCCACATGGGCAAGGCTAATCTGGG
1 CGTGTGGGCCACACGGGCAAGGCTAATCTAGG
* *
50061548 CGTGTGGGCCATACGGGCAAGGCTAGTCTAGG
1 CGTGTGGGCCACACGGGCAAGGCTAATCTAGG
*
50061580 CATGTGGGC
1 CGTGTGGGC
50061589 TGAACGGGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.18, C:0.22, G:0.41, T:0.19
Consensus pattern (32 bp):
CGTGTGGGCCACACGGGCAAGGCTAATCTAGG
Found at i:50068378 original size:17 final size:17
Alignment explanation
Indices: 50068324--50068379 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
50068314 GTGGTTGGCT
* *
50068324 GTGTGCGAGACACGGTC
1 GTGTGCTAGACACGGCC
*
50068341 GTGCGCTAGACACGGCC
1 GTGTGCTAGACACGGCC
*
50068358 GTGTGCTAGACACGACC
1 GTGTGCTAGACACGGCC
50068375 GTGTG
1 GTGTG
50068380 GTTGTGTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.18, C:0.27, G:0.38, T:0.18
Consensus pattern (17 bp):
GTGTGCTAGACACGGCC
Found at i:50073133 original size:25 final size:25
Alignment explanation
Indices: 50073031--50073202 Score: 87
Period size: 28 Copynumber: 6.6 Consensus size: 25
50073021 TAATTTTAAG
* *
50073031 CAATTTAAAATAAACATTACATAAAA
1 CAATTTAAAATAAA-ATAATATAAAA
* * * * *
50073057 TAGTTTAAAAGAAATGATATGTAAAAAA
1 CAATTTAAAATAAA--ATA-ATATAAAA
* *
50073085 AAATCTAAAATAAATAATATATATAAAA
1 CAATTTAAAAT-AA-AATA-ATATAAAA
*
50073113 CAATTTAAGATAAAATAATATAGAAA
1 CAATTTAAAATAAAATAATATA-AAA
* * *
50073139 GAAATTCAAAATAATAAT-ATATGAAA
1 -CAATTTAAAATAA-AATAATATAAAA
* *
50073165 CAATTTAAAAT-AGATAATATCAAA
1 CAATTTAAAATAAAATAATATAAAA
* *
50073189 CAGTTTAATATAAA
1 CAATTTAAAATAAA
50073203 TAAAATGAAA
Statistics
Matches: 109, Mismatches: 28, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
23 2 0.02
24 17 0.16
25 15 0.14
26 21 0.19
27 18 0.17
28 33 0.30
29 2 0.02
30 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.28
Consensus pattern (25 bp):
CAATTTAAAATAAAATAATATAAAA
Found at i:50073205 original size:24 final size:24
Alignment explanation
Indices: 50073096--50073205 Score: 71
Period size: 24 Copynumber: 4.4 Consensus size: 24
50073086 AATCTAAAAT
*
50073096 AAAT-AATATATATAAAACAATTTA
1 AAATAAATA-ATATCAAACAATTTA
* * * *
50073120 AGATAAAATAATATAGAAAGAAATTCA
1 AAAT-AAATAATAT-CAAA-CAATTTA
*
50073147 AAAT-AATAATATATGAAACAATTTA
1 AAATAAAT-A-ATATCAAACAATTTA
* *
50073172 AAATAGATAATATCAAACAGTTTA
1 AAATAAATAATATCAAACAATTTA
*
50073196 ATATAAATAA
1 AAATAAATAA
50073206 AATGAAATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
24 24 0.36
25 17 0.25
26 14 0.21
27 12 0.18
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (24 bp):
AAATAAATAATATCAAACAATTTA
Found at i:50074871 original size:45 final size:45
Alignment explanation
Indices: 50074791--50075719 Score: 478
Period size: 45 Copynumber: 20.9 Consensus size: 45
50074781 CTACCTTCAG
* * * *
50074791 CTTTAATCTGTTCCACTGCAA-TGCTAGGGAAATAAGATTCGTTGT
1 CTTTAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGATTCGTTGT
* * **
50074836 CTTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAG--GC-TTCA
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * * *
50074878 CTTCAAT-TCGCTCTACTGCAACTTCAGGGAGATAAGATT--TTCCAT
1 CTTTAGTCT-GCTCCACTGCAACTTCAGGGAGATAAGATTCGTT--GT
* * *
50074923 CTTTAGTCTGCCCCACTGCAACTTTAGGGGGATAAGACTT-GCTT-T
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCG-TTGT
* * * * *
50074968 -TTTCAGTCTACTCCACCGTAACTTCAAGGAGATAAGA--C-TTAT
1 CTTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * * * * *
50075010 AACTTTAATCCGCTCCACTGCAACTTCATGGAGATAGGATT-ATTGG
1 --CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * ***
50075056 CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * *
50075101 CTTCAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTT-GTTCT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTCGTTGT
* * * *
50075146 CTTTAGTCTGCTCCACTGCAATTTCAGGGAGATAGGATT-ATTGG
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * * * * ***
50075190 CTGTAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * * *
50075235 CTTCAGTCTGCCCCATTGCAACTTCAGGGGGATAAGACTT-GCTT-T
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCG-TTGT
* * * *
50075280 CTTCAGTCTGCTCCACTGAAAGTTCTGGGAGATAAGA--C-TTGT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * * *
50075322 AACTTTAATCCGCTCCACTGCAACTTCAGGGAGAT-AGAATT-ATTGG
1 --CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTCGTTGT
* ***
50075368 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * * * * *
50075413 CTTCAGTCTGCCCCACTGTAATTTCAAGGG-GATAAGACTT-GCTCT
1 CTTTAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGA-TTCGTTGT
* * * * *
50075458 CTTCAGTTTGCTCCACTACAACTTTAGGGAGATAAGA--C--TGCA
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTG-T
* * ****
50075500 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * *
50075545 CTTCAGTCTGC-CCTACTGCAACTTTAGGGGGATAAGACTTAC-TT-T
1 CTTTAGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGA-TT-CGTTGT
* * * * *
50075590 CTTTAGTTTGTTCCACTGCAATTTCAGAGAGACAAGA--C-TTGT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
* * * * * *
50075632 AACTTTAAT-TCGATCCATTGCAACTTTAGGGAGATAGGATT-ATTAG-
1 --CTTTAGTCT-GCTCCACTGCAACTTCAGGGAGATAAGATTCGTT-GT
* * **
50075678 CTTTAATCTACTCCACTGCAACTTCAGAAAGATAAGATTCGT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGT
50075720 CATCTTCTTC
Statistics
Matches: 674, Mismatches: 151, Indels: 118
0.71 0.16 0.13
Matches are distributed among these distances:
41 9 0.01
42 68 0.10
43 6 0.01
44 230 0.34
45 328 0.49
46 29 0.04
47 2 0.00
48 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTTGT
Found at i:50075205 original size:134 final size:133
Alignment explanation
Indices: 50074790--50075357 Score: 524
Period size: 134 Copynumber: 4.3 Consensus size: 133
50074780 GCTACCTTCA
* * * *** * *
50074790 GCTTTAATCTGTTCCACTGCAA-TGCTAGGGAAATAAGATTCGTTGTCTTTAGTCTGCTCCACTG
1 GCTTTAATCTGCTCCACTGCAACTTC-AGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTG
* ** * * * *
50074854 CAACTTCA-GAGAGATAAGGC-T-TCACTTCAAT-TCGCTCTACTGCAACTTCAGGGAGATAAGA
65 CAACTTCAGGAG-GATAAGACTTGTTTCTTTAGTCT-GCTCCACTGCAACTTCAGGGAGATAGGA
*
50074915 TT-TTCCA
128 TTATT--G
* * * * * ** * * * *
50074922 TCTTTAGTCTGCCCCACTGCAACTTTAGGGGGATAAGACTT-GCTTTTTTCAGTCTACTCCACCG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTGCCCCACTG
* * ** * * *
50074986 TAACTTCAAGGA-GATAAGACTTATAACTTTAATCCGCTCCACTGCAACTTCATGGAGATAGGAT
65 CAACTTC-AGGAGGATAAGACTTGTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGAT
50075050 TATTG
129 TATTG
*
50075055 GCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGC
*
50075120 AACTTCAGGAGGATAAGACTTGTTCTCTTTAGTCTGCTCCACTGCAATTTCAGGGAGATAGGATT
66 AACTTCAGGAGGATAAGACTTGTT-TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGATT
50075185 ATTG
130 ATTG
* * * * *
50075189 GCTGTAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCATTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGC
* * * * * *
50075254 AACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTGCTCCACTGAAAGTTCTGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTG-TTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGA-T
* *
50075319 T-GTA
129 TATTG
* *
50075323 ACTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
50075358 GAATTATTGG
Statistics
Matches: 361, Mismatches: 62, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
132 64 0.18
133 71 0.20
134 220 0.61
135 6 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (133 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGC
AACTTCAGGAGGATAAGACTTGTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGATTA
TTG
Found at i:50075414 original size:178 final size:178
Alignment explanation
Indices: 50074791--50075533 Score: 676
Period size: 178 Copynumber: 4.2 Consensus size: 178
50074781 CTACCTTCAG
* * * * * *
50074791 CTTTAATCTGTTCCACTGCAA-TGCTAGGGAAATA-AGATTCGTTGTCTTTAGTCTGCTCCACTG
1 CTTTAATCTGCTCCACTGCAACTTC-AGGGAGATAGA-ATT-ATTGGCTTTAATCTGCTCCACTG
* ** * * * *
50074854 CAACTTCAGAGAGATAAGGCTT--CA-CTTCAAT-TCGCTCTACTGCAACTTCAGGGAGATAAGA
63 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT-GCCCCACTGCAACTTCAGGGGGATAAGA
* * * * * * * *
50074915 TTTTCCATCTTTAGTCTGCCCCACTGCAACTT-TAGGGGGATAAGACTTG-CTT
127 CTTGCTATCTTCAGTCTGCTCCACTGAAACTTCT-GGGAGATAAGACTTGTC-A
* * * * * * * ** *
50074967 TTTTCAGTCTACTCCACCGTAACTTCAAGGAGATAAGACTTA-TAACTTTAATCCGCTCCACTGC
1 CTTT-AATCTGCTCCACTGCAACTTCAGGGAGAT-AGAATTATTGGCTTTAATCTGCTCCACTGC
* * * * * * *
50075031 AACTTCATGGAGATAGGATTATTGGC-T-TT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGA
64 AACTTCAGGGAGATAAGA-T-TTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGA
* * * * *
50075093 -TTCGCCATCTTCAGTCTGCCCCACTGCAACTTC-AGGAGGATAAGACTTGTTCT
127 CTT-GCTATCTTCAGTCTGCTCCACTGAAACTTCTGGGA-GATAAGACTTG-TCA
* * * * *
50075146 CTTTAGTCTGCTCCACTGCAATTTCAGGGAGATAGGATTATTGGCTGTAATTTGCTCCACTGCAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAA
* *
50075211 CTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCATTGCAACTTCAGGGGGATAAGACTTG
66 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTG
* * *
50075276 CTTTCTTCAGTCTGCTCCACTGAAAGTTCTGGGAGATAAGACTTGTAA
131 CTATCTTCAGTCTGCTCCACTGAAACTTCTGGGAGATAAGACTTGTCA
*
50075324 CTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAA
* * * *
50075389 CTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGTAATTTCAAGGGGATAAGACTTG
66 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTG
* *
50075454 CTCTCTTCAGTTTGCTCCACT-ACAACTT-TAGGGAGATAAGAC-TG-CA
131 CTATCTTCAGTCTGCTCCACTGA-AACTTCT-GGGAGATAAGACTTGTCA
*
50075500 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
50075534 AGATTCACCA
Statistics
Matches: 470, Mismatches: 74, Indels: 46
0.80 0.13 0.08
Matches are distributed among these distances:
176 72 0.15
177 33 0.07
178 286 0.61
179 72 0.15
180 7 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (178 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTG
CTATCTTCAGTCTGCTCCACTGAAACTTCTGGGAGATAAGACTTGTCA
Found at i:50075472 original size:312 final size:310
Alignment explanation
Indices: 50074835--50075726 Score: 1225
Period size: 312 Copynumber: 2.9 Consensus size: 310
50074825 AGATTCGTTG
* * * * * * * *
50074835 TCTTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGGCTTCACTTCAATTCGCTCTACTGCAAC
1 TCTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTGCACTTCAATTTGCTCCACTGCAAC
* *
50074900 TTCAGGGAGATAAGATTTTCCATCTTTAGTCTGCCCCACTGCAACTTTAGGGGGATAAGACTTGC
66 TTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCCCACTGCAACTTTAGGGGGATAAGACTTGC
* * * * * *
50074965 TTTTTTCAGTCTACTCCACCGTAACTTCAAGGAGATAAGACTTATAACTTTAATCCGCTCCACTG
131 TTTCTTCAGTCTGCTCCACTGAAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTG
*
50075030 CAACTTCATGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
196 CAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
*
50075095 CGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGTTC
261 CGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTC
* * * * *
50075145 TCTTTAGTCTGCTCCACTGCAA-TTTCAGGGAGATAGGATTATTG-GCTGT-AATTTGCTCCACT
1 TCTTCAGTCTGCTCCACTACAACTTT-AGGGAGATA--A-GACTGCACT-TCAATTTGCTCCACT
* * * *
50075207 GCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCATTGCAACTTCAGGGGGATAAGA
61 GCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCCCACTGCAACTTTAGGGGGATAAGA
* *
50075272 CTTGCTTTCTTCAGTCTGCTCCACTGAAAGTTCTGGGAGATAAGACTTGTAACTTTAATCCGCTC
126 CTTGCTTTCTTCAGTCTGCTCCACTGAAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTC
* *
50075337 CACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
191 CACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATA
* *
50075402 AGATTCGCCATCTTCAGTCTGCCCCACTGTAATTTCAAGG-GGATAAGACTTGCTC
256 AGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTC-AGGAGGATAAGACTTGCTC
* *
50075457 TCTTCAGTTTGCTCCACTACAACTTTAGGGAGATAAGACTGCACTTCAATCTGCTCCACTGCAAC
1 TCTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTGCACTTCAATTTGCTCCACTGCAAC
* * *
50075522 TTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCCTACTGCAACTTTAGGGGGATAAGACTTAC
66 TTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCCCACTGCAACTTTAGGGGGATAAGACTTGC
* * * * * * * * * *
50075587 TTTCTTTAGTTTGTTCCACTGCAATTTCAGAGAGACAAGACTTGTAACTTTAATTCGATCCATTG
131 TTTCTTCAGTCTGCTCCACTGAAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTG
* * * *
50075652 CAACTTTAGGGAGATAGGATTATTAGCTTTAATCTACTCCACTGCAACTTCAGAAAGATAAGATT
196 CAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
*
50075717 CGTCATCTTC
261 CGCCATCTTC
50075727 TTCAATCCAT
Statistics
Matches: 513, Mismatches: 60, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
309 6 0.01
310 230 0.45
312 269 0.52
313 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (310 bp):
TCTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTGCACTTCAATTTGCTCCACTGCAAC
TTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCCCACTGCAACTTTAGGGGGATAAGACTTGC
TTTCTTCAGTCTGCTCCACTGAAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTG
CAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
CGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTC
Found at i:50077093 original size:43 final size:45
Alignment explanation
Indices: 50076992--50077116 Score: 173
Period size: 43 Copynumber: 2.8 Consensus size: 45
50076982 TTATTATTAT
*
50076992 GACTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTCTTTCTTTTAG
1 GACTCAAAGCGTCCTTTGTGGGTTTTCACCTTGGTC-TTCTTTTAG
* * ** *
50077038 GACTCAAGGCGTCATTTACGGGTTTTCACATTGGTC-T-TTTTAG
1 GACTCAAAGCGTCCTTTGTGGGTTTTCACCTTGGTCTTCTTTTAG
50077081 GACTCAAAGCGTCCTTTGTGGGTTTTCACCTTGGTC
1 GACTCAAAGCGTCCTTTGTGGGTTTTCACCTTGGTC
50077117 CATTCTCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 37 0.54
44 1 0.01
46 30 0.44
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.39
Consensus pattern (45 bp):
GACTCAAAGCGTCCTTTGTGGGTTTTCACCTTGGTCTTCTTTTAG
Found at i:50078079 original size:20 final size:20
Alignment explanation
Indices: 50078043--50078089 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
50078033 CCTTTTCCTT
* *
50078043 TTTTTTTTCTTCTATTTTTCC
1 TTTTTTTTCATCTA-TTTTCA
50078064 TTTTTTTTCATC-ATTTTCA
1 TTTTTTTTCATCTATTTTCA
50078083 TTTTTTT
1 TTTTTTT
50078090 GAAATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 12 0.50
20 1 0.04
21 11 0.46
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCATCTATTTTCA
Found at i:50078099 original size:28 final size:28
Alignment explanation
Indices: 50078068--50078127 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
50078058 TTTTCCTTTT
50078068 TTTTCATCATTTTCATTTTTTTGAAATA
1 TTTTCATCATTTTCATTTTTTTGAAATA
** * *
50078096 TTTTTTTTATTTTGATTTTTTTGAAATA
1 TTTTCATCATTTTCATTTTTTTGAAATA
50078124 TTTT
1 TTTT
50078128 TGATTGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (28 bp):
TTTTCATCATTTTCATTTTTTTGAAATA
Found at i:50081776 original size:26 final size:26
Alignment explanation
Indices: 50081741--50081801 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
50081731 GTTTAAGATA
50081741 AAATAATATA-GAAAGCAATTCAAAAT
1 AAATAATATATGAAA-CAATTCAAAAT
*
50081767 AAATAATATATGAAACAATTTAAAAT
1 AAATAATATATGAAACAATTCAAAAT
*
50081793 AGATAATAT
1 AAATAATAT
50081802 CAAACAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.28
Consensus pattern (26 bp):
AAATAATATATGAAACAATTCAAAAT
Found at i:50081806 original size:24 final size:24
Alignment explanation
Indices: 50081721--50081822 Score: 78
Period size: 24 Copynumber: 4.0 Consensus size: 24
50081711 ATATATATAT
* * *
50081721 ATATAAAACAGTTTAAGATAAAATA
1 ATATCAAACAATTTAAAAT-AAATA
* *
50081746 ATATAGAAAGCAATTCAAAATAAATAA
1 ATAT-CAAA-CAATTTAAAATAAAT-A
* *
50081773 TATATGAAACAATTTAAAATAGATA
1 -ATATCAAACAATTTAAAATAAATA
* *
50081798 ATATCAAACAGTTTAATATAAATA
1 ATATCAAACAATTTAAAATAAATA
50081822 A
1 A
50081823 AATGAAATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
24 21 0.33
25 5 0.08
26 20 0.32
27 13 0.21
28 4 0.06
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (24 bp):
ATATCAAACAATTTAAAATAAATA
Found at i:50083158 original size:16 final size:17
Alignment explanation
Indices: 50083126--50083162 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
50083116 ATTATTTATG
50083126 AAATAAAAATGAAAACT
1 AAATAAAAATGAAAACT
*
50083143 AAATAAAAAT-ATAACT
1 AAATAAAAATGAAAACT
50083159 AAAT
1 AAAT
50083163 TGATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAAAATGAAAACT
Found at i:50085360 original size:36 final size:36
Alignment explanation
Indices: 50085320--50085391 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
50085310 CCAAAGAAGC
50085320 ATAGGGAAAGTTTTTGGTGGAATTGGTACAATCAAT
1 ATAGGGAAAGTTTTTGGTGGAATTGGTACAATCAAT
50085356 ATAGGGAAAGTTTTTGGTGGAATTGGTACAATCAAT
1 ATAGGGAAAGTTTTTGGTGGAATTGGTACAATCAAT
50085392 CAACCATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (36 bp):
ATAGGGAAAGTTTTTGGTGGAATTGGTACAATCAAT
Found at i:50090407 original size:50 final size:50
Alignment explanation
Indices: 50090346--50091219 Score: 496
Period size: 50 Copynumber: 17.5 Consensus size: 50
50090336 CTAAGGAGGT
* * * *
50090346 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * ** ** * * * **
50090396 CAGATCTGCCGTTGTGACTTCAATCTGCTCCATTGCACCGCCAGAGAATT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * *
50090446 AAAATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* ** ** **** * * **
50090496 CAGATCCATCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* *
50090546 AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC-GGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * * ** * * **
50090595 CAGATCCGTCGTTGTGACTTCAATCTGCTCT-GCTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCT-TTTTAATTGCACTGTCAGGGAAAC
* * * *
50090645 AAGATCCGTCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * ** **** ** *
50090695 CAGATCCGCCATTTTGACTTCAATCTACTCCGCTGCACTACCAGGGAAAT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * * *
50090745 AAGATCCGTCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * ** **** * * **
50090795 AAGATCCGTCGTTATGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * * *
50090845 AAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * ** **** * * **
50090895 CAGATCCACCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * * * *
50090945 AAGATCTGCCGTTGTGGCTTCAATTTTTTTAATTGCGCTTTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * ** **** * * **
50090995 CAGATCCGTCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * *
50091045 AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGCTGTC-GAGGTAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAG-GGAAAC
* * ** **** * * **
50091095 CAGATCTGCCGTTGTGACTTCAATCTACTCCGCTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* * * *
50091145 AAGATCCGCCATTGTGGCTTCAATC-TTTTAATTGCACTATCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
* *
50091194 CAGATCCACCGTTGTGACTTCAATCT
1 AAGATCCGCCGTTGTGACTTCAATCT
50091220 GCTCCGCTAC
Statistics
Matches: 564, Mismatches: 254, Indels: 12
0.68 0.31 0.01
Matches are distributed among these distances:
49 70 0.12
50 493 0.87
51 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (50 bp):
AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCACTGTCAGGGAAAC
Found at i:50090460 original size:100 final size:100
Alignment explanation
Indices: 50090344--50091227 Score: 1403
Period size: 100 Copynumber: 8.9 Consensus size: 100
50090334 TGCTAAGGAG
* *
50090344 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCTGCCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
** *
50090409 GTGACTTCAATCTGCTCCATTGCACCGCCAGAGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
* * **
50090444 TTAAAATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCATCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
50090509 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
*
50090544 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC-GGGAAACCAGATCCGTCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
*
50090608 GTGACTTCAATCTGCTCTGCTGCACCGCCAGGGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
* *
50090643 GTAAGATCCGTCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCATT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
* * **
50090708 TTGACTTCAATCTACTCCGCTGCACTACCAGGGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
* * * * *
50090743 ATAAGATCCGTCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACAAGATCCGTCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
*
50090808 ATGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
* * *
50090843 GTAAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCACCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
50090908 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
* * * *
50090943 GTAAGATCTGCCGTTGTGGCTTCAATTTTTTTAATTGCGCTTTCGGGGAAACCAGATCCGTCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
50091008 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
* * * *
50091043 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGCTGTCGAGGTAACCAGATCTGCCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
*
50091108 GTGACTTCAATCTACTCCGCTGCACCGCCAGGGAA
66 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
* * * *
50091143 GTAAGATCCGCCATTGTGGCTTCAATC-TTTTAATTGCACTATCGGGGAAACCAGATCCACCGTT
1 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
50091207 GTGACTTCAATCTGCTCCGCT
66 GTGACTTCAATCTGCTCCGCT
50091228 ACAACGCTAA
Statistics
Matches: 723, Mismatches: 60, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
99 146 0.20
100 577 0.80
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (100 bp):
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTT
GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAA
Found at i:50092538 original size:15 final size:15
Alignment explanation
Indices: 50092518--50092564 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
50092508 CCCTAGCCTC
50092518 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
50092533 TCCATTTTT-CATTTT
1 TCCATTTTTAC-TTTT
* *
50092548 TCTATTTTTATTTTT
1 TCCATTTTTACTTTT
50092563 TC
1 TC
50092565 ACATCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:50093091 original size:17 final size:17
Alignment explanation
Indices: 50093069--50093102 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50093059 CTTGGTAGAG
* *
50093069 GTTTTTTTTTGTTTTTT
1 GTTTTTTGTTCTTTTTT
50093086 GTTTTTTGTTCTTTTTT
1 GTTTTTTGTTCTTTTTT
50093103 CTTCTTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (17 bp):
GTTTTTTGTTCTTTTTT
Found at i:50097283 original size:25 final size:25
Alignment explanation
Indices: 50097239--50097306 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 25
50097229 GTATAAACAA
50097239 ATTAT-AAAATATGAAAGTATA-AAT
1 ATTATAAAAATAT-AAAGTATATAAT
50097263 ATTATAAAAATATAAATGTATATAAT
1 ATTATAAAAATATAAA-GTATATAAT
*
50097289 ATATATAAATTATATAAA
1 AT-TATAAA-AATATAAA
50097307 AAATATGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
24 8 0.21
25 12 0.32
26 5 0.13
27 6 0.16
28 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTATAAAAATATAAAGTATATAAT
Found at i:50097302 original size:9 final size:10
Alignment explanation
Indices: 50097256--50097383 Score: 61
Period size: 9 Copynumber: 12.4 Consensus size: 10
50097246 AATATGAAAG
50097256 TATAAATAT-
1 TATAAATATA
50097265 TATAAA-A-A
1 TATAAATATA
*
50097273 TATAAATGTA
1 TATAAATATA
50097283 TAT-AATATA
1 TATAAATATA
50097292 TATAAATTATA
1 TATAAA-TATA
*
50097303 TAAAAAATATGA
1 T-ATAAATAT-A
50097315 TAATAAA-ATA
1 T-ATAAATATA
*
50097325 TATACGCACTATA
1 TATA---AATATA
* *
50097338 TATATATATT
1 TATAAATATA
* *
50097348 TA-AAACATT
1 TATAAATATA
50097357 TATATAATATA
1 TATA-AATATA
50097368 TATTAACATATA
1 TA-TAA-ATATA
50097380 TATA
1 TATA
50097384 TGCACACATA
Statistics
Matches: 92, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
8 7 0.08
9 24 0.26
10 14 0.15
11 19 0.21
12 21 0.23
13 7 0.08
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (10 bp):
TATAAATATA
Found at i:50097375 original size:21 final size:23
Alignment explanation
Indices: 50097334--50097383 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
50097324 ATATACGCAC
*
50097334 TATAT-ATATATATTTAAAACATT
1 TATATAATATATATTT-AAACATA
50097357 TATATAATATATA-TT-AACATA
1 TATATAATATATATTTAAACATA
50097378 TATATA
1 TATATA
50097384 TGCACACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 11 0.44
23 7 0.28
24 7 0.28
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TATATAATATATATTTAAACATA
Found at i:50097460 original size:25 final size:25
Alignment explanation
Indices: 50097399--50097460 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
50097389 ACATATACTC
* **
50097399 ATACAATAATAATAATATAATTAATT
1 ATACTATAA-AATAATATAAACAATT
*
50097425 ATACTAAAAAATAATATAAACAATAT
1 ATACTATAAAATAATATAAACAAT-T
50097451 ATA-TATAAAA
1 ATACTATAAAA
50097461 AAACTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
ATACTATAAAATAATATAAACAATT
Found at i:50104349 original size:27 final size:27
Alignment explanation
Indices: 50104302--50104369 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
50104292 TAAAATGGAT
* **
50104302 ATAAAATTATAAACATTAAAAATT-TA
1 ATAAAATTATAAAAAACAAAAATTATA
50104328 ATAAATATTATAAAAAACAAAAATTATA
1 ATAAA-ATTATAAAAAACAAAAATTATA
*
50104356 AT-CAATTATAAAAA
1 ATAAAATTATAAAAA
50104370 TATTTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.42
27 17 0.47
28 4 0.11
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (27 bp):
ATAAAATTATAAAAAACAAAAATTATA
Found at i:50104384 original size:20 final size:20
Alignment explanation
Indices: 50104361--50104401 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50104351 TTATAATCAA
* *
50104361 TTATAAAAATATTTAAAATT
1 TTATAAAAACATATAAAATT
50104381 TTATAAAAACATATAAAATT
1 TTATAAAAACATATAAAATT
50104401 T
1 T
50104402 CTTTAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTATAAAAACATATAAAATT
Found at i:50104387 original size:10 final size:10
Alignment explanation
Indices: 50104261--50104514 Score: 53
Period size: 10 Copynumber: 27.2 Consensus size: 10
50104251 ATCAGAGAAA
50104261 ATTATAAAA-
1 ATTATAAAAT
50104270 ATTATAAAAT
1 ATTATAAAAT
*
50104280 ATT-TAAAAA
1 ATTATAAAAT
*
50104289 AAT-TAAAAT
1 ATTATAAAAT
50104298 GGA-TAT-AAA-
1 --ATTATAAAAT
*
50104307 ATTAT-AAAC
1 ATTATAAAAT
50104316 ATTA-AAAAT
1 ATTATAAAAT
50104325 -TTA-ATAAAT
1 ATTATA-AAAT
50104334 ATTATAAAA-
1 ATTATAAAAT
*
50104343 A--ACAAAA-
1 ATTATAAAAT
*
50104350 ATTATAATCA-
1 ATTATAA-AAT
50104360 ATTATAAAAAT
1 ATTAT-AAAAT
50104371 ATT-TAAAAT
1 ATTATAAAAT
*
50104380 TTTATAAAA-
1 ATTATAAAAT
*
50104389 ACATATAAAAT
1 A-TTATAAAAT
* *
50104400 TTCTTTAAAA-
1 AT-TATAAAAT
* *
50104410 CTTATAAAAA
1 ATTATAAAAT
*
50104420 ATCATAAAA-
1 ATTATAAAAT
50104429 A-TAT-AAAT
1 ATTATAAAAT
50104437 ATT-TAAGAAT
1 ATTATAA-AAT
50104447 A-T-TAAAAT
1 ATTATAAAAT
*
50104455 A-GATATAAA-
1 ATTATA-AAAT
*
50104464 CTTA-AAAA-
1 ATTATAAAAT
*
50104472 ATTATAAAAA
1 ATTATAAAAT
*
50104482 ATCATAAAA-
1 ATTATAAAAT
50104491 AGTTATAAAAAT
1 A-TTAT-AAAAT
*
50104503 ATAATAAAAT
1 ATTATAAAAT
50104513 AT
1 AT
50104515 AAAATATTAA
Statistics
Matches: 187, Mismatches: 26, Indels: 63
0.68 0.09 0.23
Matches are distributed among these distances:
7 10 0.05
8 24 0.13
9 64 0.34
10 67 0.36
11 21 0.11
12 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:50104396 original size:30 final size:28
Alignment explanation
Indices: 50104362--50104432 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
50104352 TATAATCAAT
*
50104362 TATAAAAATATTTAAAATTTTATAAAAACA
1 TATAAAAATATTTAAAA-CTTATAAAAA-A
* *
50104392 TATAAAATTTCTTTAAAACTTATAAAAAA
1 TATAAAA-ATATTTAAAACTTATAAAAAA
50104421 TCATAAAAATAT
1 T-ATAAAAATAT
50104433 AAATATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
29 4 0.12
30 22 0.65
31 8 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (28 bp):
TATAAAAATATTTAAAACTTATAAAAAA
Found at i:50104435 original size:18 final size:17
Alignment explanation
Indices: 50104412--50104528 Score: 71
Period size: 17 Copynumber: 6.5 Consensus size: 17
50104402 CTTTAAAACT
50104412 TATAAAAAATCATAAAAA
1 TATAAAAAAT-ATAAAAA
* * *
50104430 TAT-AAATATTTAAGAA
1 TATAAAAAATATAAAAA
*
50104446 TATTAAAATAGATAT-AAAC
1 TA-TAAAA-A-ATATAAAAA
50104465 T-TAAAAAATTATAAAAAA
1 TATAAAAAA-TAT-AAAAA
*
50104483 TCATAAAAAGTTATAAAAA
1 T-ATAAAAA-ATATAAAAA
50104502 TATAATAAAATAT-AAAA
1 TATAA-AAAATATAAAAA
50104519 TATTAAAAAA
1 TA-TAAAAAA
50104529 ATCATTTATA
Statistics
Matches: 77, Mismatches: 10, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
15 1 0.01
16 11 0.14
17 21 0.27
18 20 0.26
19 12 0.16
20 12 0.16
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
TATAAAAAATATAAAAA
Found at i:50104481 original size:11 final size:10
Alignment explanation
Indices: 50104466--50104530 Score: 66
Period size: 10 Copynumber: 6.8 Consensus size: 10
50104456 GATATAAACT
50104466 TAAAAAATTA
1 TAAAAAATTA
*
50104476 TAAAAAATCA
1 TAAAAAATTA
*
50104486 TAAAAAGTTA
1 TAAAAAATTA
50104496 T-AAAAA-TA
1 TAAAAAATTA
50104504 TAATAAAA-TA
1 TAA-AAAATTA
*
50104514 TAAAATATTA
1 TAAAAAATTA
50104524 -AAAAAAT
1 TAAAAAAT
50104531 CATTTATACC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 3 0.07
9 14 0.30
10 29 0.63
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:50104491 original size:20 final size:19
Alignment explanation
Indices: 50104227--50104528 Score: 73
Period size: 18 Copynumber: 16.4 Consensus size: 19
50104217 ATAAAAATCT
* *
50104227 TAAAAATTTATAAATAATA
1 TAAAAAATTATAAAAAATA
* * * *
50104246 -AAAACATCAGAGAAAAT-
1 TAAAAAATTATAAAAAATA
* *
50104263 TATAAAAATTATAAAATATT
1 TA-AAAAATTATAAAAAATA
* ***
50104283 TAAAAAAAT-TAAAATGGA
1 TAAAAAATTATAAAAAATA
* *
50104301 TATAAAATTAT-AAACAT-
1 TAAAAAATTATAAAAAATA
*
50104318 T-AAAAATT-TAATAAATA
1 TAAAAAATTATAAAAAATA
* *
50104335 TTATAAAAA--ACAAAAATTA
1 -TA-AAAAATTATAAAAAATA
** *
50104354 TAATCAATTATAAAAATATT
1 TAAAAAATTATAAAAA-ATA
**
50104374 TAAAATTTTATAAAAACATA
1 TAAAAAATTATAAAAA-ATA
** * **
50104394 TAAAATTTCTTTAAAACTTA
1 TAAAAAAT-TATAAAAAATA
*
50104414 TAAAAAATCAT-AAAAATA
1 TAAAAAATTATAAAAAATA
* *
50104432 T-AAATATT-T-AAGAATA
1 TAAAAAATTATAAAAAATA
* * * *
50104448 T-TAAAATAGATATAAACT-
1 TAAAAAAT-TATAAAAAATA
50104466 TAAAAAATTATAAAAAATCA
1 TAAAAAATTATAAAAAAT-A
*
50104486 TAAAAAGTTAT-AAAAATA
1 TAAAAAATTATAAAAAATA
*
50104504 TAATAAAA-TATAAAATAT-
1 TAA-AAAATTATAAAAAATA
50104522 TAAAAAA
1 TAAAAAA
50104529 ATCATTTATA
Statistics
Matches: 199, Mismatches: 62, Indels: 46
0.65 0.20 0.15
Matches are distributed among these distances:
15 1 0.01
16 22 0.11
17 13 0.07
18 56 0.28
19 53 0.27
20 48 0.24
21 6 0.03
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAAATTATAAAAAATA
Found at i:50104528 original size:28 final size:28
Alignment explanation
Indices: 50104465--50104530 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
50104455 AGATATAAAC
*
50104465 TTAAAAAATTATAAAAAATCATAAAAAG
1 TTAAAAAAATATAAAAAATCATAAAAAG
*
50104493 TTATAAAAATATAATAAAAT-ATAAAATA-
1 TTAAAAAAATATAA-AAAATCATAAAA-AG
50104521 TTAAAAAAAT
1 TTAAAAAAAT
50104531 CATTTATACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
TTAAAAAAATATAAAAAATCATAAAAAG
Found at i:50105115 original size:9 final size:9
Alignment explanation
Indices: 50105103--50105275 Score: 63
Period size: 9 Copynumber: 18.8 Consensus size: 9
50105093 TTTTTATGTT
50105103 TTTTTATAA
1 TTTTTATAA
50105112 TTTTTATAAA
1 TTTTTAT-AA
*
50105122 TTTGTATCAA
1 TTTTTAT-AA
* **
50105132 TTTTAATTT
1 TTTTTATAA
50105141 TTTTTATAA
1 TTTTTATAA
50105150 -TTTTATAA
1 TTTTTATAA
*
50105158 GCTTTTA-AGA
1 -TTTTTATA-A
*
50105168 ATTTTATAAA
1 TTTTTAT-AA
* *
50105178 ATTTCA-AA
1 TTTTTATAA
*
50105186 TATTTTAAATA
1 T-TTTTATA-A
50105197 TGTTTTATTAA
1 T-TTTTA-TAA
50105208 -TTTTATAA
1 TTTTTATAA
*
50105216 TTTATTAGAA
1 TTT-TTATAA
*
50105226 ATTTTAT-A
1 TTTTTATAA
* *
50105234 TTTCTACAA
1 TTTTTATAA
*
50105243 TATTTATAAA
1 TTTTTAT-AA
*
50105253 TTATTAT--
1 TTTTTATAA
50105260 TTTTTATAA
1 TTTTTATAA
50105269 TTTTTAT
1 TTTTTAT
50105276 GTCGATTTAA
Statistics
Matches: 121, Mismatches: 27, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
7 6 0.05
8 18 0.15
9 45 0.37
10 42 0.35
11 9 0.07
12 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50105274 original size:26 final size:26
Alignment explanation
Indices: 50105199--50105275 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
50105189 TTTAAATATG
* *
50105199 TTTTATTAATTTTATAATTTATTAGAAA
1 TTTTA-TATTTTTATAATTT-TTATAAA
* * *
50105227 TTTTATATTTCTACAATATTTATAAA
1 TTTTATATTTTTATAATTTTTATAAA
50105253 TTATTAT-TTTTTATAATTTTTAT
1 TT-TTATATTTTTATAATTTTTAT
50105276 GTCGATTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 21 0.52
27 14 0.35
28 5 0.12
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTATATTTTTATAATTTTTATAAA
Found at i:50105311 original size:16 final size:16
Alignment explanation
Indices: 50105290--50105324 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50105280 ATTTAATTTT
50105290 TTTAAATT-TTTTAATA
1 TTTAAATTATTTT-ATA
50105306 TTTAAATTATTTTATA
1 TTTAAATTATTTTATA
50105322 TTT
1 TTT
50105325 TTATGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAAATTATTTTATA
Found at i:50109231 original size:22 final size:22
Alignment explanation
Indices: 50109204--50109254 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
50109194 CTCATATTTC
50109204 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
50109226 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
50109248 ATCTCAA
1 CTCTCAA
50109255 ATCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:50109475 original size:14 final size:15
Alignment explanation
Indices: 50109444--50109474 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50109434 TTTTTAAATA
50109444 TTATTTAAGAATTTT
1 TTATTTAAGAATTTT
*
50109459 TTATTTATGAATTTT
1 TTATTTAAGAATTTT
50109474 T
1 T
50109475 AGATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATTTAAGAATTTT
Found at i:50110421 original size:7 final size:7
Alignment explanation
Indices: 50110409--50110433 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50110399 AGTCGATTGA
50110409 TATTTAG
1 TATTTAG
50110416 TATTTAG
1 TATTTAG
50110423 TATTTAG
1 TATTTAG
50110430 TATT
1 TATT
50110434 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:50111582 original size:43 final size:44
Alignment explanation
Indices: 50111530--50111628 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
50111520 TTATTTGTAC
* * *
50111530 AAATATTTTGA-ATATTTTGATATTATTTTATGTAAAAAAATAG
1 AAATTTTTTGAGATATTTTAATATTATTTGATGTAAAAAAATAG
* *
50111573 AAATTTTTTGAGTTATTTTAATATTATTTGATGTAATAAAATAG
1 AAATTTTTTGAGATATTTTAATATTATTTGATGTAAAAAAATAG
*
50111617 AAGTTTATTTGA
1 AAATTT-TTTGA
50111629 TGTAATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 10 0.21
44 33 0.69
45 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (44 bp):
AAATTTTTTGAGATATTTTAATATTATTTGATGTAAAAAAATAG
Found at i:50111591 original size:44 final size:45
Alignment explanation
Indices: 50111542--50111628 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 45
50111532 ATATTTTGAA
* *
50111542 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTAATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
50111586 TATTTTAATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTAATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
50111629 TGTAATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 33 0.87
45 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (45 bp):
TATTTTAATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:50111630 original size:25 final size:25
Alignment explanation
Indices: 50111596--50111708 Score: 123
Period size: 25 Copynumber: 4.7 Consensus size: 25
50111586 TATTTTAATA
50111596 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
50111621 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
50111646 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
50111665 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
50111691 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
50111709 ATCCTAACCT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
19 1 0.01
20 5 0.07
21 8 0.11
22 1 0.01
23 1 0.01
24 8 0.11
25 47 0.65
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:50111675 original size:70 final size:69
Alignment explanation
Indices: 50111552--50111708 Score: 278
Period size: 70 Copynumber: 2.3 Consensus size: 69
50111542 TATTTTGATA
* *
50111552 TTATTTTATGTAAAAAAATAGAAATTTTTTGAGTTATTTTAATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATAGAAATTTTTTGAGTTATTTTAATATTATTTGATGTAATAAAATAG
50111617 AAGT
66 AAGT
*
50111621 TTATTTGATGTAATAAAATAGAAATTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAGAAATTTTTT-GAGTTATTTTAATATTATTTGATGTAATAAAATA
50111686 GAAGT
65 GAAGT
50111691 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
50111709 ATCCTAACCT
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
69 28 0.33
70 56 0.67
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.46
Consensus pattern (69 bp):
TTATTTGATGTAATAAAATAGAAATTTTTTGAGTTATTTTAATATTATTTGATGTAATAAAATAG
AAGT
Found at i:50111756 original size:23 final size:23
Alignment explanation
Indices: 50111704--50112076 Score: 172
Period size: 29 Copynumber: 14.6 Consensus size: 23
50111694 TTTGATGTAA
* *
50111704 TAAAAATCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
***
50111727 CCTAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
50111750 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
*
50111779 TAAAAACCCTAAACCTTAA-CT--T
1 TAAAAACCCT-AACC-TAATTTAAT
50111801 TAAAAACCCTAACCTAATTTAA-
1 TAAAAACCCTAACCTAATTTAAT
*
50111823 TACAAAACCCTAACTTAATTTAAT
1 TA-AAAACCCTAACCTAATTTAAT
50111847 TAAAAACCCTAACACTAACCTAATTTAAT
1 TAAAAA--C---C-CTAACCTAATTTAAT
50111876 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
50111905 TAAAAACCCTAACCCTGACCTAATTTAAT
1 TAAAAACCCT-A-----ACCTAATTTAAT
50111934 TAAAAACCTAAACCCTAACCTAATTTAAT
1 T---AA---AAACCCTAACCTAATTTAAT
50111963 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
* *
50111992 TAAAAA-CCTTA---AACTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
50112012 TAAAAACCCTAAACCTTAACTTTAA-
1 TAAAAACCCT-AACC-TAA-TTTAAT
50112037 -AAACCCTAACCCTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
50112063 TAAAAACCCTAACC
1 TAAAAACCCTAACC
50112077 CTAACCTAAT
Statistics
Matches: 279, Mismatches: 16, Indels: 110
0.69 0.04 0.27
Matches are distributed among these distances:
19 6 0.02
20 10 0.04
21 8 0.03
22 18 0.06
23 65 0.23
24 11 0.04
25 11 0.04
26 5 0.02
27 20 0.07
28 11 0.04
29 97 0.35
30 1 0.00
31 3 0.01
32 2 0.01
33 1 0.00
34 1 0.00
35 9 0.03
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:50111769 original size:29 final size:29
Alignment explanation
Indices: 50111724--50111999 Score: 342
Period size: 29 Copynumber: 10.1 Consensus size: 29
50111714 AACCTAATTT
50111724 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
50111754 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
50111783 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
50111805 AACCCT-A-----ACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
50111828 AACCCTAA--CT----TAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
50111851 AACCCTAACACTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
50111880 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
50111909 AACCCTAACCCTGACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
50111938 AA-CCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
50111967 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
50111996 AACC
1 AACC
50112000 TTAAACTTAA
Statistics
Matches: 221, Mismatches: 6, Indels: 39
0.83 0.02 0.15
Matches are distributed among these distances:
20 3 0.01
21 2 0.01
22 13 0.06
23 26 0.12
24 4 0.02
25 5 0.02
28 3 0.01
29 156 0.71
30 9 0.04
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:50111954 original size:87 final size:84
Alignment explanation
Indices: 50111805--50112091 Score: 322
Period size: 87 Copynumber: 3.5 Consensus size: 84
50111795 TAACTTTAAA
*
50111805 AACCCTAACCTAATTTAA-TACAAAACCCTAACT---TAATTTAATTAAAAACCCT-AACACTAA
1 AACCCTAACCTAATTTAATTA-AAAACCCTAACTACCTAATTTAATTAAAAA-CCTAAACCCTAA
50111865 CCTAATTTAATTAAAAACCCT
64 CCTAATTTAATTAAAAACCCT
50111886 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTGACCTAATTTAATTAAAAACCTAAACCCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA--CT-ACCTAATTTAATTAAAAACCTAAACCCTA
50111951 ACCTAATTTAATTAAAAACCCT
63 ACCTAATTTAATTAAAAACCCT
* * * *
50111973 AACCCTAACCTAATTTAATTAAAAACCTTAA--ACTTAACTT-A--AAAACCCTAAA-CCT----
1 AACCCTAACCTAATTTAATTAAAAACCCTAACTACCTAATTTAATTAAAAACCTAAACCCTAACC
*
50112028 TAA-CT--TTAAAAACCCT
66 TAATTTAATTAAAAACCCT
50112044 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAA--CT-ACCTAATTTAAT
50112092 GCTATGTTGT
Statistics
Matches: 182, Mismatches: 9, Indels: 33
0.81 0.04 0.15
Matches are distributed among these distances:
71 41 0.23
73 1 0.01
74 3 0.02
76 7 0.04
77 1 0.01
78 3 0.02
79 10 0.05
81 29 0.16
82 9 0.05
83 2 0.01
86 3 0.02
87 73 0.40
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (84 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACTACCTAATTTAATTAAAAACCTAAACCCTAACC
TAATTTAATTAAAAACCCT
Found at i:50112010 original size:29 final size:29
Alignment explanation
Indices: 50111831--50112091 Score: 281
Period size: 29 Copynumber: 9.6 Consensus size: 29
50111821 AATACAAAAC
*
50111831 CCTAACTTAATTTAATTAAAAACCCT-AA
1 CCTAACCTAATTTAATTAAAAACCCTAAA
*
50111859 CACTAACCTAATTTAATTAAAAACCCTAAC
1 C-CTAACCTAATTTAATTAAAAACCCTAAA
*
50111889 CCTAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAA
*
50111918 CCTGACCTAATTTAATTAAAAA-CCTAAA
1 CCTAACCTAATTTAATTAAAAACCCTAAA
*
50111946 CCCTAACCTAATTTAATTAAAAACCCTAAC
1 -CCTAACCTAATTTAATTAAAAACCCTAAA
*
50111976 CCTAACCTAATTTAATTAAAAACCTTAAA
1 CCTAACCTAATTTAATTAAAAACCCTAAA
*
50112005 -CT----T-A---ACTTAAAAACCCTAAA
1 CCTAACCTAATTTAATTAAAAACCCTAAA
*
50112025 CCTTAA-CT-------TTAAAAACCCTAAC
1 CC-TAACCTAATTTAATTAAAAACCCTAAA
*
50112047 CCTAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAA
50112076 CCTAACCTAATTTAAT
1 CCTAACCTAATTTAAT
50112092 GCTATGTTGT
Statistics
Matches: 205, Mismatches: 11, Indels: 33
0.82 0.04 0.13
Matches are distributed among these distances:
20 14 0.07
21 4 0.02
22 18 0.09
23 1 0.00
24 1 0.00
25 1 0.00
28 8 0.04
29 151 0.74
30 7 0.03
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (29 bp):
CCTAACCTAATTTAATTAAAAACCCTAAA
Found at i:50112016 original size:20 final size:21
Alignment explanation
Indices: 50111987--50112045 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
50111977 CTAACCTAAT
*
50111987 TTAA-TTAAAAACCTTAAA-C
1 TTAACTTAAAAACCCTAAACC
50112006 TTAACTTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAAACC
50112027 TTAACTTTAAAAACCCTAA
1 TTAAC-TTAAAAACCCTAA
50112046 CCCTAACCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 4 0.11
20 13 0.36
21 6 0.17
22 13 0.36
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:50112047 original size:21 final size:20
Alignment explanation
Indices: 50111987--50112052 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
50111977 CTAACCTAAT
* *
50111987 TTAA-TTAAAAACCTTAAAC
1 TTAACTTAAAAACCCTAACC
50112006 TTAACTTAAAAACCCTAAACC
1 TTAACTTAAAAACCCT-AACC
50112027 TTAACTTTAAAAACCCTAACC
1 TTAAC-TTAAAAACCCTAACC
*
50112048 CTAAC
1 TTAAC
50112053 CTAATTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 4 0.10
20 10 0.24
21 16 0.39
22 11 0.27
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:50114828 original size:126 final size:126
Alignment explanation
Indices: 50114603--50114951 Score: 619
Period size: 125 Copynumber: 2.8 Consensus size: 126
50114593 AACATGCTAT
* *
50114603 TGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTTACAAATGCTTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
*
50114668 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTACTTGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTACGTGACCTAC
*
50114729 TGTAGCAAAAGCGTGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
*
50114794 AGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAATAATTATTTCTTCCGTGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTACGTGACCTAC
* *
50114854 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGTTAGA
1 TGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
*
50114919 AGCGATTTTATACTATTTGATCAGAAACGTCAA
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAA
50114952 CTCAAAATTA
Statistics
Matches: 213, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
125 119 0.56
126 94 0.44
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (126 bp):
TGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTACGTGACCTAC
Found at i:50123252 original size:25 final size:25
Alignment explanation
Indices: 50123224--50123462 Score: 194
Period size: 25 Copynumber: 9.6 Consensus size: 25
50123214 CTCTACGGAT
* *
50123224 TTTCCAGAGAATTCGCTACAAAAGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* * *
50123249 TTTCCAAAGAATTCACCACAAAAGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* *
50123274 TTTCCAAAGAATTCACCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* * ** * *
50123299 TTTCTAAAGAATTCGGAATAAAGGA
1 TTTCCAGAGAATTCGCCACAAAGGC
* *
50123324 TTTCCAGAGGATTTGCCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
*
50123349 TTTCCAGAGAATTCGTCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* ** *
50123374 TTTTCAGAGAATTC-TTATAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* * *** * *
50123398 TCTT-CAAAAAATTTATCATAAAGGT
1 T-TTCCAGAGAATTCGCCACAAAGGC
*
50123423 TTTCCATAGAATTCGCCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
*
50123448 TTTCTAGAGAATTCG
1 TTTCCAGAGAATTCG
50123463 TATTTACTAT
Statistics
Matches: 173, Mismatches: 38, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
24 18 0.10
25 155 0.90
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (25 bp):
TTTCCAGAGAATTCGCCACAAAGGC
Found at i:50123328 original size:50 final size:50
Alignment explanation
Indices: 50123224--50123463 Score: 214
Period size: 50 Copynumber: 4.8 Consensus size: 50
50123214 CTCTACGGAT
* * ** *
50123224 TTTCCAGAGAATTCGCTACAAAAGCTTTCCAAAGAATTCACCACAAAAGC
1 TTTCCAGAGAATTCGCCACAAAGGCTTTCCAAAGAATTCGTCACAAAGGC
* * * ** * *
50123274 TTTCCAAAGAATTCACCACAAAGGCTTTCTAAAGAATTCGGAATAAAGGA
1 TTTCCAGAGAATTCGCCACAAAGGCTTTCCAAAGAATTCGTCACAAAGGC
* * *
50123324 TTTCCAGAGGATTTGCCACAAAGGCTTTCCAGAGAATTCGTCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGCTTTCCAAAGAATTCGTCACAAAGGC
* ** * * ** * *
50123374 TTTTCAGAGAATTC-TTATAAAGGCTCTT-CAAAAAATTTATCATAAAGGT
1 TTTCCAGAGAATTCGCCACAAAGGCT-TTCCAAAGAATTCGTCACAAAGGC
* * *
50123423 TTTCCATAGAATTCGCCACAAAGGCTTTCTAGAGAATTCGT
1 TTTCCAGAGAATTCGCCACAAAGGCTTTCCAAAGAATTCGT
50123464 ATTTACTATC
Statistics
Matches: 144, Mismatches: 43, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
49 37 0.26
50 107 0.74
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (50 bp):
TTTCCAGAGAATTCGCCACAAAGGCTTTCCAAAGAATTCGTCACAAAGGC
Found at i:50136153 original size:23 final size:21
Alignment explanation
Indices: 50136113--50136160 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
50136103 TTTTAAAGTT
50136113 TTGAAAGTTGTCATTGTTGAGAA
1 TTGAAAGTTGTCATTGTT-A-AA
*
50136136 TTGAAAGTT-TTATGTGTTAAA
1 TTGAAAGTTGTCAT-TGTTAAA
50136157 TTGA
1 TTGA
50136161 TAGAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 4 0.17
23 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (21 bp):
TTGAAAGTTGTCATTGTTAAA
Found at i:50141598 original size:25 final size:25
Alignment explanation
Indices: 50141570--50141651 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
50141560 CAGCTCTCTT
50141570 GAGCTTCCTGATATTTGGCTCGCAA
1 GAGCTTCCTGATATTTGGCTCGCAA
* * * * * *
50141595 GAGCTTCCCGTTACTTAGCTCACAT
1 GAGCTTCCTGATATTTGGCTCGCAA
* * *
50141620 GAGCTT-CTCATTATATGGCTCGAAA
1 GAGCTTCCTGA-TATTTGGCTCGCAA
50141645 GAGCTTC
1 GAGCTTC
50141652 TCGTTTACAT
Statistics
Matches: 40, Mismatches: 15, Indels: 3
0.69 0.26 0.05
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCTGATATTTGGCTCGCAA
Found at i:50141673 original size:25 final size:25
Alignment explanation
Indices: 50141618--50141673 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
50141608 CTTAGCTCAC
*
50141618 ATGAGCTTCTCATTATATGGCTCGA
1 ATGAGCTTCTCATTACATGGCTCGA
* * *
50141643 AAGAGCTTCTCGTTTACAT-GCTCGT
1 ATGAGCTTCTC-ATTACATGGCTCGA
50141668 ATGAGC
1 ATGAGC
50141674 ACATATGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCTCATTACATGGCTCGA
Found at i:50143663 original size:17 final size:17
Alignment explanation
Indices: 50143641--50143681 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
50143631 AAAAAATTAT
50143641 ATTTTTTTGAATTTTGA
1 ATTTTTTTGAATTTTGA
50143658 ATTTTTTTGAATTTTGA
1 ATTTTTTTGAATTTTGA
*
50143675 ATATTTT
1 ATTTTTT
50143682 ATAATTGTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (17 bp):
ATTTTTTTGAATTTTGA
Found at i:50143687 original size:17 final size:17
Alignment explanation
Indices: 50143641--50143687 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
50143631 AAAAAATTAT
*
50143641 ATTTTTTTGAATTTTGA
1 ATTTTTATGAATTTTGA
*
50143658 ATTTTTTTGAATTTTGA
1 ATTTTTATGAATTTTGA
50143675 ATATTTTAT-AATT
1 AT-TTTTATGAATT
50143688 GTCGAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (17 bp):
ATTTTTATGAATTTTGA
Found at i:50144940 original size:2 final size:2
Alignment explanation
Indices: 50144933--50144968 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
50144923 ATGAATTGAA
50144933 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
50144969 TTGCATGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50145080 original size:25 final size:26
Alignment explanation
Indices: 50145011--50145081 Score: 63
Period size: 29 Copynumber: 2.6 Consensus size: 26
50145001 ATAGAGTATG
50145011 TGTATGCATGTATATTTATAATAATTAAA
1 TGTATGCATGTATA--TATAATAA-TAAA
* * *
50145040 AGTATGTACATATATATATTATAA-AAA
1 TGTATG--CATGTATATATAATAATAAA
50145067 TGTATGCATGTATAT
1 TGTATGCATGTATAT
50145082 TTTAAAGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
25 8 0.23
27 8 0.23
29 12 0.34
31 7 0.20
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (26 bp):
TGTATGCATGTATATATAATAATAAA
Found at i:50145321 original size:26 final size:27
Alignment explanation
Indices: 50145288--50145361 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 27
50145278 TGAAATATGC
* * *
50145288 AAAAAAATGTATTTATA-ATAATTTTT
1 AAAAAAATGTATATATATATAAATTAT
50145314 AAAAAAATGTACGTATATATATAAATTAT
1 AAAAAAATGTA--TATATATATAAATTAT
50145343 AAAAAATATGTATATATAT
1 AAAAAA-ATGTATATATAT
50145362 TGCAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.27
28 12 0.29
29 13 0.32
30 5 0.12
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.39
Consensus pattern (27 bp):
AAAAAAATGTATATATATATAAATTAT
Found at i:50145428 original size:3 final size:3
Alignment explanation
Indices: 50145422--50145525 Score: 208
Period size: 3 Copynumber: 34.7 Consensus size: 3
50145412 CATGATGATG
50145422 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50145470 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50145518 ATA ATA AT
1 ATA ATA AT
50145526 CATCATCATC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:50145530 original size:3 final size:3
Alignment explanation
Indices: 50145524--50145585 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
50145514 AATAATAATA
50145524 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
50145572 ATC ATC ATC TTC AT
1 ATC ATC ATC ATC AT
50145586 ATATCATGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:50145785 original size:15 final size:14
Alignment explanation
Indices: 50145756--50145802 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
50145746 ATTTAAATCA
50145756 TTTGTAAAAACATAT
1 TTTGTAAAAA-ATAT
50145771 GTTTGTAAAAAATAT
1 -TTTGTAAAAAATAT
*
50145786 ATTG-AAAAAATAT
1 TTTGTAAAAAATAT
50145799 TTTG
1 TTTG
50145803 GAATTGAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 3 0.10
15 4 0.14
16 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (14 bp):
TTTGTAAAAAATAT
Found at i:50145787 original size:17 final size:16
Alignment explanation
Indices: 50145756--50145785 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50145746 ATTTAAATCA
50145756 TTTGTAAAAACATATG
1 TTTGTAAAAACATATG
50145772 TTTGTAAAAA-ATAT
1 TTTGTAAAAACATAT
50145786 ATTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (16 bp):
TTTGTAAAAACATATG
Found at i:50146680 original size:22 final size:23
Alignment explanation
Indices: 50146632--50146686 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
50146622 TTTTTTTATT
* *
50146632 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAACTATATTGTTA
50146655 TTAAAATTAAAACTA-ATTGTTA
1 TTAAAATTAAAACTATATTGTTA
50146677 TTAAAATTAA
1 TTAAAATTAA
50146687 TTGTTATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAAAATTAAAACTATATTGTTA
Found at i:50146681 original size:16 final size:16
Alignment explanation
Indices: 50146660--50146714 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
50146650 TTTTATTAAA
*
50146660 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
50146676 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
50146692 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
50146708 ATTAAAA
1 ATTAAAA
50146715 ATTGTATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Done.