Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 316 of 438
Found at i:98898478 original size:139 final size:139
Alignment explanation
Indices: 98898228--98898484 Score: 315
Period size: 139 Copynumber: 1.8 Consensus size: 139
98898218 TTTGTGTATT
* ***
98898228 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCTAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AAGCTAGTGTAAGACCATGTCCAG
* * * *
98898293 GACATGGCACCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGG-CATGCATCGGCCTTGA
65 GACAAGGCACCAGCATGGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA
98898357 GATGTAAGCC
130 GATGTAAGCC
* * * *
98898367 AGTGTAAGATATGTCTGGGACATGCATCGGCTACGA-GATG-TG-TCAGTGTAAGACTATGTCCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAAGCT-AGTGTAAGACCATGTCCA
* *
98898429 GGACAAGGCATCAGCATGGAGATTGAGAGCCAGTGTAAGACCATGTCTGGGACATG
64 GGACAAGGCACCAGCATGGAGA-CGAGAGCCAGTGTAAGA-CATGTCTGGGACATG
98898485 GCGTCAGCCT
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
136 1 0.01
137 33 0.33
138 15 0.15
139 45 0.45
140 5 0.05
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAAGCTAGTGTAAGACCATGTCCAGG
ACAAGGCACCAGCATGGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAG
ATGTAAGCC
Found at i:98898482 original size:49 final size:48
Alignment explanation
Indices: 98898228--98898590 Score: 274
Period size: 49 Copynumber: 7.7 Consensus size: 48
98898218 TTTGTGTATT
* * *
98898228 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-C-ATTATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGA-GATGAGAGCC
* * * * *
98898274 AGTGTAAGACCATGTTTGGGACATGGCACCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGAGCC
* *
98898322 AGTGTAAGA-CATGTCTGGG-CAT-GCATCGGCCTTGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATG-AGAGCC
* * *
98898367 AGTGTAAGA-TATGTCTGGGACAT-GCATCGGC-TACGAGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGATGAGAGCC
* ** * * *
98898411 AGTGTAAGACTATGTCCAGGACAAGGCATCAGCATGGAGATTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA-TGAGAGCC
* * * * *
98898460 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGA-ATTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA-T-GAGAGCC
* **
98898509 AGTGTAAAACCATGTCTGGGACATGGCATC-G-A-CTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGAT-GA-GAGCC
*
98898556 AATGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
98898591 TACACCCTAT
Statistics
Matches: 256, Mismatches: 41, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.04
45 47 0.18
46 44 0.17
47 58 0.23
48 27 0.11
49 69 0.27
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGAGCC
Found at i:98899755 original size:21 final size:20
Alignment explanation
Indices: 98899731--98899770 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
98899721 GTTATAATGA
*
98899731 CCACACGTGCGTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
*
98899752 CCACATGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
98899771 ATTTCAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:98913023 original size:19 final size:19
Alignment explanation
Indices: 98912999--98913036 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
98912989 TATAATTCTT
98912999 TTACCTGCATAAACTTTCG
1 TTACCTGCATAAACTTTCG
98913018 TTACCTGCATAAACTTTCG
1 TTACCTGCATAAACTTTCG
98913037 CTTATTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (19 bp):
TTACCTGCATAAACTTTCG
Found at i:98916449 original size:2 final size:2
Alignment explanation
Indices: 98916442--98916470 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
98916432 GTATTTGTAT
98916442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
98916471 TCTCCGAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98919692 original size:3 final size:3
Alignment explanation
Indices: 98919684--98919732 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
98919674 AGATATTTAC
98919684 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
98919732 T
1 T
98919733 CAATTAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:98919891 original size:12 final size:12
Alignment explanation
Indices: 98919874--98919899 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98919864 AAAGAAATAA
98919874 AATAAATAAAAG
1 AATAAATAAAAG
98919886 AATAAATAAAAG
1 AATAAATAAAAG
98919898 AA
1 AA
98919900 AGAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AATAAATAAAAG
Found at i:98919945 original size:15 final size:15
Alignment explanation
Indices: 98919895--98919949 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
98919885 GAATAAATAA
* *
98919895 AAGAAAGAAAAACAAG
1 AAGAAAGAAATA-GAG
*
98919911 AA-AAAGAAGTAGAG
1 AAGAAAGAAATAGAG
98919925 AAGAAACGAAATAGA-
1 AAGAAA-GAAATAGAG
98919940 AAGAAAGAAA
1 AAGAAAGAAA
98919950 GAAGAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 8 0.24
15 16 0.48
16 9 0.27
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.04
Consensus pattern (15 bp):
AAGAAAGAAATAGAG
Found at i:98919974 original size:26 final size:25
Alignment explanation
Indices: 98919881--98919975 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 25
98919871 TAAAATAAAT
*
98919881 AAAAGAATAAATA-AAAGAAAGAAAA-
1 AAAAGAA-AAAGAGAAAG-AAGAAAAG
* * *
98919906 ACAAGAAAAAGAAGTAGAGAAGAAACG
1 AAAAGAAAAAG-AG-AAAGAAGAAAAG
98919933 AAATAGAAAGAA-AGAAAGAAGAAAAG
1 AAA-AGAAA-AAGAGAAAGAAGAAAAG
98919959 AAAAGAAAAAGGAGAAA
1 AAAAGAAAAA-GAGAAA
98919976 TTAGGGTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
24 5 0.09
25 12 0.22
26 24 0.44
27 7 0.13
28 5 0.09
29 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAGAGAAAGAAGAAAAG
Found at i:98922853 original size:17 final size:17
Alignment explanation
Indices: 98922831--98922871 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
98922821 GGAATGATAG
98922831 TAAAATTATTAATTTGT
1 TAAAATTATTAATTTGT
98922848 TAAAATTATTAATTTGT
1 TAAAATTATTAATTTGT
*
98922865 TACAATT
1 TAAAATT
98922872 TAGTACAATT
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:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAAATTATTAATTTGT
Found at i:98929170 original size:2 final size:2
Alignment explanation
Indices: 98929163--98929187 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
98929153 CAAATATCAT
98929163 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
98929188 GTATGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98933157 original size:44 final size:43
Alignment explanation
Indices: 98933090--98933178 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 43
98933080 AATTGAGCCG
*
98933090 TAAGCGACAAAAAAATCAATTAAGTCTTTCTGCAAATAAAAAT
1 TAAGCGACAAAAAAATCAATTAAGTCTTTCTGCAAACAAAAAT
*
98933133 TAAGTGACAAAAAAATTCAATTAAGTCTTTCTGCAAACAAAAAT
1 TAAGCGACAAAAAAA-TCAATTAAGTCTTTCTGCAAACAAAAAT
98933177 TA
1 TA
98933179 TCGTTGGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 14 0.33
44 29 0.67
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (43 bp):
TAAGCGACAAAAAAATCAATTAAGTCTTTCTGCAAACAAAAAT
Found at i:98933615 original size:25 final size:25
Alignment explanation
Indices: 98933567--98933614 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
98933557 CAAAAGGTTA
98933567 AAAAAATTATAAAAATTATTAAAAG
1 AAAAAATTATAAAAATTATTAAAAG
*
98933592 AAAAACTTAT-AAAATTATTAAAA
1 AAAAAATTATAAAAATTATTAAAA
98933615 ATATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAAATTATAAAAATTATTAAAAG
Found at i:98934011 original size:16 final size:17
Alignment explanation
Indices: 98933990--98934022 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
98933980 ACTTAATAAA
98933990 AAATAAAATGTC-CTAT
1 AAATAAAATGTCACTAT
*
98934006 AAATAAATTGTCACTAT
1 AAATAAAATGTCACTAT
98934023 TTTTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (17 bp):
AAATAAAATGTCACTAT
Found at i:98944161 original size:21 final size:21
Alignment explanation
Indices: 98944135--98944174 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
98944125 AATCCTAAAT
98944135 AAAACCAAAAACTAAAAACCA
1 AAAACCAAAAACTAAAAACCA
*
98944156 AAAACCATAAACTAAAAAC
1 AAAACCAAAAACTAAAAAC
98944175 TTTAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.70, C:0.23, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAACCAAAAACTAAAAACCA
Found at i:98944175 original size:7 final size:7
Alignment explanation
Indices: 98944135--98944174 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
98944125 AATCCTAAAT
98944135 AAAACCA
1 AAAACCA
*
98944142 AAAACTA
1 AAAACCA
98944149 AAAACCA
1 AAAACCA
98944156 AAAACCA
1 AAAACCA
* *
98944163 TAAACTA
1 AAAACCA
98944170 AAAAC
1 AAAAC
98944175 TTTAAATAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.70, C:0.23, G:0.00, T:0.07
Consensus pattern (7 bp):
AAAACCA
Found at i:98945127 original size:17 final size:16
Alignment explanation
Indices: 98945105--98945137 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
98945095 TGTTATTGCC
98945105 GAAAATAAAATAAGAAA
1 GAAAATAAAA-AAGAAA
98945122 GAAAATAAAAAAGAAA
1 GAAAATAAAAAAGAAA
98945138 CAAGGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (16 bp):
GAAAATAAAAAAGAAA
Found at i:98946296 original size:35 final size:35
Alignment explanation
Indices: 98946220--98946406 Score: 116
Period size: 35 Copynumber: 5.3 Consensus size: 35
98946210 ATAGGTAAGT
* * * *
98946220 ATATGTGAGCTTATATTGAACTTGAATATTCGATT
1 ATATGTGAGTTTATATTGAATTTGAATATTCGGTC
* **
98946255 ACATGTGAGTTTATATTGAATTTGTGTATTCGGTC
1 ATATGTGAGTTTATATTGAATTTGAATATTCGGTC
* *
98946290 ATATGTGAAG-TTA-ACTTGAATGTGCATATTCGG-C
1 ATATGTG-AGTTTATA-TTGAATTTGAATATTCGGTC
* * *
98946324 TATATGTGA-TGTTCTATTGAATTTGAACTA-TAGGTT
1 -ATATGTGAGT-TTATATTGAATTTGAA-TATTCGGTC
* * * *
98946360 ATATATGATGTTT-TATTTAACTTTTATATATTCGGCC
1 ATATGTGA-GTTTATATTGAA-TTTGA-ATATTCGGTC
98946397 ATATGTGAGT
1 ATATGTGAGT
98946407 CCATTAAGAA
Statistics
Matches: 116, Mismatches: 23, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
34 3 0.03
35 86 0.74
36 15 0.13
37 12 0.10
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (35 bp):
ATATGTGAGTTTATATTGAATTTGAATATTCGGTC
Found at i:98951761 original size:10 final size:10
Alignment explanation
Indices: 98951746--98951777 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
98951736 AATGAAATTT
98951746 GAATCGAGTC
1 GAATCGAGTC
98951756 GAATCGAGTC
1 GAATCGAGTC
*
98951766 GAATCGAATC
1 GAATCGAGTC
98951776 GA
1 GA
98951778 GTTAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (10 bp):
GAATCGAGTC
Found at i:98951772 original size:15 final size:15
Alignment explanation
Indices: 98951749--98951779 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
98951739 GAAATTTGAA
*
98951749 TCGAGTCGAATCGAG
1 TCGAATCGAATCGAG
98951764 TCGAATCGAATCGAG
1 TCGAATCGAATCGAG
98951779 T
1 T
98951780 TAAATTAAAA
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:0.19, G:0.29, T:0.23
Consensus pattern (15 bp):
TCGAATCGAATCGAG
Found at i:98952065 original size:20 final size:19
Alignment explanation
Indices: 98951971--98952098 Score: 73
Period size: 20 Copynumber: 6.5 Consensus size: 19
98951961 TAAAAAAATT
98951971 TAAATTTTT-AACTTTTTTTA
1 TAAATTTTTGAA--TTTTTTA
* *
98951991 TATATTTTTAGATTTTTTTA
1 TAAATTTTT-GAATTTTTTA
* *** *
98952011 TAAATTTTTTAAAAAATATA
1 TAAA-TTTTTGAATTTTTTA
*
98952031 TAAATTTTGGAATTTTTTA
1 TAAATTTTTGAATTTTTTA
*
98952050 TAAATATTTTGAATTTTTGA
1 TAAAT-TTTTGAATTTTTTA
*
98952070 -AAATCATTTTGAATTATTTTG
1 TAAAT--TTTTGAATT-TTTTA
98952091 T-AATTTTT
1 TAAATTTTT
98952099 ATTGAGAGAC
Statistics
Matches: 82, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
19 22 0.27
20 48 0.59
21 11 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
TAAATTTTTGAATTTTTTA
Found at i:98954415 original size:98 final size:97
Alignment explanation
Indices: 98954258--98954435 Score: 254
Period size: 98 Copynumber: 1.8 Consensus size: 97
98954248 TATGCTTTTG
* *
98954258 GGAGCAAAGTTTTATTATTACTTCCCTAAGCCTCCCTCAATACATTTGGGAGTAAGGTTTTGTTA
1 GGAGCAAAGTTTTATTATTACTTCCCTAAGCCTCCCTCAACACATTTGGGAGTAAGGTTTTATTA
*
98954323 TTACCTTCCGTAAGCTTCCCCCTACGCATCTA
66 ATACCTTCCGTAAGCTTCCCCCTACGCATCTA
* *
98954355 GGAG-AAAGGTTTTATTATTACCTTCCGTAAGCCTCCTCTC-ACACGTTTGGGAG-AAGGGTTTT
1 GGAGCAAA-GTTTTATTATTA-CTTCCCTAAGCCTCC-CTCAACACATTTGGGAGTAA-GGTTTT
98954417 ATTAATACCTTCCGTAAGC
62 ATTAATACCTTCCGTAAGC
98954436 CTCCTATCGT
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
96 3 0.04
97 18 0.25
98 48 0.67
99 3 0.04
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (97 bp):
GGAGCAAAGTTTTATTATTACTTCCCTAAGCCTCCCTCAACACATTTGGGAGTAAGGTTTTATTA
ATACCTTCCGTAAGCTTCCCCCTACGCATCTA
Found at i:98954440 original size:49 final size:48
Alignment explanation
Indices: 98954254--98954439 Score: 205
Period size: 49 Copynumber: 3.8 Consensus size: 48
98954244 CCCTTATGCT
* * *
98954254 TTTGGGAGCAAAGTTTTATTATTA-CTTCCCTAAGCCTCCCTCAATACA
1 TTTGGGAG-AAGGTTTTATTATTACCTTCCGTAAGCCTCCCTCAACACA
* * * * *
98954302 TTTGGGAGTAAGGTTTTGTTATTACCTTCCGTAAGCTTCCCCCTACGCA
1 TTTGGGAG-AAGGTTTTATTATTACCTTCCGTAAGCCTCCCTCAACACA
* * *
98954351 TCTAGGAGAAAGGTTTTATTATTACCTTCCGTAAGCCTCCTCTC-ACACG
1 TTTGGGAG-AAGGTTTTATTATTACCTTCCGTAAGCCTCC-CTCAACACA
*
98954400 TTTGGGAGAAGGGTTTTATTAATACCTTCCGTAAGCCTCC
1 TTTGGGAGAA-GGTTTTATTATTACCTTCCGTAAGCCTCC
98954440 TATCGTACAT
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 23 0.20
49 90 0.78
50 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (48 bp):
TTTGGGAGAAGGTTTTATTATTACCTTCCGTAAGCCTCCCTCAACACA
Found at i:98954451 original size:98 final size:95
Alignment explanation
Indices: 98954258--98954475 Score: 250
Period size: 98 Copynumber: 2.3 Consensus size: 95
98954248 TATGCTTTTG
* *
98954258 GGAGCAAAGTTTTATTATTA-CTTCCCTAAGCCTCCCTCAATACATTTGGGAGTAAGGTTTTGTT
1 GGAGCAAAGTTTTATTATTACCTTCCCTAAGCCTCCCTCAACACATTTGGGAGTAAGGTTTTATT
*
98954322 ATTACCTTCCGTAAGCTTCCCCCTACGCATCT
66 AATACCTTCCGTAAG--TCCCCCTACGCATCT
* *
98954354 AGGAG-AAAGGTTTTATTATTACCTTCCGTAAGCCTCCTCTC-ACACGTTTGGGAG-AAGGGTTT
1 -GGAGCAAA-GTTTTATTATTACCTTCCCTAAGCCTCC-CTCAACACATTTGGGAGTAA-GGTTT
*
98954416 TATTAATACCTTCCGTAAG-CCTCCTATCGTACATCT
62 TATTAATACCTTCCGTAAGTCCCCCTA-CG--CATCT
98954452 GGAAGCAAAG-TTTATTATTACCTT
1 GG-AGCAAAGTTTTATTATTACCTT
98954476 TTGTAAGTGT
Statistics
Matches: 106, Mismatches: 6, Indels: 18
0.82 0.05 0.14
Matches are distributed among these distances:
95 6 0.06
96 5 0.05
97 34 0.32
98 55 0.52
99 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (95 bp):
GGAGCAAAGTTTTATTATTACCTTCCCTAAGCCTCCCTCAACACATTTGGGAGTAAGGTTTTATT
AATACCTTCCGTAAGTCCCCCTACGCATCT
Found at i:98957025 original size:18 final size:18
Alignment explanation
Indices: 98957002--98957039 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
98956992 TAGCCATGTG
*
98957002 TTCTTTCTCTTCTTTTCT
1 TTCTTTCTCTTCTTTCCT
*
98957020 TTCTTTCTTTTCTTTCCT
1 TTCTTTCTCTTCTTTCCT
98957038 TT
1 TT
98957040 TTAATTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTTCTCTTCTTTCCT
Found at i:98963348 original size:21 final size:20
Alignment explanation
Indices: 98963308--98963349 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
98963298 AGATTTAGAA
*
98963308 TTGAATTATAAATTTATTTT
1 TTGAATTATAAATGTATTTT
98963328 TTGAGATTA-AAATGTATTTT
1 TTGA-ATTATAAATGTATTTT
98963348 TT
1 TT
98963350 ATTAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (20 bp):
TTGAATTATAAATGTATTTT
Found at i:98964269 original size:6 final size:6
Alignment explanation
Indices: 98964251--98964283 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
98964241 GTTGAGTTCA
*
98964251 AATCTC AACCTC AATCTC AATCTC AATCTC AAT
1 AATCTC AATCTC AATCTC AATCTC AATCTC AAT
98964284 ACATACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (6 bp):
AATCTC
Found at i:98965762 original size:19 final size:18
Alignment explanation
Indices: 98965734--98965769 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
98965724 AAGTTACCTT
98965734 CTTTGTTTCTGGTTTTGA
1 CTTTGTTTCTGGTTTTGA
*
98965752 CTTTGGTTTCTGTTTTTG
1 CTTT-GTTTCTGGTTTTG
98965770 TTTGTGGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.03, C:0.11, G:0.22, T:0.64
Consensus pattern (18 bp):
CTTTGTTTCTGGTTTTGA
Found at i:98968899 original size:16 final size:16
Alignment explanation
Indices: 98968874--98968910 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
98968864 TTCATTTTCT
*
98968874 AAAAGCAAAAAAAAAA
1 AAAAGAAAAAAAAAAA
*
98968890 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAAAAAAA
98968906 AAAAG
1 AAAAG
98968911 GTTTGGCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAA
Found at i:98974225 original size:2 final size:2
Alignment explanation
Indices: 98974175--98974208 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
98974165 TACTCTGTAC
98974175 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
98974209 CTTGATGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:98974890 original size:25 final size:27
Alignment explanation
Indices: 98974834--98974890 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
98974824 TTCTTCAATA
**
98974834 TAATTATTATAGGTATTTTAATAAATT
1 TAATTATTATAAATATTTTAATAAATT
*
98974861 AAATTATTATAAATA-TTT-ATAAATT
1 TAATTATTATAAATATTTTAATAAATT
98974886 TAATT
1 TAATT
98974891 TAAGTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 11 0.42
26 3 0.12
27 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATTATTATAAATATTTTAATAAATT
Found at i:98983444 original size:40 final size:40
Alignment explanation
Indices: 98983358--98983471 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
98983348 CAACTATGTT
** *
98983358 TGGCACTTAGTGTGCGATTTGAGATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATAGGAGATAGCTTCGGCTATATA
** *
98983398 AAGCACTTAGTGTGCGAATAGGA-ATAGCTTCGGCTATATG
1 TGGCACTTAGTGTGCG-ATAGGAGATAGCTTCGGCTATATA
* * * *
98983438 TGGCACTAAGTGTGTGATACCGAGATAGTTTCGG
1 TGGCACTTAGTGTGCGATA-GGAGATAGCTTCGG
98983472 TTTAATGTGA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
39 3 0.05
40 43 0.73
41 13 0.22
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATAGGAGATAGCTTCGGCTATATA
Found at i:98989376 original size:26 final size:26
Alignment explanation
Indices: 98989346--98989427 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
98989336 TGAAATGCCC
98989346 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
98989372 ATCATGGAACATTTACCGAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
98989398 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
98989424 ATCA
1 ATCA
98989428 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:98995873 original size:25 final size:27
Alignment explanation
Indices: 98995836--98995888 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
98995826 TCAAACATGC
98995836 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
98995862 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
98995888 A
1 A
98995889 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:98997403 original size:26 final size:26
Alignment explanation
Indices: 98997373--98997428 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
98997363 TGAAATGCCC
*
98997373 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACATAACCCATT
98997399 ATCATGGAACATTTACATAACCCATT
1 ATCATGGAACATTTACATAACCCATT
98997425 ATCA
1 ATCA
98997429 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACATAACCCATT
Found at i:99007788 original size:43 final size:43
Alignment explanation
Indices: 99007645--99007789 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
99007635 TAAGGTCACA
* * *
99007645 TCTGGGATGTTGGCATC-A-ATTTGAGATTTACATGCAAGACGATG
1 TCTGGGACGTTGGCATCGATATTT--GA-TTACATGTAAGACCATG
* * * *
99007689 TCTGGGACATCGACATCG-TATTTGATTTCATGTAAGACCATG
1 TCTGGGACGTTGGCATCGATATTTGATTACATGTAAGACCATG
* * *
99007731 TTTGGGATAG-TGGCATCGATATTTGATTACATGTAAGACCACG
1 TCTGGGA-CGTTGGCATCGATATTTGATTACATGTAAGACCATG
99007774 TCTGGGACGTTGGCAT
1 TCTGGGACGTTGGCAT
99007790 TGTACGAGCT
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
42 27 0.34
43 36 0.45
44 13 0.16
45 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TCTGGGACGTTGGCATCGATATTTGATTACATGTAAGACCATG
Found at i:99008269 original size:18 final size:18
Alignment explanation
Indices: 99008246--99008285 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
99008236 ATCATCACAT
99008246 TATCAAACTTAACTTTGG
1 TATCAAACTTAACTTTGG
99008264 TATCAAACTTAACTTTGG
1 TATCAAACTTAACTTTGG
99008282 TATC
1 TATC
99008286 TTTTGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (18 bp):
TATCAAACTTAACTTTGG
Found at i:99009105 original size:201 final size:200
Alignment explanation
Indices: 99008754--99009137 Score: 696
Period size: 201 Copynumber: 1.9 Consensus size: 200
99008744 ACGAGCTAGA
* * *
99008754 CACACGGGCATGTCTCCGGTCGTGTGGTACAAGTCAGTATGTGTGCCTTGTTTTGCGACGGCCTA
1 CACACAGGCATGTCTCCGGTCGTGTGGTACAAGTCAGTATGTGTGCCCTGTTTTGCCACGGCCTA
99008819 GACACACAAGCGTGTCTAATGCTGTGTGAGGCACACGGCCTGTTCACATAGGTGTGTGAGATTTG
66 GACACACAAGCGTGTCTAATGCTGTGTGAGGCACACGGCCTGTTCACATAGGTGTGTGAGATTTG
*
99008884 GAATGTTGAAAATTTTTCTAAGTTTCTGAAATTTTTATATGTTATCAATTTAGTTTCGGCAACTG
131 GAATGTTGAAAAATTTTCTAAG-TTCTGAAATTTTTATATGTTATCAATTTAGTTTCGGCAACTG
99008949 CCAAGG
195 CCAAGG
*
99008955 CACACAGGCATGTCTCCGGTCGTGTGGTACAAGTCAGTATGTGTGCCCTGTTTTGCCATGGCCTA
1 CACACAGGCATGTCTCCGGTCGTGTGGTACAAGTCAGTATGTGTGCCCTGTTTTGCCACGGCCTA
**
99009020 GACACATGAGCGTGTCTAATGCTGTGTGAGGCACACGGCCTGTTCACATAGGTGTGTGAGATTTG
66 GACACACAAGCGTGTCTAATGCTGTGTGAGGCACACGGCCTGTTCACATAGGTGTGTGAGATTTG
99009085 GAATGTTGAAAAATTTTCTAAGTTCTGAAATTTTTATATGTTATCAATTTAGT
131 GAATGTTGAAAAATTTTCTAAGTTCTGAAATTTTTATATGTTATCAATTTAGT
99009138 CCCGAATGCA
Statistics
Matches: 176, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
200 31 0.18
201 145 0.82
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (200 bp):
CACACAGGCATGTCTCCGGTCGTGTGGTACAAGTCAGTATGTGTGCCCTGTTTTGCCACGGCCTA
GACACACAAGCGTGTCTAATGCTGTGTGAGGCACACGGCCTGTTCACATAGGTGTGTGAGATTTG
GAATGTTGAAAAATTTTCTAAGTTCTGAAATTTTTATATGTTATCAATTTAGTTTCGGCAACTGC
CAAGG
Found at i:99010837 original size:30 final size:30
Alignment explanation
Indices: 99010803--99010869 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
99010793 ACTAGGGGAT
*
99010803 ACACGGCCGTGTAACATGCCCGTGTATCAC
1 ACACGGCCATGTAACATGCCCGTGTATCAC
*
99010833 ACACGGCCATGTAACATGCTCGTGTATCAC
1 ACACGGCCATGTAACATGCCCGTGTATCAC
99010863 ACACGGC
1 ACACGGC
99010870 TGAGACACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.19
Consensus pattern (30 bp):
ACACGGCCATGTAACATGCCCGTGTATCAC
Found at i:99010880 original size:30 final size:30
Alignment explanation
Indices: 99010803--99010887 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
99010793 ACTAGGGGAT
* * *
99010803 ACACGGCCGTGTAACATGCCCGTGTATCAC
1 ACACGGCCATGGAACATGCTCGTGTATCAC
*
99010833 ACACGGCCATGTAACATGCTCGTGTATCAC
1 ACACGGCCATGGAACATGCTCGTGTATCAC
99010863 ACACGG-C-TGAGACACATGCTCGTGT
1 ACACGGCCATG-GA-ACATGCTCGTGT
99010888 GGACAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 46 0.92
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (30 bp):
ACACGGCCATGGAACATGCTCGTGTATCAC
Found at i:99028594 original size:45 final size:45
Alignment explanation
Indices: 99028530--99028731 Score: 243
Period size: 45 Copynumber: 4.6 Consensus size: 45
99028520 CGGACTTCGG
* *
99028530 GCCTAGCAGGCAATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGA
* * *
99028575 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGA
*
99028620 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTT-GA
* * *
99028665 GCCTAGCAGGCTATAATGCGGGCGAAATGA-TA-TCGGGCC-TCGA
1 GCCTAGCAGGCTATAATGCCGGTGAAAT-ACTATTCGGGCCTTTGA
* * *
99028708 GCCTAGTAGGCGA-AATGCCAGTGA
1 GCCTAGCAGGCTATAATGCCGGTGA
99028732 TTAGAGAAAA
Statistics
Matches: 140, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
42 8 0.06
43 13 0.09
44 10 0.07
45 108 0.77
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (45 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:99043964 original size:40 final size:40
Alignment explanation
Indices: 99043904--99044127 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
99043894 TATTCGGATG
*
99043904 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
99043944 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
99043987 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * **
99044026 ATTTTCGGGCTAAGACCCGAAGGCATGTGTGTGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
99044066 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
99044106 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
99044128 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 21 0.13
40 100 0.63
41 1 0.01
42 28 0.18
43 9 0.06
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:99044046 original size:82 final size:80
Alignment explanation
Indices: 99043904--99044096 Score: 262
Period size: 82 Copynumber: 2.4 Consensus size: 80
99043894 TATTCGGATG
* * *
99043904 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
99043969 TTTGTGCGAGTAGTTGCT
66 --TGTGCGAG-AGTTACT
* * *
99043987 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTTCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
99044051 TGTGTGTGAGTTACT
66 TGTGCGAGAGTTACT
*
99044066 ATATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG
99044097 TGAGTTGCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 9 0.09
80 32 0.32
82 55 0.56
83 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TGTGCGAGAGTTACT
Found at i:99051118 original size:23 final size:24
Alignment explanation
Indices: 99051071--99051172 Score: 75
Period size: 23 Copynumber: 4.2 Consensus size: 24
99051061 AAGCTCTATT
*
99051071 GAGCTGA-AACGGTAAGCTCT-GAC
1 GAGCTGAGAACGGTAAGCT-TATAC
*
99051094 GAGCTGA-ATCGGTAAGCTTATAC
1 GAGCTGAGAACGGTAAGCTTATAC
* * *
99051117 GAGATGAGAACAGTAAGCTTTTAC
1 GAGCTGAGAACGGTAAGCTTATAC
* * * *
99051141 GAACTGATATATCGATAAGCTCATAC
1 GAGCTGAGA-A-CGGTAAGCTTATAC
99051167 GAGCTG
1 GAGCTG
99051173 TGGTGAGTCC
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
22 1 0.02
23 25 0.41
24 19 0.31
25 1 0.02
26 15 0.25
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (24 bp):
GAGCTGAGAACGGTAAGCTTATAC
Found at i:99051351 original size:2 final size:2
Alignment explanation
Indices: 99051344--99051376 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
99051334 CATTCATTAA
99051344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99051377 AGTATTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99055436 original size:27 final size:27
Alignment explanation
Indices: 99055406--99055459 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
99055396 TGTCATGTGA
* * *
99055406 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
*
99055433 AATTGAATGATAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
99055460 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:99057588 original size:14 final size:14
Alignment explanation
Indices: 99057569--99057603 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
99057559 TGTTTCACTA
*
99057569 AAAATGGTTTTCAG
1 AAAATGATTTTCAG
*
99057583 AAAATGATTTTTAG
1 AAAATGATTTTCAG
99057597 AAAATGA
1 AAAATGA
99057604 CTTACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (14 bp):
AAAATGATTTTCAG
Found at i:99061003 original size:22 final size:22
Alignment explanation
Indices: 99060978--99061019 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
99060968 GGGTGGACTG
99060978 TTTTGGGGA-GAAGATTAAGGGA
1 TTTTGGGGAGGAA-ATTAAGGGA
*
99061000 TTTTGGTGAGGAAATTAAGG
1 TTTTGGGGAGGAAATTAAGG
99061020 AGTGAGGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (22 bp):
TTTTGGGGAGGAAATTAAGGGA
Found at i:99077884 original size:10 final size:11
Alignment explanation
Indices: 99077857--99077886 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
99077847 GAATTAATTG
99077857 AATAAAAGAAA
1 AATAAAAGAAA
99077868 AATAAAAGAAA
1 AATAAAAGAAA
99077879 AA-AAAAGA
1 AATAAAAGA
99077887 GATATCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AATAAAAGAAA
Found at i:99082233 original size:2 final size:2
Alignment explanation
Indices: 99082226--99082260 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
99082216 AATTCATAAT
99082226 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99082261 CATAGCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:99083206 original size:55 final size:55
Alignment explanation
Indices: 99083147--99083280 Score: 178
Period size: 56 Copynumber: 2.4 Consensus size: 55
99083137 TCCTAGACAG
* * *
99083147 GGTCTTACTCGTAAACACATATCGAATCACATATCAATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACACATATCGAATCAAATATCAATGCCAACGTATTAAACAT
* * * * *
99083202 GGTCTTACTCACACATACATATTGGAATCAAATATCGATGCCATCGTATTAAACAT
1 GGTCTTACTCGCACACACATA-TCGAATCAAATATCAATGCCAACGTATTAAACAT
*
99083258 GGTCTAACTCGCACACACATATC
1 GGTCTTACTCGCACACACATATC
99083281 ATACAATGCC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 18 0.27
56 48 0.73
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.28
Consensus pattern (55 bp):
GGTCTTACTCGCACACACATATCGAATCAAATATCAATGCCAACGTATTAAACAT
Found at i:99083409 original size:84 final size:83
Alignment explanation
Indices: 99083281--99083749 Score: 534
Period size: 84 Copynumber: 5.6 Consensus size: 83
99083271 CACACATATC
* * * * * * * *
99083281 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTGATTACATATCGATGCCACTGTCCCAGGT
1 ATACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCAAC-GTCCCA-GA
*
99083346 A-GGGTCTTACTCGAATCAA
64 ACGGGTCTTACACGAATCAA
* * * * *
99083365 ATATGATGCTGATGTCCCAGATATGGTCTTACACGTAATCACATATC-ATTTCTAATGTCCCA-A
1 ATACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCACATATCGA-TGC-AACGTCCCAGA
99083428 ACGTGGTCTTACACGAATCAA
64 ACG-GGTCTTACACGAATCAA
* * *
99083449 ATACAATGCTAATGTCCCAGACATAGTCTTACACGTAATCACATATCGATGACAACGTCCTAG-A
1 ATACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATG-CAACGTCCCAGAA
** *
99083513 CGATATCTTACATGAATCAA
65 CG-GGTCTTACACGAATCAA
* * * *
99083533 AAATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACGCCCCAG-A
1 ATACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATG-CAACGTCCCAGAA
99083597 CGTGGTCTTACACGAATCAA
65 CG-GGTCTTACACGAATCAA
* * *
99083617 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCAAAAGTCCTAGAA
1 ATACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGC-AACGTCCCAGAA
**
99083682 TTGGTCTTACACGAATCAA
65 CGGGTCTTACACGAATCAA
* *
99083701 ATACGATGCTGATGTCCTAGACATGGTCTTACACGTAATCACATATCGA
1 ATACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCACATATCGA
99083750 AAATCCTATG
Statistics
Matches: 328, Mismatches: 48, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
82 1 0.00
83 3 0.01
84 320 0.98
85 4 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (83 bp):
ATACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCAACGTCCCAGAAC
GGGTCTTACACGAATCAA
Found at i:99083561 original size:168 final size:166
Alignment explanation
Indices: 99083281--99083749 Score: 597
Period size: 168 Copynumber: 2.8 Consensus size: 166
99083271 CACACATATC
* * * * * *
99083281 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTGATTACATATCGATGCCACTGTCCCAG-G
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCAAC-GTCCTAGAG
*
99083345 -TAGGGTCTTAC-TCGAATCAAATATGATGCTGATGTCCCAGATATGGTCTTACACGTAATCACA
65 ATA---TCTTACAT-GAATCAAATATGATGCTGATGTCCCAGACATGGTCTTACACGTAATCACA
* * * *
99083408 TATC-ATTTCTAATGTCCCAAACGTGGTCTTACACGAATCAA
126 TATCGA-TGCCAACGCCCCAAACGTGGTCTTACACGAATCAA
* *
99083449 ATACAATGCTAATGTCCCAGACATAGTCTTACACGTAATCACATATCGATGACAACGTCCTAGAC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATG-CAACGTCCTAGA-
* **
99083514 GATATCTTACATGAATCAAAAATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
64 GATATCTTACATGAATCAAATATGATGCTGATGTCCCAGACATGGTCTTACACGTAATCACATAT
*
99083579 CGATGCCAACGCCCCAGACGTGGTCTTACACGAATCAA
129 CGATGCCAACGCCCCAAACGTGGTCTTACACGAATCAA
* *
99083617 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCAAAAGTCCTAGA-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGC-AACGTCCTAGAG
* * * *
99083681 ATTGGTCTTACACGAATCAAATACGATGCTGATGTCCTAGACATGGTCTTACACGTAATCACATA
65 A-T-ATCTTACATGAATCAAATATGATGCTGATGTCCCAGACATGGTCTTACACGTAATCACATA
99083746 TCGA
128 TCGA
99083750 AAATCCTATG
Statistics
Matches: 264, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
166 1 0.00
167 2 0.01
168 253 0.96
169 5 0.02
170 1 0.00
171 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (166 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCAACGTCCTAGAGA
TATCTTACATGAATCAAATATGATGCTGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
ATGCCAACGCCCCAAACGTGGTCTTACACGAATCAA
Found at i:99083732 original size:252 final size:251
Alignment explanation
Indices: 99083286--99083749 Score: 675
Period size: 252 Copynumber: 1.8 Consensus size: 251
99083276 ATATCATACA
* * * * *
99083286 ATGCCAATGTCCCAGACGTGGTCTTACATGTGATTACATATCGATGCCACTGTCCCAGGTAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGCCCCAGGTA-GGT
* * ** * *
99083351 CTTACTCGAATCAAATATGATGCTGATGTCCCAGATATGGTCTTACACGTAATCACATATCATTT
65 CTTACACGAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCATTG
* *
99083416 CTAATGTCCCAAACGTGGTCTTACACGAATCAAATACAATGCTAATGTCCCAGACATAGTCTTAC
130 CAAAAGTCCCAAACGTGGTCTTACACGAATCAAATACAATGCTAATGTCCCAGACATAGTCTTAC
99083481 ACGTAATCACATATCGATGACAACGTCCTAGACGATATCTTACATGAATCAAAAATG
195 ACGTAATCACATATCGATGACAACGTCCTAGACGATATCTTACATGAATCAAAAATG
99083538 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAAC-GCCCCAGACGT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACTGCCCCAG--GTAG
99083601 GTCTTACACGAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGA
63 GTCTTACACGAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATC-A
* * * * * *
99083666 -TGCAAAAGTCCTAGAA-TTGGTCTTACACGAATCAAATACGATGCTGATGTCCTAGACATGGTC
127 TTGCAAAAGTCCCA-AACGTGGTCTTACACGAATCAAATACAATGCTAATGTCCCAGACATAGTC
99083729 TTACACGTAATCACATATCGA
191 TTACACGTAATCACATATCGA
99083750 AAATCCTATG
Statistics
Matches: 188, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
252 181 0.96
253 5 0.03
254 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (251 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGCCCCAGGTAGGTC
TTACACGAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCATTGC
AAAAGTCCCAAACGTGGTCTTACACGAATCAAATACAATGCTAATGTCCCAGACATAGTCTTACA
CGTAATCACATATCGATGACAACGTCCTAGACGATATCTTACATGAATCAAAAATG
Found at i:99086420 original size:28 final size:26
Alignment explanation
Indices: 99086388--99086462 Score: 62
Period size: 28 Copynumber: 2.8 Consensus size: 26
99086378 TTGGAGGAAG
*
99086388 TACTGTATTAGTGGCTTTGCCACGTAAT
1 TACTGTATTAGTAGCTTTGCCACGT--T
* *
99086416 TACTGCT-CTGGTAGCTTTGCCACGTT
1 TACTG-TATTAGTAGCTTTGCCACGTT
* *
99086442 TACTGTCATTAGCAGCCTTGC
1 TACTGT-ATTAGTAGCTTTGC
99086463 TGCATTACTG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 6 0.16
27 9 0.24
28 20 0.54
29 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
TACTGTATTAGTAGCTTTGCCACGTT
Found at i:99102435 original size:44 final size:43
Alignment explanation
Indices: 99102328--99102435 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
99102318 ACAATGCCAA
* *
99102328 TGTCCCAGACATGGTCTTACATGTAATTCAATATCGATGCCTC
1 TGTCCCAGACACGGTCTTACATGTAATTCAATATCGAGGCCTC
* * * *
99102371 TGTCCTAGATAGGGTCTTACATGTAAATCTCAA-ATCGAGGCCTG
1 TGTCCCAGACACGGTCTTACATGT-AAT-TCAATATCGAGGCCTC
* *
99102415 TGTCCCAGACACAGTTTTACA
1 TGTCCCAGACACGGTCTTACA
99102436 CGATATTTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 21 0.40
44 28 0.53
45 4 0.08
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TGTCCCAGACACGGTCTTACATGTAATTCAATATCGAGGCCTC
Found at i:99113409 original size:42 final size:43
Alignment explanation
Indices: 99113330--99113439 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
99113320 CAATGTCGAC
* * **
99113330 GTCCCAAACGTGGTCTTACATGTAATTCAGTATCGATGCCTTT
1 GTCCCAGACATGGTCTTACATGTAATTCAGTATCGATGCCGAT
*
99113373 GTCTCAGACA-GTGTCTTACATG-AATTCAG-ATACGATGCCGAT
1 GTCCCAGACATG-GTCTTACATGTAATTCAGTAT-CGATGCCGAT
*
99113415 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACATGGTCTTACATGTAA
99113440 ATCTCAAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.04
42 34 0.61
43 20 0.36
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAATTCAGTATCGATGCCGAT
Found at i:99115085 original size:48 final size:48
Alignment explanation
Indices: 99114963--99115189 Score: 170
Period size: 48 Copynumber: 4.7 Consensus size: 48
99114953 ATGAGATCTT
* * * ** * * * *
99114963 ATGTAAGACCATGTCTGGGACATGGCATCGGCATCCGAGATGAGAGGCA
1 ATGTAAGACCATATCTAGGATATGGCATCGGCAT-TAATATGTGTGCCA
* * * * * * *
99115012 GTGTAAAACCATGTCTGGGAAATGGCATTGGCTTTAATATGTGTGCCA
1 ATGTAAGACCATATCTAGGATATGGCATCGGCATTAATATGTGTGCCA
* * * *
99115060 ATGTAAGACCATGTCT-GAGATATGGCATCGGCGTTGATATGTTTGCCA
1 ATGTAAGACCATATCTAG-GATATGGCATCGGCATTAATATGTGTGCCA
* * * * * *
99115108 GTGTAAGACTATATCTAGGATATGGCATCGGCATCAGTATGAGAT-CCC
1 ATGTAAGACCATATCTAGGATATGGCATCGGCATTAATATGTG-TGCCA
*
99115156 ATGTAAGACCATATCTAGGATATGGCATTGGCAT
1 ATGTAAGACCATATCTAGGATATGGCATCGGCAT
99115190 CGCTATGAGG
Statistics
Matches: 144, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
47 1 0.01
48 112 0.78
49 31 0.22
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
ATGTAAGACCATATCTAGGATATGGCATCGGCATTAATATGTGTGCCA
Found at i:99115190 original size:48 final size:48
Alignment explanation
Indices: 99115061--99115232 Score: 154
Period size: 48 Copynumber: 3.6 Consensus size: 48
99115051 TGTGTGCCAA
* * * * ** *
99115061 TGTAAGACCATGTCT-GAGATATGGCATCGGCGTTGATATG-TTTGCCAG
1 TGTAAGACCATATCTAG-GATATGGCATCGGCATCGCTATGAGAT-CCAT
*
99115109 TGTAAGACTATATCTAGGATATGGCATCGGCATCAG-TATGAGATCCCA-
1 TGTAAGACCATATCTAGGATATGGCATCGGCATC-GCTATGAGAT-CCAT
* *
99115157 TGTAAGACCATATCTAGGATATGGCATTGGCATCGCTATGAGGTCCAT
1 TGTAAGACCATATCTAGGATATGGCATCGGCATCGCTATGAGATCCAT
* * * *
99115205 TGCAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATATCTAGGATATGGCATC
99115233 AACACCGACA
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
47 4 0.04
48 94 0.90
49 6 0.06
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATATCTAGGATATGGCATCGGCATCGCTATGAGATCCAT
Found at i:99123691 original size:39 final size:40
Alignment explanation
Indices: 99123633--99123733 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
99123623 AAATTGAATG
* *
99123633 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
99123672 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
99123712 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
99123734 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:99123726 original size:40 final size:40
Alignment explanation
Indices: 99123633--99123783 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
99123623 AAATTGAATG
* * * * *
99123633 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
99123672 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
99123712 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
99123752 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
99123784 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:99123798 original size:40 final size:38
Alignment explanation
Indices: 99123629--99123800 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
99123619 TGAGAAATTG
* *
99123629 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
99123668 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
99123705 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
99123745 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
99123785 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
99123801 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:99131693 original size:39 final size:40
Alignment explanation
Indices: 99131635--99131735 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
99131625 AAATTGAATG
* *
99131635 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
99131674 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
99131714 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
99131736 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:99131728 original size:40 final size:40
Alignment explanation
Indices: 99131635--99131811 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
99131625 AAATTGAATG
* * * * *
99131635 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
99131674 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
99131714 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
99131754 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
99131794 ATATCCGGG-TAAGTCCCG
1 ATATCCGGGCTAAGACCCG
99131812 TTGGCCTTGG
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 40 0.34
40 75 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:99139992 original size:39 final size:40
Alignment explanation
Indices: 99139934--99140034 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
99139924 AAATTGAATG
* *
99139934 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
99139973 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
99140013 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
99140035 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:99140027 original size:40 final size:40
Alignment explanation
Indices: 99139934--99140084 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
99139924 AAATTGAATG
* * * * *
99139934 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
99139973 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
99140013 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
99140053 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
99140085 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:99140099 original size:40 final size:38
Alignment explanation
Indices: 99139930--99140101 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
99139920 TGAGAAATTG
* *
99139930 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
99139969 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
99140006 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
99140046 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
99140086 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
99140102 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:99142594 original size:48 final size:48
Alignment explanation
Indices: 99142529--99142704 Score: 228
Period size: 48 Copynumber: 3.7 Consensus size: 48
99142519 TGAGATAAGA
* *
99142529 GCCAGTGCAAGACCATGTCTGAGACATGGCATCAGAGTTAATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAGTTAATATGTGT
* *
99142577 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-TTAATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-AGTTAATATGTGT
* * *
99142625 GCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCGTTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAGTTAATATGTGT
* * * * *
99142673 ACTAGTGTAAGACTATATCTGGGATATGGCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
99142705 TAGCATCAGT
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
48 110 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAGTTAATATGTGT
Found at i:99142654 original size:96 final size:96
Alignment explanation
Indices: 99142529--99142704 Score: 255
Period size: 96 Copynumber: 1.8 Consensus size: 96
99142519 TGAGATAAGA
* *
99142529 GCCAGTGCAAGACCATGTCTGAGACATGGCATCAGAGTTAATATGTGTGCCAGTGTAAGACCATG
1 GCCAGTGCAAGACCATGTCTGAGACATGGCATCAGAGTTAATATGTGTACCAGTGTAAGACCATA
*
99142594 TTTGGGACATGGCATCGGCATTAATATGTGT
66 TCTGGGACATGGCATCGGCATTAATATGTGT
* * * * *
99142625 GCCAGTGTAAGACCATGTCTG-GAACATGGCATCAGCGTTGATATGTGTACTAGTGTAAGACTAT
1 GCCAGTGCAAGACCATGTCTGAG-ACATGGCATCAGAGTTAATATGTGTACCAGTGTAAGACCAT
*
99142689 ATCTGGGATATGGCAT
65 ATCTGGGACATGGCAT
99142705 TAGCATCAGT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 69 0.99
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (96 bp):
GCCAGTGCAAGACCATGTCTGAGACATGGCATCAGAGTTAATATGTGTACCAGTGTAAGACCATA
TCTGGGACATGGCATCGGCATTAATATGTGT
Found at i:99142730 original size:96 final size:96
Alignment explanation
Indices: 99142529--99142736 Score: 240
Period size: 96 Copynumber: 2.2 Consensus size: 96
99142519 TGAGATAAGA
* * *
99142529 GCCAGTGCAAGACCATGTCTGAGACATGGCATCAGAGTTAATATGTGTGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGAGACATGGCATCAGAGTTAATATGTGTACCAGTGTAAGACCATA
* * * *
99142594 TTTGGGACATGGCATCGGCATTAATATGTGT
66 TCTGGGACATGGCATCAGCATCAATATGAGT
* * * *
99142625 GCCAGTGTAAGACCATGTCTG-GAACATGGCATCAGCGTTGATATGTGTACTAGTGTAAGACTAT
1 GCCAGTGTAAGACCATGTCTGAG-ACATGGCATCAGAGTTAATATGTGTACCAGTGTAAGACCAT
* * *
99142689 ATCTGGGATATGGCATTAGCATCAGTATGAGAT
65 ATCTGGGACATGGCATCAGCATCAATATGAG-T
* *
99142722 TCCA-TGTAAGGCCAT
1 GCCAGTGTAAGACCAT
99142737 ATCTAGGATA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
95 1 0.01
96 89 0.95
97 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGAGACATGGCATCAGAGTTAATATGTGTACCAGTGTAAGACCATA
TCTGGGACATGGCATCAGCATCAATATGAGT
Found at i:99142778 original size:48 final size:48
Alignment explanation
Indices: 99142677--99142800 Score: 117
Period size: 48 Copynumber: 2.6 Consensus size: 48
99142667 ATGTGTACTA
* * **
99142677 GTGTAAGACTATATCTGGGATATGGCATTAGCATCAGTATGAGATTCC
1 GTGTAAGACCATATCTAGGATATGGCATTAGCATCAGTATGAGAGCCC
* * *
99142725 ATGTAAGGCCATATCTAGGATATGGCATT-GCCATC-GCTATGAGGGCCC
1 GTGTAAGACCATATCTAGGATATGGCATTAG-CATCAG-TATGAGAGCCC
* * * *
99142773 GTGTAAGACCGTGTCTGGGACATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
99142801 CGGCACCGAC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
47 2 0.03
48 59 0.97
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATATCTAGGATATGGCATTAGCATCAGTATGAGAGCCC
Found at i:99144772 original size:19 final size:19
Alignment explanation
Indices: 99144750--99144788 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
99144740 TTTTTTCGTG
*
99144750 TCACAATGTAATTTTTTTT
1 TCACAATGCAATTTTTTTT
99144769 TCACAATGCAATTTTTTTT
1 TCACAATGCAATTTTTTTT
99144788 T
1 T
99144789 TACTTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (19 bp):
TCACAATGCAATTTTTTTT
Found at i:99151033 original size:22 final size:22
Alignment explanation
Indices: 99151007--99151064 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
99150997 CAATGACAGA
99151007 AAATTTAATATGAAAAAAAT-AT
1 AAATTTAA-ATGAAAAAAATGAT
* * *
99151029 AAATTAAAATGGAAAGAATGAT
1 AAATTTAAATGAAAAAAATGAT
99151051 -AATTTAAATGAAAA
1 AAATTTAAATGAAAA
99151065 GACAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (22 bp):
AAATTTAAATGAAAAAAATGAT
Found at i:99151059 original size:27 final size:26
Alignment explanation
Indices: 99151028--99151280 Score: 77
Period size: 26 Copynumber: 10.6 Consensus size: 26
99151018 GAAAAAAATA
99151028 TAAATTAAAATGGAAAGAATGATAATT
1 TAAATTAAAATGGAAAGAA-GATAATT
* *
99151055 TAAATGAAAA--GACAA-AA-A-AA-G
1 TAAATTAAAATGGA-AAGAAGATAATT
99151076 TAAATTAAAATGGAAAGAAAGATAATT
1 TAAATTAAAATGGAAAG-AAGATAATT
*
99151103 TAAA-TGAAAT-GAGAA-AA-A-AA--
1 TAAATTAAAATGGA-AAGAAGATAATT
*
99151123 -AAGTTAAAATAGG-AAGATAGATAATT
1 TAAATTAAAAT-GGAAAGA-AGATAATT
*
99151149 TAAA-TGAAAT-GAGAA-AA-A-AA--
1 TAAATTAAAATGGA-AAGAAGATAATT
*
99151169 TAAATTAAAATGGGAAGATAGATAATT
1 TAAATTAAAATGGAAAGA-AGATAATT
* *
99151196 TAAA-TGAAGT-GAGAA-AA-A-AA-T
1 TAAATTAAAATGGA-AAGAAGATAATT
*
99151217 AAAATTAAAATGGAAAGAAAGATAATT
1 TAAATTAAAATGGAAAG-AAGATAATT
* *
99151244 TAAA-TGAAAT-G--AGAA-AAAATT
1 TAAATTAAAATGGAAAGAAGATAATT
*
99151265 TAAATTGAAATGGAAA
1 TAAATTAAAATGGAAA
99151281 AAAAATTAAA
Statistics
Matches: 165, Mismatches: 20, Indels: 84
0.61 0.07 0.31
Matches are distributed among these distances:
19 2 0.01
20 11 0.07
21 30 0.18
22 28 0.17
23 13 0.08
24 12 0.07
25 15 0.09
26 31 0.19
27 23 0.14
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (26 bp):
TAAATTAAAATGGAAAGAAGATAATT
Found at i:99151080 original size:48 final size:47
Alignment explanation
Indices: 99151016--99151302 Score: 351
Period size: 48 Copynumber: 6.2 Consensus size: 47
99151006 AAAATTTAAT
99151016 ATGA-AAAAAATATAAATTAAAATGGAAAGAATGATAATTTAAATGAA
1 ATGAGAAAAAA-ATAAATTAAAATGGAAAGAATGATAATTTAAATGAA
* * *
99151063 AAGACAAAAAAAGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAA
1 ATGAGAAAAAAA-TAAATTAAAATGGAAAGAATGATAATTTAAATGAA
*
99151111 ATGAGAAAAAAA-AAGTTAAAATAGG-AAG-ATAGATAATTTAAATGAA
1 ATGAGAAAAAAATAAATTAAAAT-GGAAAGAAT-GATAATTTAAATGAA
*
99151157 ATGAGAAAAAAATAAATTAAAATGGGAAG-ATAGATAATTTAAATGAA
1 ATGAGAAAAAAATAAATTAAAATGGAAAGAAT-GATAATTTAAATGAA
* *
99151204 GTGAGAAAAAAATAAAATTAAAATGGAAAGAAAGATAATTTAAATGAA
1 ATGAGAAAAAAAT-AAATTAAAATGGAAAGAATGATAATTTAAATGAA
* * *
99151252 ATGAGAAAAAATTTAAATTGAAATGGAAA-AA--A-AATTAAAATGAA
1 ATGAGAAAAAA-ATAAATTAAAATGGAAAGAATGATAATTTAAATGAA
99151296 ATG-GAAA
1 ATGAGAAA
99151303 TATCAATGAA
Statistics
Matches: 217, Mismatches: 14, Indels: 22
0.86 0.06 0.09
Matches are distributed among these distances:
43 4 0.02
44 14 0.06
45 2 0.01
46 41 0.19
47 50 0.23
48 104 0.48
49 2 0.01
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (47 bp):
ATGAGAAAAAAATAAATTAAAATGGAAAGAATGATAATTTAAATGAA
Found at i:99151274 original size:22 final size:21
Alignment explanation
Indices: 99151145--99151302 Score: 95
Period size: 21 Copynumber: 7.0 Consensus size: 21
99151135 GAAGATAGAT
99151145 AATTTAAATGAAATGAGAAAA
1 AATTTAAATGAAATGAGAAAA
* * *
99151166 AA-ATAAATTAAAATGGGAAGATAGAT
1 AATTTAAA-TGAAAT--G-AGA-A-AA
*
99151192 AATTTAAATGAAGTGAGAAAA
1 AATTTAAATGAAATGAGAAAA
* * *
99151213 AAATAAAATTAAAATGGAAAGAAAGA
1 AATTTAAA-TGAAAT-G--AGAAA-A
99151239 TAATTTAAATGAAATGAGAAAA
1 -AATTTAAATGAAATGAGAAAA
*
99151261 AATTTAAATTGAAATGGAAAAAA
1 AATTTAAA-TGAAAT-GAGAAAA
*
99151284 AATTAAAATGAAATG-GAAA
1 AATTTAAATGAAATGAGAAA
99151303 TATCAATGAA
Statistics
Matches: 105, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
20 7 0.07
21 23 0.22
22 18 0.17
23 23 0.22
24 4 0.04
25 7 0.07
26 13 0.12
27 10 0.10
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (21 bp):
AATTTAAATGAAATGAGAAAA
Found at i:99151280 original size:21 final size:20
Alignment explanation
Indices: 99151240--99151302 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 20
99151230 AAAGAAAGAT
99151240 AATTTAAATGAAATGAGAAAA
1 AATTTAAATGAAATG-GAAAA
99151261 AATTTAAATTGAAATGGAAAAAA
1 AATTTAAA-TGAAATGG--AAAA
*
99151284 AATTAAAATGAAATGGAAA
1 AATTTAAATGAAATGGAAA
99151303 TATCAATGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 3 0.08
21 9 0.24
22 15 0.39
23 11 0.29
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (20 bp):
AATTTAAATGAAATGGAAAA
Found at i:99151315 original size:5 final size:5
Alignment explanation
Indices: 99151289--99151343 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
99151279 AAAAAAATTA
* *
99151289 AAATG AAATGG AAAT- ATCAATG AAATG AAATG AAATG -GATG AAATT
1 AAATG AAAT-G AAATG A--AATG AAATG AAATG AAATG AAATG AAATG
99151335 AAATG AAAT
1 AAATG AAAT
99151344 AAAAAGGCTG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.10
5 28 0.68
6 8 0.20
7 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.18, T:0.24
Consensus pattern (5 bp):
AAATG
Found at i:99151343 original size:24 final size:24
Alignment explanation
Indices: 99151311--99151357 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
99151301 AATATCAATG
* *
99151311 AAATGAAATGAAATGGATGAAATT
1 AAATGAAATAAAAAGGATGAAATT
*
99151335 AAATGAAATAAAAAGGCTGAAAT
1 AAATGAAATAAAAAGGATGAAAT
99151358 GACATGTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.19, T:0.21
Consensus pattern (24 bp):
AAATGAAATAAAAAGGATGAAATT
Found at i:99151633 original size:17 final size:17
Alignment explanation
Indices: 99151611--99151652 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
99151601 AAATATGAAA
99151611 TGAATTGAAAAAAAAAT
1 TGAATTGAAAAAAAAAT
*
99151628 TGAATTG-AAAAAAGAT
1 TGAATTGAAAAAAAAAT
99151644 T-AATTGAAA
1 TGAATTGAAA
99151653 TGAGATTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (17 bp):
TGAATTGAAAAAAAAAT
Found at i:99151650 original size:20 final size:18
Alignment explanation
Indices: 99151596--99151651 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 18
99151586 CTAATTAGTA
*
99151596 TGAAAAAATATGAAATGAAT
1 TGAAAAAA-AT-AATTGAAT
99151616 TGAAAAAAA-AATTGAAT
1 TGAAAAAAATAATTGAAT
99151633 TGAAAAAAGATTAATTGAA
1 TGAAAAAA-A-TAATTGAA
99151652 ATGAGATTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 15 0.47
18 1 0.03
19 1 0.03
20 15 0.47
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (18 bp):
TGAAAAAAATAATTGAAT
Found at i:99151734 original size:28 final size:28
Alignment explanation
Indices: 99151703--99151801 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
99151693 AGGAAAAAAA
*
99151703 TAAATTTAAATGAA-ATGAAATAAAATG
1 TAAATTTAAATGAATATGAAATGAAATG
**
99151730 TTAAATGAAATATGAATATGAAATGAAATG
1 -TAAATTTAA-ATGAATATGAAATGAAATG
* *
99151760 T-CATTTGTAATGAATATGAAATGAAATG
1 TAAATTT-AAATGAATATGAAATGAAATG
99151788 -AAAGTTTAAATGAA
1 TAAA-TTTAAATGAA
99151802 AATAAATTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 35 0.61
29 10 0.18
30 12 0.21
ACGTcount: A:0.53, C:0.01, G:0.15, T:0.31
Consensus pattern (28 bp):
TAAATTTAAATGAATATGAAATGAAATG
Found at i:99151736 original size:22 final size:20
Alignment explanation
Indices: 99151700--99151740 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
99151690 ATTAGGAAAA
99151700 AAATAAATTTAAATGAAATG
1 AAATAAATTTAAATGAAATG
99151720 AAATAAAATGTTAAATGAAAT
1 AAAT-AAAT-TTAAATGAAAT
99151741 ATGAATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATAAATTTAAATGAAATG
Found at i:99151749 original size:6 final size:5
Alignment explanation
Indices: 99151710--99151790 Score: 54
Period size: 5 Copynumber: 14.6 Consensus size: 5
99151700 AAATAAATTT
*
99151710 AAATG AAATG AAATA AAATG TTAAATG AAATATG AATATG AAATG AAATG
1 AAATG AAATG AAATG AAATG --AAATG -AA-ATG AA-ATG AAATG AAATG
** *
99151760 TCATTTG TAATG AATATG AAATG AAATG AAA
1 --AAATG AAATG AA-ATG AAATG AAATG AAA
99151791 GTTTAAATGA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
5 35 0.57
6 15 0.25
7 11 0.18
ACGTcount: A:0.54, C:0.01, G:0.16, T:0.28
Consensus pattern (5 bp):
AAATG
Found at i:99151758 original size:23 final size:23
Alignment explanation
Indices: 99151732--99151786 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
99151722 ATAAAATGTT
99151732 AAATGAAATATGAATATGAA-ATG
1 AAATGAAATATGAA-ATGAATATG
** * *
99151755 AAATGTCATTTGTAATGAATATG
1 AAATGAAATATGAAATGAATATG
99151778 AAATGAAAT
1 AAATGAAAT
99151787 GAAAGTTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (23 bp):
AAATGAAATATGAAATGAATATG
Found at i:99151804 original size:23 final size:23
Alignment explanation
Indices: 99151778--99151826 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
99151768 AATGAATATG
*
99151778 AAATGAAATGA-AAGTTTAAATGA
1 AAAT-AAATGATAAATTTAAATGA
*
99151801 AAATAAATTATAAATTTAAATGA
1 AAATAAATGATAAATTTAAATGA
99151824 AAA
1 AAA
99151827 CAAAAACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (23 bp):
AAATAAATGATAAATTTAAATGA
Found at i:99151895 original size:6 final size:5
Alignment explanation
Indices: 99151886--99151935 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 5
99151876 AAATGGAAAA
99151886 AAATG TAAATG AAATG TAAATG TAAATG AAATGG AAATGG AAATG AAATG
1 AAATG -AAATG AAATG -AAATG -AAATG AAAT-G AAAT-G AAATG AAATG
99151936 GATCCTAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 15 0.36
6 27 0.64
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (5 bp):
AAATG
Found at i:99151902 original size:11 final size:11
Alignment explanation
Indices: 99151886--99151935 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
99151876 AAATGGAAAA
99151886 AAATGTAAATG
1 AAATGTAAATG
99151897 AAATGTAAATG
1 AAATGTAAATG
99151908 TAAATG-AAATGG
1 -AAATGTAAAT-G
*
99151920 AAATGGAAATG
1 AAATGTAAATG
99151931 AAATG
1 AAATG
99151936 GATCCTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 26 0.72
12 10 0.28
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (11 bp):
AAATGTAAATG
Found at i:99151908 original size:17 final size:17
Alignment explanation
Indices: 99151886--99151937 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
99151876 AAATGGAAAA
*
99151886 AAATGTAAATGAAATGT
1 AAATGTAAATGAAATGG
99151903 AAATGTAAATGAAATGG
1 AAATGTAAATGAAATGG
*
99151920 AAATGGAAATGAAATGG
1 AAATGTAAATGAAATGG
99151937 A
1 A
99151938 TCCTAAACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AAATGTAAATGAAATGG
Found at i:99151936 original size:11 final size:11
Alignment explanation
Indices: 99151876--99151937 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
99151866 TATTAAATTT
*
99151876 AAATGGAAA-A
1 AAATGGAAATG
*
99151886 AAATGTAAATG
1 AAATGGAAATG
*
99151897 AAATGTAAATG
1 AAATGGAAATG
99151908 TAAAT-GAAATGG
1 -AAATGGAAAT-G
99151920 AAATGGAAATG
1 AAATGGAAATG
99151931 AAATGGA
1 AAATGGA
99151938 TCCTAAACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
10 8 0.18
11 27 0.60
12 10 0.22
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (11 bp):
AAATGGAAATG
Found at i:99153703 original size:15 final size:15
Alignment explanation
Indices: 99153683--99153734 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
99153673 ACTACAAAAC
99153683 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
99153698 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
99153717 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
99153732 ATT
1 ATT
99153735 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:99153791 original size:16 final size:16
Alignment explanation
Indices: 99153767--99153803 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
99153757 ATGTGAATAA
99153767 TATTATTTAAATTTAT
1 TATTATTTAAATTTAT
*
99153783 TATTTTTTAAATTTAT
1 TATTATTTAAATTTAT
99153799 TATTA
1 TATTA
99153804 AAATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTATTTAAATTTAT
Found at i:99153842 original size:16 final size:16
Alignment explanation
Indices: 99153798--99153848 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
99153788 TTTAAATTTA
99153798 TTATTAAAATAA-AAT
1 TTATTAAAATAATAAT
*
99153813 TTA--AATATTAAATAAT
1 TTATTAA-AAT-AATAAT
99153829 TTATTAAAATAATAAT
1 TTATTAAAATAATAAT
99153845 TTAT
1 TTAT
99153849 ATTTATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 5 0.17
16 16 0.55
17 2 0.07
18 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAAAATAATAAT
Found at i:99153853 original size:22 final size:22
Alignment explanation
Indices: 99153827--99153870 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
99153817 ATATTAAATA
99153827 ATTTATTAAAATAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
* *
99153849 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
99153871 TATAAGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAAAATAATAATTTAT
Found at i:99153856 original size:34 final size:33
Alignment explanation
Indices: 99153775--99153856 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 33
99153765 AATATTATTT
* *
99153775 AAATTTATTATTTTTTAAATTTATTATTAAAATA
1 AAATTTA-TATTTATTAAATATATTATTAAAATA
*
99153809 AAATTTA-A-ATATTAAATA-ATTTATTAAAATA
1 AAATTTATATTTATTAAATATA-TTATTAAAATA
99153840 ATAATTTATATTTATTA
1 A-AATTTATATTTATTA
99153857 TATTAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 1 0.03
31 19 0.47
32 7 0.17
33 1 0.03
34 12 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
AAATTTATATTTATTAAATATATTATTAAAATA
Found at i:99153983 original size:16 final size:16
Alignment explanation
Indices: 99153962--99153993 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
99153952 AAATAAAAAT
99153962 TATTATCTATAGATGA
1 TATTATCTATAGATGA
99153978 TATTATCTATAGATGA
1 TATTATCTATAGATGA
99153994 GCTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TATTATCTATAGATGA
Found at i:99160072 original size:90 final size:90
Alignment explanation
Indices: 99159946--99160174 Score: 365
Period size: 90 Copynumber: 2.6 Consensus size: 90
99159936 TATGGATTAA
*
99159946 ATTAAATTTATAGA-A-ACAAAAAATACAAACATTCTAAGAAATTAATACATGAAAATATAAAAA
1 ATTAAATTTACAGATATA-AAAAAATACAAACATTCTAAGAAATTAATACATGAAAATATAAAAA
* *
99160009 TGAGACCTTAAATCCTAAACAACTAT
65 TAAGACCTTAAATCCTAAACAACTAC
99160035 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACATGAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACATGAAAATATAAAAAT
*
99160100 AATACCTTAAATCCTAAACAACTAC
66 AAGACCTTAAATCCTAAACAACTAC
* *
99160125 ATTAAATTTACAGGTATAAAAAAATACAAACATTTTAATGAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAA-GAAATTAATACA
99160175 ATTATTTTGA
Statistics
Matches: 131, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
89 13 0.10
90 113 0.86
91 5 0.04
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (90 bp):
ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACATGAAAATATAAAAAT
AAGACCTTAAATCCTAAACAACTAC
Found at i:99162465 original size:56 final size:56
Alignment explanation
Indices: 99162357--99162599 Score: 266
Period size: 56 Copynumber: 4.4 Consensus size: 56
99162347 TTACTGCTCG
** * *
99162357 CATGCTGTCACAAATTGAATTAAAGCTGTTGTTTTGATTGTTTCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAATT-AAGCTGCTGTTTT-AGTGTTTCAAATTGAGCATTTT
* * *
99162415 CATACTGTCTTAAATTGAATCAAGCTGCTGTTTTAGTGTTTCAAAGTGAGCATTTT
1 CATGCTGTCTTAAATTGAATTAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * *
99162471 CATGCTGTCATAAATTGAATTAA-----AG-TTTAGTGTATCAAATTTAGCATTTT
1 CATGCTGTCTTAAATTGAATTAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
99162521 CATGCTGTCTTAAATTAAATTAAGCTGCTGTTTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCTTAAATTGAATTAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
* *
99162578 -ATGCTGTCCTAAATTAAATTAA
1 CATGCTGTCTTAAATTGAATTAA
99162600 AGTGTTGCTT
Statistics
Matches: 156, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
50 43 0.28
51 1 0.01
55 1 0.01
56 80 0.51
57 14 0.09
58 17 0.11
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (56 bp):
CATGCTGTCTTAAATTGAATTAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:99162521 original size:50 final size:50
Alignment explanation
Indices: 99162446--99162543 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
99162436 AAGCTGCTGT
* *
99162446 TTTAGTGTTTCAAAGTGAGCATTTTCATGCTGTCATAAATTGAATTAAAG
1 TTTAGTGTATCAAAGTGAGCATTTTCATGCTGTCATAAATTAAATTAAAG
* * *
99162496 TTTAGTGTATCAAATTTAGCATTTTCATGCTGTCTTAAATTAAATTAA
1 TTTAGTGTATCAAAGTGAGCATTTTCATGCTGTCATAAATTAAATTAA
99162544 GCTGCTGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (50 bp):
TTTAGTGTATCAAAGTGAGCATTTTCATGCTGTCATAAATTAAATTAAAG
Found at i:99162584 original size:106 final size:106
Alignment explanation
Indices: 99162399--99162602 Score: 311
Period size: 106 Copynumber: 1.9 Consensus size: 106
99162389 TTTGATTGTT
* *
99162399 TCAAATTGAGCATTTTCATACTGTCTTAAATTGAATCAAGCTGCTGTTTTAGTGTTTCAAAGTGA
1 TCAAATTGAGCATTTTCATACTGTCTTAAATTAAATCAAGCTGCTGTTTTAATGTTTCAAAGTGA
*
99162464 GCATTTTCATGCTGTCATAAATTGAATTAAAGTTTAGTGTA
66 GCATTTTCATGCTGTCATAAATTAAATTAAAGTTTAGTGTA
* * * *
99162505 TCAAATTTAGCATTTTCATGCTGTCTTAAATTAAATTAAGCTGCTGTTTTAATGTTTCAAATTGA
1 TCAAATTGAGCATTTTCATACTGTCTTAAATTAAATCAAGCTGCTGTTTTAATGTTTCAAAGTGA
* *
99162570 GTATTATT-ATGCTGTCCTAAATTAAATTAAAGT
66 GCATT-TTCATGCTGTCATAAATTAAATTAAAGT
99162603 GTTGCTTCAA
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 86 0.98
107 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (106 bp):
TCAAATTGAGCATTTTCATACTGTCTTAAATTAAATCAAGCTGCTGTTTTAATGTTTCAAAGTGA
GCATTTTCATGCTGTCATAAATTAAATTAAAGTTTAGTGTA
Found at i:99162615 original size:56 final size:56
Alignment explanation
Indices: 99162505--99162638 Score: 155
Period size: 56 Copynumber: 2.4 Consensus size: 56
99162495 GTTTAGTGTA
* * * * *
99162505 TCAAATTTAGCATT-TTCATGCTGTCTTAAATTAAATTAAGCTGCTGTTTTAATGTT
1 TCAAATTAAGCATTATT-ATGCTGTCCTAAATTAAATTAAGCTGCTGCTTCAATGTC
* * *
99162561 TCAAATTGAGTATTATTATGCTGTCCTAAATTAAATTAAAG-TGTTGCTTCAATGTC
1 TCAAATTAAGCATTATTATGCTGTCCTAAATTAAATT-AAGCTGCTGCTTCAATGTC
*
99162617 TCAAAGTAAGCATTATTATGCT
1 TCAAATTAAGCATTATTATGCT
99162639 ATTGAAAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
56 61 0.92
57 5 0.08
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (56 bp):
TCAAATTAAGCATTATTATGCTGTCCTAAATTAAATTAAGCTGCTGCTTCAATGTC
Found at i:99164492 original size:15 final size:16
Alignment explanation
Indices: 99164472--99164504 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
99164462 ATATATTATT
99164472 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
99164487 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
99164504 T
1 T
99164505 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:99167720 original size:17 final size:17
Alignment explanation
Indices: 99167698--99167734 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
99167688 TTAGAGCAAC
99167698 CAAGGAAATTGACCAAA
1 CAAGGAAATTGACCAAA
99167715 CAAGGAAATTGACCAAA
1 CAAGGAAATTGACCAAA
99167732 CAA
1 CAA
99167735 CAACTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.19, G:0.16, T:0.11
Consensus pattern (17 bp):
CAAGGAAATTGACCAAA
Found at i:99170396 original size:15 final size:16
Alignment explanation
Indices: 99170376--99170405 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99170366 AAACCTTCTT
99170376 CTTTTTTT-TCTTTTG
1 CTTTTTTTCTCTTTTG
99170391 CTTTTTTTCTCTTTT
1 CTTTTTTTCTCTTTT
99170406 TTAGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (16 bp):
CTTTTTTTCTCTTTTG
Found at i:99172876 original size:17 final size:16
Alignment explanation
Indices: 99172851--99172886 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
99172841 ACTAAAAAAG
99172851 AAAATATACTAATAAT
1 AAAATATACTAATAAT
*
99172867 AAAATAATACTAATAGT
1 AAAAT-ATACTAATAAT
99172884 AAA
1 AAA
99172887 CCACTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATATACTAATAAT
Found at i:99173050 original size:28 final size:28
Alignment explanation
Indices: 99173017--99173070 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
99173007 TAATAACAGC
99173017 ATATTAATAAGAATAACAACAAATAATA
1 ATATTAATAAGAATAACAACAAATAATA
* *
99173045 ATATTAATAATAATAACAATAAATAA
1 ATATTAATAAGAATAACAACAAATAA
99173071 ATAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (28 bp):
ATATTAATAAGAATAACAACAAATAATA
Found at i:99177460 original size:12 final size:11
Alignment explanation
Indices: 99177438--99177468 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
99177428 AATTTTTTTA
99177438 TAAACTAAAAT
1 TAAACTAAAAT
99177449 TAAACTATAAAT
1 TAAACTA-AAAT
99177461 TAAACTAA
1 TAAACTAA
99177469 CTAAGCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAACTAAAAT
Found at i:99188454 original size:24 final size:24
Alignment explanation
Indices: 99188439--99188490 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
99188429 AATCAAAGTC
99188439 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
99188463 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
99188487 AAAT
1 AAAT
99188491 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:99192409 original size:24 final size:24
Alignment explanation
Indices: 99192375--99192426 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
99192365 TTTCTAGAAG
* *
99192375 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
99192399 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
99192423 ATTT
1 ATTT
99192427 GAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:99192437 original size:24 final size:24
Alignment explanation
Indices: 99192375--99192438 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
99192365 TTTCTAGAAG
* * *
99192375 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
*
99192399 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
99192423 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
99192439 AATTATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:99192446 original size:24 final size:24
Alignment explanation
Indices: 99192375--99192446 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
99192365 TTTCTAGAAG
* * *
99192375 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGAATAATAT
* *
99192399 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGAATAATAT
*
99192423 ATTT-GAATTTGATTAGAATTATAT
1 ATTTAGAATTT-ATTAGAATAATAT
99192447 TTTTTCAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.12
24 36 0.88
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTAGAATTTATTAGAATAATAT
Found at i:99202976 original size:16 final size:15
Alignment explanation
Indices: 99202955--99203016 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 15
99202945 AGAAACTAGT
99202955 AAATAGAAATGAAGAA
1 AAATAG-AATGAAGAA
99202971 AAATAG-ATGAA-AA
1 AAATAGAATGAAGAA
*
99202984 GAGAATAGTGATGAAGAA
1 -A-AATAG-AATGAAGAA
99203002 AAATAG-ATGAA-AA
1 AAATAGAATGAAGAA
99203015 AA
1 AA
99203017 GTTGAGAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.15
14 11 0.27
15 5 0.12
16 11 0.27
17 6 0.15
18 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (15 bp):
AAATAGAATGAAGAA
Found at i:99202980 original size:14 final size:13
Alignment explanation
Indices: 99202963--99203016 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 13
99202953 GTAAATAGAA
99202963 ATGAAGAAAAATAG
1 ATGAA-AAAAATAG
99202977 ATGAAAAGAGAATAGTG
1 ATGAAAA-A-AATA--G
99202994 ATGAAGAAAAATAG
1 ATGAA-AAAAATAG
99203008 ATGAAAAAA
1 ATGAAAAAA
99203017 GTTGAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.17
14 12 0.34
15 4 0.11
16 4 0.11
17 7 0.20
18 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (13 bp):
ATGAAAAAAATAG
Found at i:99202991 original size:31 final size:31
Alignment explanation
Indices: 99202956--99203014 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
99202946 GAAACTAGTA
99202956 AATAGAAATGAAGAAAAATAGATGAAAAGAG
1 AATAGAAATGAAGAAAAATAGATGAAAAGAG
**
99202987 AATAGTGATGAAGAAAAATAGATGAAAA
1 AATAGAAATGAAGAAAAATAGATGAAAA
99203015 AAGTTGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (31 bp):
AATAGAAATGAAGAAAAATAGATGAAAAGAG
Found at i:99203948 original size:20 final size:20
Alignment explanation
Indices: 99203923--99203960 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99203913 GTTTATTCGC
*
99203923 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
99203943 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
99203961 TTTGGAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:99216586 original size:28 final size:28
Alignment explanation
Indices: 99216553--99216655 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 28
99216543 ATTGCATGAC
* *
99216553 TATGAAAGTGATTGGGCCTGACGGGTCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
*
99216581 TATGAAAGTGATTGGGCCTAATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* * *
99216609 TACGAATGTGGTTGGG-CTCGATGGGCCA
1 TATGAAAGTGATTGGGCCT-GATGGGCCA
* *
99216637 TATGAATGAGATTGGGCCT
1 TATGAAAGTGATTGGGCCT
99216656 ATAGGGGCCA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 59 0.94
29 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGATGGGCCA
Found at i:99217301 original size:24 final size:25
Alignment explanation
Indices: 99217269--99217315 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
99217259 AATCCCCGCA
99217269 GGAGTGTAGGGTTGGA-TGGGATAC
1 GGAGTGTAGGGTTGGATTGGGATAC
99217293 GGAGTGTAGGGTTGGATTGGGAT
1 GGAGTGTAGGGTTGGATTGGGAT
99217316 TTCTGCATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.19, C:0.02, G:0.51, T:0.28
Consensus pattern (25 bp):
GGAGTGTAGGGTTGGATTGGGATAC
Found at i:99224274 original size:16 final size:16
Alignment explanation
Indices: 99224253--99224289 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
99224243 AAGTGAGTAA
99224253 GTATGGGAAGAACCAG
1 GTATGGGAAGAACCAG
99224269 GTATGGGAAGAACCAG
1 GTATGGGAAGAACCAG
99224285 GTATG
1 GTATG
99224290 TATGATACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.11, G:0.38, T:0.16
Consensus pattern (16 bp):
GTATGGGAAGAACCAG
Found at i:99228150 original size:17 final size:17
Alignment explanation
Indices: 99228128--99228164 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
99228118 TGGCATCGAC
99228128 ACGGCGTTGAAGAGGCT
1 ACGGCGTTGAAGAGGCT
99228145 ACGGCGTTGAAGAGGCT
1 ACGGCGTTGAAGAGGCT
99228162 ACG
1 ACG
99228165 TGGGAGCCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.19, G:0.41, T:0.16
Consensus pattern (17 bp):
ACGGCGTTGAAGAGGCT
Found at i:99229561 original size:44 final size:44
Alignment explanation
Indices: 99229483--99229582 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
99229473 TCCGATATGT
* * *
99229483 GATTTCGTGTAAGACCACGTTGGGAACGTTGACATTG-ATTTGA
1 GATTTCGTGTAAGACCACGTTGGGAACATCGACATCGTATTTGA
*
99229526 GATTTACGTGTAAGACCATGTCTGGG-ACATCGACATCGTATTT--
1 GATTT-CGTGTAAGACCACGT-TGGGAACATCGACATCGTATTTGA
*
99229569 GATTTCATGTAAGA
1 GATTTCGTGTAAGA
99229583 TCCTGTTTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
42 8 0.16
43 10 0.20
44 23 0.47
45 8 0.16
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
GATTTCGTGTAAGACCACGTTGGGAACATCGACATCGTATTTGA
Done.