Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 31 of 185
Found at i:9254533 original size:27 final size:27
Alignment explanation
Indices: 9254514--9254813 Score: 343
Period size: 27 Copynumber: 11.2 Consensus size: 27
9254504 GGGTATAACA
**
9254514 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
9254541 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
9254568 GTCATTTTATCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
9254594 ATCATTTTACCCTATGAGGGTATTTAG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
9254621 GTCATTCTACCTTTTGGGGGTTTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
9254648 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
9254675 GTCAATTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
9254702 ATTATTTTATCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
9254729 GTCATTCTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
9254756 ATCATTTTACCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** *
9254783 ATCA-TTTATCCTATGAAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
9254809 GTCAT
1 GTCAT
9254814 AACAGTGTAA
Statistics
Matches: 229, Mismatches: 42, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
26 45 0.20
27 184 0.80
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:9256938 original size:22 final size:24
Alignment explanation
Indices: 9256913--9256957 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
9256903 ATATGGCAAA
9256913 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
9256935 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
9256958 AACTTAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:9257557 original size:37 final size:38
Alignment explanation
Indices: 9257456--9257557 Score: 89
Period size: 37 Copynumber: 2.6 Consensus size: 38
9257446 CAACCTTGAG
*
9257456 TCGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGAC
1 TCGATGAGACACTGGGTGTCA--A-CTTTCTTCGGATAGAC
* ** ** * **
9257497 TCGATAAGGTACTGGGTACCAACTTTCTTCGGCTTTAC
1 TCGATGAGACACTGGGTGTCAACTTTCTTCGGATAGAC
9257535 -CGATGAGACACTGGGTGTCAACT
1 TCGATGAGACACTGGGTGTCAACT
9257558 ATTGTTTTGA
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
37 18 0.38
38 12 0.26
39 1 0.02
41 16 0.34
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAACTTTCTTCGGATAGAC
Found at i:9259511 original size:15 final size:16
Alignment explanation
Indices: 9259487--9259522 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
9259477 ATCATAAGAA
9259487 ATTTTT-TTTATT-TT
1 ATTTTTATTTATTATT
9259501 ATTTTTATTTATTATT
1 ATTTTTATTTATTATT
9259517 -TTTTTA
1 ATTTTTA
9259523 AAACTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
15 12 0.60
16 2 0.10
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTTATTTATTATT
Found at i:9264215 original size:180 final size:180
Alignment explanation
Indices: 9263910--9264237 Score: 548
Period size: 180 Copynumber: 1.8 Consensus size: 180
9263900 CTAACAAATC
* * *
9263910 TTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGCCAGCTTTCCGTACGAGGTAAAGCCGCT
1 TTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCCATACGAGGTAAAGCCACT
** * **
9263975 ATGAGTTCTTAGTAATGCCATTTGGGTTGATAAATGCCCCAGCCACTTTTATGGATCTTATGAAT
66 ATGAGTTCTTAGTAATGCCATTCAGGTTGACAAATGCCCCAGCCACTTTTATCAATCTTATGAAT
*
9264040 CTTATTTTTCAGCCGTATGTATTCTCGAAGACTGACTTAAGGTCAGGTTA
131 CGTATTTTTCAGCCGTATGTATTCTCGAAGACTGACTTAAGGTCAGGTTA
**
9264090 TTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCCATACGAGGTATGGCCACT
1 TTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCCATACGAGGTAAAGCCACT
*
9264155 ATGAGTTCTTAGTAATGCCATTCAGGTTGACAAATGCCCCAGCCGCTTTTATCAATCTTATGAAT
66 ATGAGTTCTTAGTAATGCCATTCAGGTTGACAAATGCCCCAGCCACTTTTATCAATCTTATGAAT
9264220 CGTATTTTTCAGCCGTAT
131 CGTATTTTTCAGCCGTAT
9264238 TTAGACCAGT
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
180 136 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (180 bp):
TTATCAGTTGAAGGTAAAAGAAAGTGATGTACCGAAGACAGCTTTCCATACGAGGTAAAGCCACT
ATGAGTTCTTAGTAATGCCATTCAGGTTGACAAATGCCCCAGCCACTTTTATCAATCTTATGAAT
CGTATTTTTCAGCCGTATGTATTCTCGAAGACTGACTTAAGGTCAGGTTA
Found at i:9275954 original size:57 final size:57
Alignment explanation
Indices: 9275885--9275998 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
9275875 AACAGACTAC
9275885 TAGGATGTCATAGCATCTTTCAGATATGGTGTTAATCTTGTTTACCATGATGCCATG
1 TAGGATGTCATAGCATCTTTCAGATATGGTGTTAATCTTGTTTACCATGATGCCATG
9275942 TAGGATGTCATAGCATCTTTCAGATATGGTGTTAATCTTGTTTACCATGATGCCATG
1 TAGGATGTCATAGCATCTTTCAGATATGGTGTTAATCTTGTTTACCATGATGCCATG
9275999 GCATCTATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (57 bp):
TAGGATGTCATAGCATCTTTCAGATATGGTGTTAATCTTGTTTACCATGATGCCATG
Found at i:9278213 original size:30 final size:30
Alignment explanation
Indices: 9278179--9278241 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
9278169 CTATTTTTTT
9278179 ATTCGATAACC-AAGGCTATCCCTTTTCATA
1 ATTCGATAACCGAA-GCTATCCCTTTTCATA
9278209 ATTCGATAACCGAAGCTATCCCTTTTCATA
1 ATTCGATAACCGAAGCTATCCCTTTTCATA
9278239 ATT
1 ATT
9278242 TGATGGTCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (30 bp):
ATTCGATAACCGAAGCTATCCCTTTTCATA
Found at i:9278260 original size:30 final size:30
Alignment explanation
Indices: 9278226--9278389 Score: 152
Period size: 30 Copynumber: 5.5 Consensus size: 30
9278216 AACCGAAGCT
9278226 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** * *
9278256 ATCCCTTTTCATTGTTCGATGGTCGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * * *
9278286 ATCCTTTTTCGTAATTTGATAGCCG-AAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* * **
9278316 ATCCCTTTTCCTAGTTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * *
9278346 ATCCATTTCCGTAA-TTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
9278375 ATCCCGTTTCATAAT
1 ATCCCTTTTCATAAT
9278390 CGATAGCAGA
Statistics
Matches: 101, Mismatches: 30, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
29 24 0.24
30 76 0.75
31 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:9278295 original size:60 final size:60
Alignment explanation
Indices: 9278226--9278387 Score: 193
Period size: 60 Copynumber: 2.7 Consensus size: 60
9278216 AACCGAAGCT
* * * *
9278226 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTCGATGGTCGCCACC
1 ATCCATTTTCGTAATTTGATGGTCGTCACCATCCCTTTTCATAGTTCAATGGTCGCCACC
* * * * * *
9278286 ATCCTTTTTCGTAATTTGATAGCCG-AAGCCATCCCTTTTCCTAGTTCAATGGTCGTCACC
1 ATCCATTTTCGTAATTTGATGGTCGTCA-CCATCCCTTTTCATAGTTCAATGGTCGCCACC
* *
9278346 ATCCATTTCCGTAA-TTGATGGTCGTCACCATCCCGTTTCATA
1 ATCCATTTTCGTAATTTGATGGTCGTCACCATCCCTTTTCATA
9278388 ATCGATAGCA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
59 22 0.26
60 62 0.74
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (60 bp):
ATCCATTTTCGTAATTTGATGGTCGTCACCATCCCTTTTCATAGTTCAATGGTCGCCACC
Found at i:9278301 original size:90 final size:89
Alignment explanation
Indices: 9278196--9278416 Score: 264
Period size: 90 Copynumber: 2.5 Consensus size: 89
9278186 AACCAAGGCT
* ** *
9278196 ATCCCTTTTCATAATTCGATAACCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCA
* **
9278261 TTTTCATTGTTCGATGGTCGCCACC
66 TTTCCATAATT-GATGGTCGCCACC
* * * * * *
9278286 ATCCTTTTTCGTAATTTGATAGCCGAAGCCATCCCTTTTCCTAGTTCAATGGTCGTCACCATCCA
1 ATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCA
* *
9278351 TTTCCGTAATTGATGGTCGTCACC
66 TTTCCATAATTGATGGTCGCCACC
* * *
9278375 ATCCCGTTTCATAA-TCGATAGCAGAAGTTATCCCTTTTCATA
1 ATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATA
9278417 GTCGATATCC
Statistics
Matches: 108, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 23 0.21
89 23 0.21
90 62 0.57
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (89 bp):
ATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCGTCACCATCCA
TTTCCATAATTGATGGTCGCCACC
Found at i:9278408 original size:29 final size:29
Alignment explanation
Indices: 9278375--9278437 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
9278365 GGTCGTCACC
*
9278375 ATCCCGTTTCATAATCGATAGCAGAAGTT
1 ATCCCGTTTCATAATCGATAGCAGAAGCT
* * * *
9278404 ATCCCTTTTCATAGTCGATATCCGAAGCT
1 ATCCCGTTTCATAATCGATAGCAGAAGCT
9278433 ATCCC
1 ATCCC
9278438 ATTTTACCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (29 bp):
ATCCCGTTTCATAATCGATAGCAGAAGCT
Found at i:9285133 original size:29 final size:29
Alignment explanation
Indices: 9285100--9285162 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
9285090 GATTTACCTA
9285100 GCCATCACATACCATTATGTATCAAATAT
1 GCCATCACATACCATTATGTATCAAATAT
*
9285129 GCCATCATATACCATTATGTATCAAATAT
1 GCCATCACATACCATTATGTATCAAATAT
9285158 GCCAT
1 GCCAT
9285163 TCCACAACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (29 bp):
GCCATCACATACCATTATGTATCAAATAT
Found at i:9285894 original size:30 final size:30
Alignment explanation
Indices: 9285860--9286019 Score: 146
Period size: 30 Copynumber: 5.4 Consensus size: 30
9285850 GAAGCTATCT
9285860 CTTTTCATAATTTGATGGTCATCACCATCC
1 CTTTTCATAATTTGATGGTCATCACCATCC
** * * *
9285890 CTTTTCATTGTTCGACGGTCGTCACCATCC
1 CTTTTCATAATTTGATGGTCATCACCATCC
*** *
9285920 CTTTTCATAATTTGATAACCA-AAGCCATCC
1 CTTTTCATAATTTGATGGTCATCA-CCATCC
* * * *
9285950 CTTTTCATAGTTCGATGATCGTCACCATCC
1 CTTTTCATAATTTGATGGTCATCACCATCC
* *
9285980 ATTTCCATAA-TTGATGGTCATCACCA-CTC
1 CTTTTCATAATTTGATGGTCATCACCATC-C
9286009 CTTTTCATAAT
1 CTTTTCATAAT
9286020 CGATAGCCAA
Statistics
Matches: 98, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
28 1 0.01
29 23 0.23
30 73 0.74
31 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.38
Consensus pattern (30 bp):
CTTTTCATAATTTGATGGTCATCACCATCC
Found at i:9285920 original size:90 final size:89
Alignment explanation
Indices: 9285826--9286019 Score: 237
Period size: 90 Copynumber: 2.2 Consensus size: 89
9285816 AGTGGAGGCT
* * * * * *
9285826 ATCCCTTTTCATAATTTAATAACCGAAGCTATCTCTTTTCATAATTTGATGGTCATCACCATCCC
1 ATCCCTTTTCATAATTTAATAACCAAAGCCATCCCTTTTCATAATTCGATGATCATCACCATCCA
* ** *
9285891 TTTTCATTGTTCGACGGTCGTCACC
66 TTTCCATAATT-GACGGTCATCACC
* * *
9285916 ATCCCTTTTCATAATTTGATAACCAAAGCCATCCCTTTTCATAGTTCGATGATCGTCACCATCCA
1 ATCCCTTTTCATAATTTAATAACCAAAGCCATCCCTTTTCATAATTCGATGATCATCACCATCCA
*
9285981 TTTCCATAATTGATGGTCATCACC
66 TTTCCATAATTGACGGTCATCACC
9286005 A-CTCCTTTTCATAAT
1 ATC-CCTTTTCATAAT
9286020 CGATAGCCAA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
88 1 0.01
89 24 0.27
90 64 0.72
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (89 bp):
ATCCCTTTTCATAATTTAATAACCAAAGCCATCCCTTTTCATAATTCGATGATCATCACCATCCA
TTTCCATAATTGACGGTCATCACC
Found at i:9285924 original size:60 final size:60
Alignment explanation
Indices: 9285860--9286017 Score: 196
Period size: 60 Copynumber: 2.6 Consensus size: 60
9285850 GAAGCTATCT
* *
9285860 CTTTTCATAATTTGATGGTCATCACCATCCCTTTTCATTGTTCGACGGTCGTCACCATCC
1 CTTTTCATAATTTGATGGTCATCACCATCCCTTTTCATAGTTCGACGATCGTCACCATCC
*** * *
9285920 CTTTTCATAATTTGATAACCA-AAGCCATCCCTTTTCATAGTTCGATGATCGTCACCATCC
1 CTTTTCATAATTTGATGGTCATCA-CCATCCCTTTTCATAGTTCGACGATCGTCACCATCC
* *
9285980 ATTTCCATAA-TTGATGGTCATCACCA-CTCCTTTTCATA
1 CTTTTCATAATTTGATGGTCATCACCATC-CCTTTTCATA
9286018 ATCGATAGCC
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
58 1 0.01
59 21 0.26
60 60 0.73
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.37
Consensus pattern (60 bp):
CTTTTCATAATTTGATGGTCATCACCATCCCTTTTCATAGTTCGACGATCGTCACCATCC
Found at i:9286042 original size:29 final size:29
Alignment explanation
Indices: 9286010--9286066 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
9286000 TCACCACTCC
9286010 TTTTCATAATCGATAGCCAAAGCTATCCT
1 TTTTCATAATCGATAGCCAAAGCTATCCT
** * * *
9286039 TTTTTGTAGTCGATAGTCGAAGCTATCC
1 TTTTCATAATCGATAGCCAAAGCTATCC
9286067 CATTTCACCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (29 bp):
TTTTCATAATCGATAGCCAAAGCTATCCT
Found at i:9287247 original size:19 final size:20
Alignment explanation
Indices: 9287203--9287250 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
9287193 GGCTGTTACA
9287203 TTTGTGAACTTGATCAAACTC
1 TTTGTGAACTTGATCAAAC-C
9287224 TTTGTGAACTTGATCAAA-C
1 TTTGTGAACTTGATCAAACC
9287243 TTTGTGAA
1 TTTGTGAA
9287251 GATTCAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 9 0.33
21 18 0.67
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGTGAACTTGATCAAACC
Found at i:9288281 original size:20 final size:20
Alignment explanation
Indices: 9288256--9288296 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9288246 CAATTCAGGT
*
9288256 AAAGGAATTGAAGAAAGAAG
1 AAAGGAATGGAAGAAAGAAG
9288276 AAAGGAATGGAAGAAAGAAG
1 AAAGGAATGGAAGAAAGAAG
9288296 A
1 A
9288297 TTTTGGGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (20 bp):
AAAGGAATGGAAGAAAGAAG
Found at i:9291506 original size:31 final size:30
Alignment explanation
Indices: 9291435--9291493 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
9291425 GAATTTGATT
* *
9291435 AAATCAAAATTTCATATATAAATTTGCACA
1 AAATCAAAGTTTCATATATAAAGTTGCACA
9291465 AAATCAAAGTTT-ATATATAAAGTTGCACA
1 AAATCAAAGTTTCATATATAAAGTTGCACA
9291494 TTGAATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTTCATATATAAAGTTGCACA
Found at i:9293180 original size:6 final size:6
Alignment explanation
Indices: 9293171--9293195 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9293161 TTTAATTTGC
9293171 TTGAAT TTGAAT TTGAAT TTGAAT T
1 TTGAAT TTGAAT TTGAAT TTGAAT T
9293196 GATGGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TTGAAT
Found at i:9300314 original size:7 final size:7
Alignment explanation
Indices: 9300302--9300326 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9300292 GTCCTTAAAC
9300302 ATTTTAA
1 ATTTTAA
9300309 ATTTTAA
1 ATTTTAA
9300316 ATTTTAA
1 ATTTTAA
9300323 ATTT
1 ATTT
9300327 CAACCCTCAC
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:9300762 original size:3 final size:3
Alignment explanation
Indices: 9300754--9300786 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9300744 TGAAGAATTA
9300754 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
9300787 AATATAAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:9305395 original size:114 final size:114
Alignment explanation
Indices: 9305090--9305582 Score: 333
Period size: 114 Copynumber: 4.3 Consensus size: 114
9305080 TGGTCATAAA
* * * * * *
9305090 CGCCGCAAAAACTATTAAGAAAAAC-ACTGCCATTTTCAGTTTAGGTTTTGGGGACTTTAGTGGC
1 CGCCGC-AAAACTGTTAAG-AAAACGA-TGTCGTTTTCAATTTAGGTTTTAGAGACTTTAGTGGC
*
9305154 GCTTAAT-GAAAAACGCCGCTATAGTCAAGAATTAGCGGCGCTTTATCATAAG
63 GCTT-ATCGAAAAACGCCGCTATAGTCAAGAATTAGCGGCGCTTTATCAGAAG
* * * ** * * *
9305206 CGTCGCAAGACTGTTAAGAAAACGTTGTCGTTTTTC-ATTTATCTTTTCGAGACGTTAGTGGCGA
1 CGCCGCAAAACTGTTAAGAAAACGATGTCG-TTTTCAATTTAGGTTTTAGAGACTTTAGTGGCGC
* * ** *
9305270 TTTTCGGAAAACGCCG-TAGTAG-CGAAGCTTTAGTGGCGCTTTATCAGAAG
65 TTATCGAAAAACGCCGCTA-TAGTC-AAGAATTAGCGGCGCTTTATCAGAAG
*
9305320 TGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTCAATTTAGGTTTTAGAGACTTTAGTGGCGCT
1 CGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTCAATTTAGGTTTTAGAGACTTTAGTGGCGCT
* * * * * * * * *
9305385 TGTCTAAAAACGCCACCA-AAT-ATAGAAATTAGCGGCGATTTCTAAAAAG
66 TATCGAAAAACGCCGCTATAGTCA-AG-AATTAGCGGCGCTTTATCAGAAG
*** * * * * * * * *
9305434 CGCCGCAAATGAGTTAAGCCAAACGATGCCGTTTGC-TTGTTGAGCTTTT-GTGACATTGGTGGC
1 CGCCGCAAAACTGTTAAG-AAAACGATGTCGTTTTCAAT-TT-AGGTTTTAGAGACTTTAGTGGC
* * * * *
9305497 GCTT-TCGTAGAAACGCCGC-AAACTGTGAAGAATTAGCGGCGCTTTAACATAAG
63 GCTTATCG-AAAAACGCCGCTATA--GTCAAGAATTAGCGGCGCTTTATCAGAAG
* * *
9305550 CGCCGCAAGACTATTAAGCAAACGATGTCGTTT
1 CGCCGCAAAACTGTTAAGAAAACGATGTCGTTT
9305583 ATTATTTAGC
Statistics
Matches: 291, Mismatches: 68, Indels: 37
0.73 0.17 0.09
Matches are distributed among these distances:
112 1 0.00
113 12 0.04
114 161 0.55
115 71 0.24
116 42 0.14
117 3 0.01
118 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (114 bp):
CGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTCAATTTAGGTTTTAGAGACTTTAGTGGCGCT
TATCGAAAAACGCCGCTATAGTCAAGAATTAGCGGCGCTTTATCAGAAG
Found at i:9306091 original size:15 final size:15
Alignment explanation
Indices: 9306071--9306103 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9306061 CTTAAGGATT
*
9306071 GGGGTTAAGGGTTTA
1 GGGGTTAAGGGTTAA
9306086 GGGGTTAAGGGTTAA
1 GGGGTTAAGGGTTAA
9306101 GGG
1 GGG
9306104 CTGGGGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.52, T:0.27
Consensus pattern (15 bp):
GGGGTTAAGGGTTAA
Found at i:9307947 original size:21 final size:22
Alignment explanation
Indices: 9307923--9307978 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
9307913 TATGGATTAT
*
9307923 GGTTTAAGGG-TTGGGGTTAAG
1 GGTTTAAGGGTTTAGGGTTAAG
*
9307944 GGTTTATGGGTTTAGGGTT-AG
1 GGTTTAAGGGTTTAGGGTTAAG
* *
9307965 GGGTTAGGGGTTTA
1 GGTTTAAGGGTTTA
9307979 TAGTTAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (22 bp):
GGTTTAAGGGTTTAGGGTTAAG
Found at i:9307955 original size:29 final size:28
Alignment explanation
Indices: 9307919--9307979 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
9307909 GGCTTATGGA
9307919 TTATGGTTTAAGGGTT-GGGGTTAAGGGT
1 TTATGGTTT-AGGGTTAGGGGTTAAGGGT
*
9307947 TTATGGGTTTAGGGTTAGGGGTTAGGGGT
1 TTAT-GGTTTAGGGTTAGGGGTTAAGGGT
9307976 TTAT
1 TTAT
9307980 AGTTAATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (28 bp):
TTATGGTTTAGGGTTAGGGGTTAAGGGT
Found at i:9310380 original size:15 final size:15
Alignment explanation
Indices: 9310360--9310388 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9310350 CTGTGCTTCC
9310360 TGTGCTTCCTGTAAT
1 TGTGCTTCCTGTAAT
9310375 TGTGCTTCCTGTAA
1 TGTGCTTCCTGTAA
9310389 CTGTTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (15 bp):
TGTGCTTCCTGTAAT
Found at i:9311485 original size:17 final size:17
Alignment explanation
Indices: 9311465--9311514 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
9311455 TTAATATCTA
9311465 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
9311482 TATAAATTTTCT-AA--
1 TATAAGTTTTCTAAATT
9311496 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
9311512 TAT
1 TAT
9311515 TTGTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
16 2 0.07
17 13 0.48
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:9311541 original size:15 final size:15
Alignment explanation
Indices: 9311506--9311544 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
9311496 ATAAGTTTTC
*
9311506 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
9311521 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
9311537 TAAATTTA
1 TAAATTTA
9311545 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:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:9311587 original size:62 final size:61
Alignment explanation
Indices: 9311476--9311624 Score: 165
Period size: 62 Copynumber: 2.4 Consensus size: 61
9311466 ATAAGTTTTC
* * *** * *
9311476 TAAATTTATAAATTTTCTAAATAAGTTTTCTAAATTTATTTGTATTAAAATTTAT-TAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATTTATGT-GTAT
** *
9311537 TAAATTTACTTCGTTTTCTAAATAAGTGTTCTAAATTTGGGAGAAATAAAATTTATGTGTAT
1 TAAATTTA-TAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATTTATGTGTAT
* *
9311599 TAATTTTATAAGTTTTCTACATAAGT
1 TAAATTTATAAGTTTTCTAAATAAGT
9311625 TACATAATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
61 23 0.32
62 48 0.67
63 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.48
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATTTATGTGTAT
Found at i:9311694 original size:21 final size:21
Alignment explanation
Indices: 9311666--9311726 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
9311656 ACTTATATAA
*
9311666 TACATAACTTATAT-TTAAGTT
1 TACATAACTTATATAATAA-TT
* *
9311687 TGCATAACTTACATAATAATT
1 TACATAACTTATATAATAATT
9311708 TACATAACTTATAT-ATAAT
1 TACATAACTTATATAATAAT
9311727 AACATAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 5 0.15
21 26 0.76
22 3 0.09
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (21 bp):
TACATAACTTATATAATAATT
Found at i:9311763 original size:95 final size:99
Alignment explanation
Indices: 9311661--9311854 Score: 306
Period size: 101 Copynumber: 2.0 Consensus size: 99
9311651 ACAAAACTTA
* * *
9311661 TATAATACATAACTTATATTTAAGTTTGCATAACTTACAT-AA-T-AAT-TTACATAACTTATAT
1 TATAATACATAACTTATATATAAGCTTGCATAACTTACATAAATTAAATATTACATAACTTACAT
9311722 ATAATAACATAATAAATTACATAATACTTTATGT
66 ATAATAACATAATAAATTACATAATACTTTATGT
*
9311756 TATAATACATAACTTGTATATAAGCTTGCATAACTTACATAAATTAAATAACTTACATAACTTAC
1 TATAATACATAACTTATATATAAGCTTGCATAACTTACATAAATTAAAT-A-TTACATAACTTAC
9311821 ATATAATAACATAATAAATTACATAATACTTTAT
64 ATATAATAACATAATAAATTACATAATACTTTAT
9311855 ATAATAACAT
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
95 37 0.42
96 2 0.02
97 1 0.01
98 3 0.03
101 46 0.52
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (99 bp):
TATAATACATAACTTATATATAAGCTTGCATAACTTACATAAATTAAATATTACATAACTTACAT
ATAATAACATAATAAATTACATAATACTTTATGT
Found at i:9311815 original size:9 final size:9
Alignment explanation
Indices: 9311761--9311823 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
9311751 TATGTTATAA
9311761 TACATAACTT
1 TACATAAC-T
*
9311771 GTATATAAGCT
1 -TACATAA-CT
*
9311782 TGCATAACT
1 TACATAACT
*
9311791 TACATAAAT
1 TACATAACT
*
9311800 TAAATAACT
1 TACATAACT
9311809 TACATAACT
1 TACATAACT
9311818 TACATA
1 TACATA
9311824 TAATAACATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 30 0.70
10 5 0.12
11 7 0.16
12 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:9311842 original size:22 final size:23
Alignment explanation
Indices: 9311802--9311845 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
9311792 ACATAAATTA
* *
9311802 AATAACTTACATAACTTACATAT
1 AATAACATACATAAATTACATAT
9311825 AATAACATA-ATAAATTACATA
1 AATAACATACATAAATTACATA
9311846 ATACTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAACATACATAAATTACATAT
Found at i:9311848 original size:20 final size:20
Alignment explanation
Indices: 9311823--9311898 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
9311813 TAACTTACAT
9311823 ATAATAACATAATAAATTAC
1 ATAATAACATAATAAATTAC
* * *
9311843 ATAAT-ACTTTATATAATAAC
1 ATAATAACATAATA-AATTAC
* * * *
9311863 ATAATACCTTAAATAACTTAT
1 ATAATAACAT-AATAAATTAC
9311884 ATAATAACATAATAA
1 ATAATAACATAATAA
9311899 CATAATAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 6 0.14
20 20 0.47
21 14 0.33
22 3 0.07
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAACATAATAAATTAC
Found at i:9311857 original size:32 final size:29
Alignment explanation
Indices: 9311802--9311898 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 29
9311792 ACATAAATTA
* *
9311802 AATAACTTACATAACTTACATATAATAACAT
1 AATAAATTAAATAACTTA--TATAATAACAT
*
9311833 AATAAATTACATAATACTTTATATAATAACAT
1 AATAAATTAAAT-A-AC-TTATATAATAACAT
**
9311865 AATACCTTAAATAACTTATATAATAACAT
1 AATAAATTAAATAACTTATATAATAACAT
9311894 AATAA
1 AATAA
9311899 CATAATAACT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
29 18 0.31
30 2 0.03
31 12 0.21
32 21 0.36
33 2 0.03
34 3 0.05
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (29 bp):
AATAAATTAAATAACTTATATAATAACAT
Found at i:9311899 original size:20 final size:20
Alignment explanation
Indices: 9311802--9312695 Score: 137
Period size: 18 Copynumber: 46.7 Consensus size: 20
9311792 ACATAAATTA
9311802 AATAACTTACATAACTTACATAT
1 AATAACTTA-ATAACTTAC--AT
* *
9311825 AATAACATAATAAATTACAT
1 AATAACTTAATAACTTACAT
*
9311845 AAT-ACTTTATATAA-TAACAT
1 AATAAC-TTA-ATAACTTACAT
* *
9311865 AATACCTTAAATAACTTATAT
1 AATAACTT-AATAACTTACAT
* *
9311886 AATAACATAATAACATA-AT
1 AATAACTTAATAACTTACAT
* * *
9311905 AACTAAGATACAATATA-TAAACAT
1 AA-TAA-CT-TAATA-ACT-TACAT
*
9311929 ATATAGAAACTTACATAA-ATA-A-
1 A-AT---AACTTA-ATAACTTACAT
*
9311951 AATAACTTACATAAATT--A-
1 AATAACTTA-ATAACTTACAT
9311969 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9311990 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312006 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312027 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312043 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312064 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312080 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312101 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312117 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312138 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312154 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312175 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312191 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312212 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312228 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312249 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312265 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312286 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312302 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312323 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312339 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312360 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312376 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312397 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312413 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312434 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312450 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312471 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312487 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312508 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312524 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
* *
9312545 -A-AACTTGCATAAATT--A-
1 AATAACTT-AATAACTTACAT
9312561 AATAACTTACATAACTTACAT
1 AATAACTTA-ATAACTTACAT
*
9312582 -A-AACTTACATAAATT--A-
1 AATAACTTA-ATAACTTACAT
9312598 AATAACTTACATAACTTACATAT
1 AATAACTTA-ATAACTTAC--AT
* *
9312621 AATAACATAATAAATTACAT
1 AATAACTTAATAACTTACAT
*
9312641 AAT-ACTTTATATAA-TAACAT
1 AATAAC-TTA-ATAACTTACAT
* *
9312661 AATACCTTAAATAACTTATAT
1 AATAACTT-AATAACTTACAT
*
9312682 AATAACATAATAAC
1 AATAACTTAATAAC
9312696 ATAATAACTA
Statistics
Matches: 631, Mismatches: 96, Indels: 291
0.62 0.09 0.29
Matches are distributed among these distances:
17 34 0.05
18 217 0.34
19 198 0.31
20 93 0.15
21 34 0.05
22 22 0.03
23 19 0.03
24 5 0.01
25 3 0.00
26 4 0.01
27 2 0.00
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.32
Consensus pattern (20 bp):
AATAACTTAATAACTTACAT
Found at i:9312630 original size:37 final size:37
Alignment explanation
Indices: 9311936--9312619 Score: 1316
Period size: 37 Copynumber: 18.5 Consensus size: 37
9311926 CATATATAGA
* * * *
9311936 AACTTACATAAATAAAAT-AACTTACATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9311972 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312009 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312046 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312083 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312120 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312157 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312194 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312231 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312268 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312305 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312342 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312379 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312416 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312453 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312490 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312527 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
*
9312564 AACTTACATAACTTACATAAACTTACATAAATTAAAT
1 AACTTACATAACTTACATAAACTTGCATAAATTAAAT
9312601 AACTTACATAACTTACATA
1 AACTTACATAACTTACATA
9312620 TAATAACATA
Statistics
Matches: 642, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
36 15 0.02
37 627 0.98
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.32
Consensus pattern (37 bp):
AACTTACATAACTTACATAAACTTGCATAAATTAAAT
Found at i:9312658 original size:32 final size:29
Alignment explanation
Indices: 9312598--9312694 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 29
9312588 ACATAAATTA
* *
9312598 AATAACTTACATAACTTACATATAATAACAT
1 AATAAATTAAATAACTTA--TATAATAACAT
*
9312629 AATAAATTACATAATACTTTATATAATAACAT
1 AATAAATTAAAT-A-AC-TTATATAATAACAT
**
9312661 AATACCTTAAATAACTTATATAATAACAT
1 AATAAATTAAATAACTTATATAATAACAT
9312690 AATAA
1 AATAA
9312695 CATAATAACT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
29 18 0.31
30 2 0.03
31 12 0.21
32 21 0.36
33 2 0.03
34 3 0.05
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (29 bp):
AATAAATTAAATAACTTATATAATAACAT
Found at i:9312844 original size:37 final size:37
Alignment explanation
Indices: 9311936--9312880 Score: 1008
Period size: 37 Copynumber: 25.3 Consensus size: 37
9311926 CATATATAGA
* * * * * *
9311936 AACTTACATAAA-TAAAATAACTTACATAAATTAAAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
** * *
9311972 AACTTACAT-AACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAAACTTACATAAA-TTAAATAACTTACAT
** * *
9312009 AACTTACAT-AACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAAACTTACATAAA-TTAAATAACTTACAT
** * *
9312046 AACTTACAT-AACTTACATAAACTTGCATAAATTAAAT
1 AACTTACATAAACTTACATAAA-TTAAATAACTTACAT
*
9312083 AACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AAC---------TTACATAAACTTACATAAATTAAATAACTTACAT
*
9312129 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312166 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312203 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312240 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312277 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312314 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312351 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312388 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312425 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312462 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312499 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
*
9312536 AACTTACATAAACTTGCATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
9312573 AACTTACATAAACTTACATAAATTAAATAACTTACAT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
* * *
9312610 AACTTACATATAA-TAACAT-AA-TAAATTACATA-AT
1 AACTTACATA-AACTTACATAAATTAAATAACTTACAT
* * *
9312644 -ACTT-TATATAA-TAACATAATACCTTAAATAACTTATAT
1 AACTTACATA-AACTTACATAA-A--TTAAATAACTTACAT
* * * * *
9312682 AA-TAACAT-AA-TAACATAATAACTAAGAT-ACAATATAT
1 AACTTACATAAACTTACAT-A-AATTAA-ATAAC-TTACAT
* * *
9312719 AAACATATATAGAAACTTACATAAATAAAATAACTTACAT
1 -AAC-T-TACATAAACTTACATAAATTAAATAACTTACAT
* * * *
9312759 AAATTAAAT-AACTTACATAACTTACATAAACTTACAT
1 AACTTACATAAACTTACATAAATTAAAT-AACTTACAT
* * * * * * *
9312796 AAATTAAAT-AACTTACATAACTTACATAAATTTCGT
1 AACTTACATAAACTTACATAAATTAAATAACTTACAT
* *
9312832 GGACTTACAT-AACCTACATAAATTAAATAACTTACAT
1 -AACTTACATAAACTTACATAAATTAAATAACTTACAT
9312869 AACTTACATAAA
1 AACTTACATAAA
9312881 TTGAATAACT
Statistics
Matches: 827, Mismatches: 47, Indels: 69
0.88 0.05 0.07
Matches are distributed among these distances:
32 12 0.01
33 5 0.01
34 3 0.00
35 11 0.01
36 51 0.06
37 675 0.82
38 10 0.01
39 6 0.01
40 7 0.01
41 8 0.01
42 3 0.00
43 5 0.01
46 20 0.02
47 11 0.01
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.32
Consensus pattern (37 bp):
AACTTACATAAACTTACATAAATTAAATAACTTACAT
Found at i:9328541 original size:21 final size:21
Alignment explanation
Indices: 9328515--9328565 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
9328505 CTACAACTTA
*
9328515 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
* *
9328536 AAGCAGAGGCTGTAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
9328557 AAGCAGAGG
1 AAGCAGAGG
9328566 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:9329005 original size:42 final size:42
Alignment explanation
Indices: 9328945--9329090 Score: 256
Period size: 42 Copynumber: 3.5 Consensus size: 42
9328935 CGTTTTTGTA
*
9328945 AAAAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGCTTAAGG
1 AAAAA-CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGG
*
9328988 AAAAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGG
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGG
9329030 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGG
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGG
*
9329072 AAAAACGCAGCTAAAGAAC
1 AAAAACGCCGCTAAAGAAC
9329091 GAAAAACGCC
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 94 0.95
43 5 0.05
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.18
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGG
Found at i:9329096 original size:20 final size:20
Alignment explanation
Indices: 9329071--9329108 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9329061 GGCGCTTAAG
9329071 GAAAAACGCAGCTAAAGAAC
1 GAAAAACGCAGCTAAAGAAC
*
9329091 GAAAAACGCCGCTAAAGA
1 GAAAAACGCAGCTAAAGA
9329109 TCATGTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.21, G:0.21, T:0.05
Consensus pattern (20 bp):
GAAAAACGCAGCTAAAGAAC
Found at i:9331427 original size:18 final size:18
Alignment explanation
Indices: 9331377--9331418 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
9331367 ATTTATATTC
*
9331377 TCTCTAAACTCTC--AAT
1 TCTCTCAACTCTCTTAAT
*
9331393 TCTTTCAACTCTCTTAAT
1 TCTCTCAACTCTCTTAAT
9331411 TCTCTCAA
1 TCTCTCAA
9331419 TTTTCTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (18 bp):
TCTCTCAACTCTCTTAAT
Found at i:9333588 original size:24 final size:23
Alignment explanation
Indices: 9333558--9333612 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
9333548 AATAGAGACA
* *
9333558 AAGATGAAGCCGAAGGTGGAGATG
1 AAGATGAAACC-AAGGTGGAAATG
*
9333582 AATATGAAAACCAAGGTGGAAATG
1 AAGATG-AAACCAAGGTGGAAATG
9333606 AAGATGA
1 AAGATGA
9333613 GTACGAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.45, C:0.07, G:0.33, T:0.15
Consensus pattern (23 bp):
AAGATGAAACCAAGGTGGAAATG
Found at i:9334703 original size:281 final size:281
Alignment explanation
Indices: 9334185--9334741 Score: 706
Period size: 281 Copynumber: 2.0 Consensus size: 281
9334175 ATGCCTTAAT
* * * ** * *
9334185 GTATTCCTTAATACGGAACATGTTGCCTTTGTATGCCCTGGGTTTCTACAGTACCCGCATAACCT
1 GTATCCCTCAATACAGAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCT
* * * *
9334250 CTGTTGATTGCCTCTCTCCTGAATATCAATATTAGTACTTATCCGAGTAAAATTCGGATGACCTT
66 CTGTTGATTGCCTCTCTCCTGAACATCAATATTAGTACGTATCCGAGTAAAATTCAGACGACCTT
* * * ** * * * * *
9334315 TTGGGATGCAACACAAGTTCATGTTCGGGTCCAACTCGAACAGAGCTCTGGGCACTGGCAAACAC
131 TCGAGATACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAGCACTGGACACTGGCAAACAC
* *
9334380 ATACTCTCATCTGAGATAAGTGGGAATTTAGATATTCATACATTGTGCATGCC-TTCTAATTTGT
196 ATACTCTCATCTGAGATAAGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTC-AATTTGT
9334444 ACACATCGTTAATATAATATGG
260 ACACATCGTTAATATAATATGG
*
9334466 GTATCCCTCAATACAGAACATGTTGCCTTCATATGCTCTAGGTTTCTACAGTACCCACATAACCT
1 GTATCCCTCAATACAGAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCT
* * * * * *
9334531 CTGTTGATTGTCTCTCTCCTGAACATCCATATTGGTGA-GTATCCGAGTGAAATTTAGACGACGT
66 CTGTTGATTGCCTCTCTCCTGAACATCAATATTAGT-ACGTATCCGAGTAAAATTCAGACGACCT
* ** * **
9334595 TTCGAGATACGATGCAAGTAAATATTCGGGGCCAACTCAAAC-GGGACACTGGACACTGGCAGCC
130 TTCGAGATACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAG-CACTGGACACTGGCAAAC
* * * *
9334659 ACATACTCTTATCTGGGATAGGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTCAGTTTG
194 ACATACTCTCATCTGAGATAAGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTCAATTTG
9334724 TACACATCGTTAATATAA
259 TACACATCGTTAATATAA
9334742 GGTGTGTACT
Statistics
Matches: 233, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
280 2 0.01
281 227 0.97
282 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (281 bp):
GTATCCCTCAATACAGAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCT
CTGTTGATTGCCTCTCTCCTGAACATCAATATTAGTACGTATCCGAGTAAAATTCAGACGACCTT
TCGAGATACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAGCACTGGACACTGGCAAACAC
ATACTCTCATCTGAGATAAGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTCAATTTGTA
CACATCGTTAATATAATATGG
Found at i:9335105 original size:26 final size:26
Alignment explanation
Indices: 9335070--9335121 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9335060 GAAAAGTATG
*
9335070 CTTCTTTGACAATCGAGGTTATTGGT
1 CTTCTTTGACAACCGAGGTTATTGGT
*
9335096 CTTCTTTGACAACCTAGGTTATTGGT
1 CTTCTTTGACAACCGAGGTTATTGGT
9335122 AAATGACGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
CTTCTTTGACAACCGAGGTTATTGGT
Found at i:9338277 original size:102 final size:103
Alignment explanation
Indices: 9338088--9338358 Score: 244
Period size: 102 Copynumber: 2.6 Consensus size: 103
9338078 CTAGTTGATT
* * **
9338088 TTTAAAGGTTAGCTGAGTTAAGCTCTCAACCTATTTTTTTTGAGGTAGCTGAGTCAAGCTCGCAA
1 TTTAAAGGTTAGCTAAGTTAAACTCTCAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGCAA
* *
9338153 CTCCGAAACAGCTCGCGGACCTACGTTCCCAACTAATG
66 CTCCGAAACAACTCGCGAACCTACGTTCCCAACTAATG
* * * *
9338191 TTTAAA-GTTCAGCTAAGTTAAACTCGT-AACCTAAATTTTTT-AGTTAGTTGAGTTAAGCTTGC
1 TTTAAAGGTT-AGCTAAGTTAAACTC-TCAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGC
* * * *** *
9338253 AACTCTGAAACAACTTGCGAACCTATGTTCCCTGGTTATG
64 AACTCCGAAACAACTCGCGAACCTACGTTCCCAACTAATG
* * * * * * * * * *
9338293 CTTAAAGGTTAGTTGAGTTAAGCT-TATAACTTAAATTTTTTGAGTTAACTGAGTTAAGCTCACA
1 TTTAAAGGTTAGCTAAGTTAAACTCT-CAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGCA
9338357 AC
65 AC
9338359 CCTAGCTATT
Statistics
Matches: 136, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
100 1 0.01
102 80 0.59
103 54 0.40
104 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (103 bp):
TTTAAAGGTTAGCTAAGTTAAACTCTCAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGCAA
CTCCGAAACAACTCGCGAACCTACGTTCCCAACTAATG
Found at i:9358153 original size:27 final size:25
Alignment explanation
Indices: 9358115--9358206 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
9358105 CATATGAGCA
*
9358115 CATA-AACAGGAAGCTCTCTCTCAAGC
1 CATATAACAGGAAGCT-TATCT-AAGC
* *
9358141 CATATAACGGGAAGCTTATGTAAGC
1 CATATAACAGGAAGCTTATCTAAGC
* ***
9358166 CATGTAACAGGAAGCTTATCCGGGC
1 CATATAACAGGAAGCTTATCTAAGC
*
9358191 CATATAACAAGAAGCT
1 CATATAACAGGAAGCT
9358207 CATGAGAACC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
25 37 0.69
26 7 0.13
27 10 0.19
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (25 bp):
CATATAACAGGAAGCTTATCTAAGC
Found at i:9358849 original size:21 final size:21
Alignment explanation
Indices: 9358825--9358866 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9358815 TAAATTTAAC
*
9358825 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* *
9358846 TCAATTCCATTCAATTCACAT
1 TCAATTCAATACAATTCACAT
9358867 CTTAGGCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:9358856 original size:10 final size:11
Alignment explanation
Indices: 9358836--9358866 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
9358826 CAATTTAATA
9358836 CAATTCACATT
1 CAATTCACATT
9358847 CAATTC-CATT
1 CAATTCACATT
9358857 CAATTCACAT
1 CAATTCACAT
9358867 CTTAGGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (11 bp):
CAATTCACATT
Found at i:9366639 original size:46 final size:46
Alignment explanation
Indices: 9366567--9366706 Score: 235
Period size: 46 Copynumber: 3.0 Consensus size: 46
9366557 ACAATGCTAT
* * **
9366567 AACTCAGTATGGTTTCCTTCACTGAAATTCCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
*
9366613 AACTCTGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
9366659 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
9366705 AA
1 AA
9366707 TTTGTCATGG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
Found at i:9374839 original size:24 final size:24
Alignment explanation
Indices: 9374812--9374860 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9374802 TGAACTTCGA
9374812 TTTATTATGTTTTGATAGCTAACG
1 TTTATTATGTTTTGATAGCTAACG
9374836 TTTATTATGTTTTGATAGCTAACG
1 TTTATTATGTTTTGATAGCTAACG
9374860 T
1 T
9374861 GACAATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (24 bp):
TTTATTATGTTTTGATAGCTAACG
Found at i:9374872 original size:23 final size:24
Alignment explanation
Indices: 9374818--9374874 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
9374808 TCGATTTATT
* **
9374818 ATGTTTTGATAGCTAACGTTTATT
1 ATGTTTTGATAGCTAACGTTGACA
9374842 ATGTTTTGATAGCTAACG-TGACA
1 ATGTTTTGATAGCTAACGTTGACA
9374865 ATGTTTTGAT
1 ATGTTTTGAT
9374875 CACTGGGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (24 bp):
ATGTTTTGATAGCTAACGTTGACA
Found at i:9380370 original size:12 final size:11
Alignment explanation
Indices: 9380357--9380396 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
9380347 GAACAATGAG
9380357 AAGAAAAGAAA
1 AAGAAAAGAAA
*
9380368 GA-AAAAGAAA
1 AAGAAAAGAAA
9380378 AAGAAAAAGAAA
1 AAG-AAAAGAAA
9380390 AAGAAAA
1 AAGAAAA
9380397 ATGAGAACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.36
11 5 0.20
12 11 0.44
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:9380376 original size:6 final size:6
Alignment explanation
Indices: 9380365--9380397 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9380355 AGAAGAAAAG
9380365 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
9380398 TGAGAACGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:9380861 original size:45 final size:46
Alignment explanation
Indices: 9380796--9380885 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
9380786 CTGCACCACC
9380796 TGCCTCCTAACTTCTCGCCGCCGACGTCACCTACCCTCTGCCATCT
1 TGCCTCCTAACTTCTCGCCGCCGACGTCACCTACCCTCTGCCATCT
* * * *
9380842 TGCCTCTTGACTT-TCGCCGCCGCCGTCACCTATCCTCTGCCATC
1 TGCCTCCTAACTTCTCGCCGCCGACGTCACCTACCCTCTGCCATC
9380886 GCCATTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 29 0.73
46 11 0.28
ACGTcount: A:0.11, C:0.47, G:0.14, T:0.28
Consensus pattern (46 bp):
TGCCTCCTAACTTCTCGCCGCCGACGTCACCTACCCTCTGCCATCT
Found at i:9382046 original size:36 final size:37
Alignment explanation
Indices: 9381976--9382048 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
9381966 TATTTAAGTG
* *
9381976 TTTTATTTTTTATTTATCTACTTTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
9382013 TTTTAGTTTTTATTTATCTAC-CTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
9382049 CATTATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (37 bp):
TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
Found at i:9382669 original size:94 final size:94
Alignment explanation
Indices: 9382508--9382695 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 94
9382498 TAGATTAACT
* *
9382508 CGTTTCTGAAGAGGTAAAATATCGTGCTCTAACGCATTGGGTGTGATGTTTTCTTTTCTTGGAAT
1 CGTTTCTAAAGAGGTAAAATATCGTGCTCTAACGCAATGGGTGTGATGTTTTCTTTTCTTGGAAT
9382573 GAGAGGGTCTTAATAAGTGACTAGTTTTA
66 GAGAGGGTCTTAATAAGTGACTAGTTTTA
9382602 CGTTTCTAAAGAGGTAAAATATCGTGCTCTAACGCAATGGGTGTGATGTTTTCTTTTCTTGGAAT
1 CGTTTCTAAAGAGGTAAAATATCGTGCTCTAACGCAATGGGTGTGATGTTTTCTTTTCTTGGAAT
9382667 GAGAGGGTCTTAATAAGTGACTAGTTTTA
66 GAGAGGGTCTTAATAAGTGACTAGTTTTA
9382696 TATAAGTTTT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.38
Consensus pattern (94 bp):
CGTTTCTAAAGAGGTAAAATATCGTGCTCTAACGCAATGGGTGTGATGTTTTCTTTTCTTGGAAT
GAGAGGGTCTTAATAAGTGACTAGTTTTA
Found at i:9396004 original size:36 final size:37
Alignment explanation
Indices: 9395933--9396005 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
9395923 TATTTAAGTG
*
9395933 TTTTAGTTTTTATTTATCTACTTTTTATTTATGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTATGTATA
*
9395970 TTTTAGTTTTTATTTATCTAC-CTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTATGTATA
9396006 CATTATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (37 bp):
TTTTAGTTTTTATTTATCTACTCTTTATTTATGTATA
Found at i:9403303 original size:12 final size:11
Alignment explanation
Indices: 9403264--9403309 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
9403254 AATTTTAAAC
9403264 TTTAAAACAAT
1 TTTAAAACAAT
*
9403275 TTTATAA-AAT
1 TTTAAAACAAT
*
9403285 ATTAAAACCAAT
1 TTTAAAA-CAAT
9403297 TTTAAAACAAT
1 TTTAAAACAAT
9403308 TT
1 TT
9403310 GAGGGCTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.28
11 12 0.41
12 9 0.31
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTAAAACAAT
Found at i:9408710 original size:125 final size:125
Alignment explanation
Indices: 9408471--9408894 Score: 627
Period size: 125 Copynumber: 3.4 Consensus size: 125
9408461 ACGTGGGCGC
* * *
9408471 GAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
9408536 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
* ** * *
9408596 GAAGAATTTGTTAAATCGCGCCCACGTGGACATGCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * * * * *
9408660 TTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGATATT-TGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCACTTCTACCAGGATGCT-TTATGA
* * * * *
9408721 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACGGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
*
9408786 TTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
*
9408846 GAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
9408895 CATGTTTGGG
Statistics
Matches: 258, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
124 40 0.16
125 179 0.69
126 39 0.15
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
Found at i:9412584 original size:18 final size:18
Alignment explanation
Indices: 9412561--9412600 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9412551 GACTCGGAAA
* *
9412561 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
9412579 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
9412597 AGGA
1 AGGA
9412601 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:9414483 original size:11 final size:12
Alignment explanation
Indices: 9414469--9414521 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 12
9414459 TTAAATATGG
9414469 ATTTGAGA-GAA
1 ATTTGAGAGGAA
9414480 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
9414492 A-TTGAGAGGAA
1 ATTTGAGAGGAA
*
9414503 A-TTGAGAGAAA
1 ATTTGAGAGGAA
9414514 ATTTGAGA
1 ATTTGAGA
9414522 AAGGATTAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 4 0.11
11 18 0.49
12 15 0.41
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:9414505 original size:51 final size:51
Alignment explanation
Indices: 9414410--9414507 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
9414400 AATTATTTAA
* *
9414410 AAATAGGGATTTAAGAGAAATTTAAGAAGAACTTGTGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAAGAAGAAATTGAGAGCAAATTGAAATT
* * * *
9414461 AAATATGGATTTGAGAGAAATTT-TGAAGGAAATTGAGAGGAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAAGAA-GAAATTGAGAGCAAATTGA
9414508 GAGAAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 3 0.08
51 37 0.93
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAAGAAGAAATTGAGAGCAAATTGAAATT
Found at i:9415572 original size:21 final size:22
Alignment explanation
Indices: 9415534--9415577 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
9415524 TCTCTTATAC
*
9415534 TTTGTTCTTATTTGTTGT-TTG
1 TTTGTTCTTATTTCTTGTATTG
9415555 TTTGTTCATTA-TTCTTGTATTG
1 TTTGTTC-TTATTTCTTGTATTG
9415577 T
1 T
9415578 ATTTCTGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.09, C:0.07, G:0.16, T:0.68
Consensus pattern (22 bp):
TTTGTTCTTATTTCTTGTATTG
Found at i:9418039 original size:26 final size:26
Alignment explanation
Indices: 9417996--9418132 Score: 139
Period size: 26 Copynumber: 5.3 Consensus size: 26
9417986 TAAAAAACGA
*
9417996 AAGCCTTTGTGGTGTATTTAAAATGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
* * * *
9418022 AAGCCTTTTTGGCATATTTGAATTGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
* * *
9418048 AAGCCTTTGTAGCGTATCTAAATTGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
** * **
9418074 AAGTGTTTGTGGCGTATTTGAAATTA
1 AAGCCTTTGTGGCGTATTTAAAATGG
*
9418100 AAGCCTTTGTGGCGTATCTAAAATGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
*
9418126 GAGCCTT
1 AAGCCTT
9418133 CGATTTTTTG
Statistics
Matches: 86, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 86 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (26 bp):
AAGCCTTTGTGGCGTATTTAAAATGG
Found at i:9418076 original size:52 final size:52
Alignment explanation
Indices: 9417995--9418132 Score: 170
Period size: 52 Copynumber: 2.7 Consensus size: 52
9417985 CTAAAAAACG
* * *
9417995 AAAGCCTTTGTGGTGTATTTAAAATGGAAGCCTTTTTGGCATATTTG-AATT
1 AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCATATTTGAAATT
* * * ** *
9418046 GGAAGCCTTTGTAGCGTATCTAAATTGGAAGTGTTTGTGGCGTATTTGAAATT
1 -AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCATATTTGAAATT
*
9418099 AAAGCCTTTGTGGCGTATCTAAAATGGGAGCCTT
1 AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTT
9418133 CGATTTTTTG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (52 bp):
AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCATATTTGAAATT
Found at i:9420145 original size:19 final size:19
Alignment explanation
Indices: 9420121--9420173 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
9420111 TATATATACT
9420121 AAATAAATTAATAATAAAA
1 AAATAAATTAATAATAAAA
* *
9420140 AAATAAAATAAT-TTAAAA
1 AAATAAATTAATAATAAAA
9420158 AAATCAAATTAA-AATA
1 AAAT-AAATTAATAATA
9420174 TTAATAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATTAATAATAAAA
Found at i:9420158 original size:18 final size:19
Alignment explanation
Indices: 9420121--9420166 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
9420111 TATATATACT
*
9420121 AAATAAATTAATAATAAAA
1 AAATAAAATAATAATAAAA
*
9420140 AAATAAAATAAT-TTAAAA
1 AAATAAAATAATAATAAAA
*
9420158 AAATCAAAT
1 AAATAAAAT
9420167 TAAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAAATAATAATAAAA
Found at i:9421915 original size:49 final size:49
Alignment explanation
Indices: 9421846--9421946 Score: 130
Period size: 49 Copynumber: 2.1 Consensus size: 49
9421836 CTCGTTTTCT
* * * *
9421846 CGATACCATAGTCCAACTATGGTCTTACATGTAATCACTTATCACATAC
1 CGATACCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
* * * *
9421895 CGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACTTAC
1 CGATACCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
9421944 CGA
1 CGA
9421947 AAGTACTCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (49 bp):
CGATACCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
Found at i:9424638 original size:4 final size:4
Alignment explanation
Indices: 9424626--9424664 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
9424616 TAAAATTAGT
9424626 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
9424665 AAGGATAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:9425068 original size:63 final size:63
Alignment explanation
Indices: 9424969--9425817 Score: 1689
Period size: 63 Copynumber: 13.5 Consensus size: 63
9424959 GGCAAATTAC
*
9424969 AAGAGTAATTGAATCCTAATAAAATTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425032 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425095 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425158 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425221 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425284 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425347 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425410 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425473 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425536 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425599 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425662 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425725 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
9425788 AAGAGTAATTGAATCCTAATAAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTT
9425818 AAAATTATCT
Statistics
Matches: 785, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 785 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (63 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTCAAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:9429056 original size:23 final size:23
Alignment explanation
Indices: 9429030--9429092 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
9429020 TTTGCTTTTT
9429030 GCTTTTTTTTCTTTTTTTTTTGC
1 GCTTTTTTTTCTTTTTTTTTTGC
** **
9429053 GCTTTTTACTCACTTTTTTTTGC
1 GCTTTTTTTTCTTTTTTTTTTGC
* *
9429076 -ATTTTTTTTGTTTTTTT
1 GCTTTTTTTTCTTTTTTT
9429093 AAAGAATAAG
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.05, C:0.13, G:0.08, T:0.75
Consensus pattern (23 bp):
GCTTTTTTTTCTTTTTTTTTTGC
Found at i:9429732 original size:31 final size:31
Alignment explanation
Indices: 9429639--9429734 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
9429629 GGAAAATTAC
*
9429639 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
9429670 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
9429702 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
9429733 AA
1 AA
9429735 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:9432390 original size:43 final size:43
Alignment explanation
Indices: 9432342--9432454 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 43
9432332 GTGATTTCGC
* *
9432342 GTAAGACCACATCTGGGACGTTGGCATCGA-CTTGTGTTTTCAT
1 GTAAGACCACATCTGGGACGTTGGCATCGATC-TGTGATTACAT
*
9432385 GTAAGACC-CTATCTGGGACAG-CGGCATCGATCTGTGATTACAT
1 GTAAGACCAC-ATCTGGGAC-GTTGGCATCGATCTGTGATTACAT
* *
9432428 GTAAGACCACGTCTGGGACATTGGCAT
1 GTAAGACCACATCTGGGACGTTGGCAT
9432455 TGTACGAACC
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.02
43 55 0.93
44 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (43 bp):
GTAAGACCACATCTGGGACGTTGGCATCGATCTGTGATTACAT
Found at i:9433169 original size:10 final size:10
Alignment explanation
Indices: 9433149--9433183 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
9433139 AAAATCCTAA
9433149 GCCCGAGCTCG
1 GCCC-AGCTCG
9433160 GCCCAGCTCG
1 GCCCAGCTCG
9433170 GCCCAGCTCG
1 GCCCAGCTCG
9433180 GCCC
1 GCCC
9433184 TTTTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.09, C:0.51, G:0.31, T:0.09
Consensus pattern (10 bp):
GCCCAGCTCG
Found at i:9433230 original size:26 final size:28
Alignment explanation
Indices: 9433201--9433260 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
9433191 AATAAACACC
*
9433201 AAAAATTTATTTT-AAAAT-AAAAAATA
1 AAAAATGTATTTTAAAAATAAAAAAATA
*
9433227 AAAAAAGTATTTTAAAAATAAAAAAATA
1 AAAAATGTATTTTAAAAATAAAAAAATA
9433255 AAAAAT
1 AAAAAT
9433261 AAAAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 11 0.38
27 5 0.17
28 13 0.45
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAATGTATTTTAAAAATAAAAAAATA
Found at i:9433609 original size:19 final size:20
Alignment explanation
Indices: 9433571--9433610 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
9433561 TTTTGAGTGA
9433571 ATTATGGTTTAGGCATATTTTG
1 ATTATGGTTTA-G-ATATTTTG
9433593 ATTATGGTTTA-ATATTTT
1 ATTATGGTTTAGATATTTT
9433611 ATGGATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
22 11 0.61
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (20 bp):
ATTATGGTTTAGATATTTTG
Found at i:9437439 original size:20 final size:21
Alignment explanation
Indices: 9437400--9437439 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9437390 TTTGCTTTCA
* *
9437400 AATTTTACATTTTTTTTTGTT
1 AATTTTACATCTTATTTTGTT
9437421 AATTTTAC-TCTTATTTTGT
1 AATTTTACATCTTATTTTGT
9437440 AAAAGTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (21 bp):
AATTTTACATCTTATTTTGTT
Found at i:9438351 original size:147 final size:147
Alignment explanation
Indices: 9438131--9438425 Score: 590
Period size: 147 Copynumber: 2.0 Consensus size: 147
9438121 TCCTTATATG
9438131 GAAAATAGACCATAAAAAGGAGTTAGTAGATAAGTATGATGATTCATCCATGGAAAATTAAATAA
1 GAAAATAGACCATAAAAAGGAGTTAGTAGATAAGTATGATGATTCATCCATGGAAAATTAAATAA
9438196 AGAAAAGGACTAAATTGGAAAGATGAAATAATTAAATAAGAAATATCATCATTTTATATCATCTT
66 AGAAAAGGACTAAATTGGAAAGATGAAATAATTAAATAAGAAATATCATCATTTTATATCATCTT
9438261 TCCCAAATTAAAGACAT
131 TCCCAAATTAAAGACAT
9438278 GAAAATAGACCATAAAAAGGAGTTAGTAGATAAGTATGATGATTCATCCATGGAAAATTAAATAA
1 GAAAATAGACCATAAAAAGGAGTTAGTAGATAAGTATGATGATTCATCCATGGAAAATTAAATAA
9438343 AGAAAAGGACTAAATTGGAAAGATGAAATAATTAAATAAGAAATATCATCATTTTATATCATCTT
66 AGAAAAGGACTAAATTGGAAAGATGAAATAATTAAATAAGAAATATCATCATTTTATATCATCTT
9438408 TCCCAAATTAAAGACAT
131 TCCCAAATTAAAGACAT
9438425 G
1 G
9438426 GAAACCCTAG
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 148 1.00
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (147 bp):
GAAAATAGACCATAAAAAGGAGTTAGTAGATAAGTATGATGATTCATCCATGGAAAATTAAATAA
AGAAAAGGACTAAATTGGAAAGATGAAATAATTAAATAAGAAATATCATCATTTTATATCATCTT
TCCCAAATTAAAGACAT
Found at i:9439481 original size:23 final size:23
Alignment explanation
Indices: 9439441--9439488 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
9439431 TTCCTGATTA
* *
9439441 ATGGCTCTCTAGAGCTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
* *
9439464 ATGGCTCGCTTGAACTTCCTGAT
1 ATGGCTCGCTAGAACTTCCCGAT
9439487 AT
1 AT
9439489 ATGGCTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCGAT
Found at i:9439511 original size:73 final size:73
Alignment explanation
Indices: 9439428--9439567 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
9439418 ACTCTTTGTG
* *
9439428 AGCTTCCTGATTAATGGCTC-TCTAGAGCTTCCCGATA-TGGCTCGCTTGAACTTCCTGATATAT
1 AGCTTCCTGATTAATGGCTCTTC-AGAGCTACCCGATATTGGCTCGCATGAACTTCCTGA-ATAT
9439491 GGCTATTCGT
64 GGCTATTCGT
* *
9439501 AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGAATATGG
1 AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGATATTGGCTCGCATGAACTTCCTGAATATGG
9439566 CT
66 CT
9439568 CTTATGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
73 40 0.66
74 21 0.34
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (73 bp):
AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGATATTGGCTCGCATGAACTTCCTGAATATGG
CTATTCGT
Found at i:9439529 original size:25 final size:25
Alignment explanation
Indices: 9439427--9439580 Score: 96
Period size: 25 Copynumber: 6.3 Consensus size: 25
9439417 GACTCTTTGT
9439427 GAGCTTCCTGATTAATGGCTC-TCTA
1 GAGCTTCCTGATTAATGGCTCTTC-A
*
9439452 GAGCTTCCCGA-T-ATGGCTCGCTT--
1 GAGCTTCCTGATTAATGGCT--CTTCA
* *
9439475 GAACTTCCTGA-TATATGGCTATTC-
1 GAGCTTCCTGATTA-ATGGCTCTTCA
9439499 GTAGCTTCCTGATTAATGGCTCTTCA
1 G-AGCTTCCTGATTAATGGCTCTTCA
* * * *
9439525 GAGCTACCCG-TTATTGGCTC-GCA
1 GAGCTTCCTGATTAATGGCTCTTCA
*
9439548 TGAGCTTCCTGAAT-ATGGCTCTT-A
1 -GAGCTTCCTGATTAATGGCTCTTCA
9439572 TGAGCTTCC
1 -GAGCTTCC
9439581 CGTTATACAA
Statistics
Matches: 102, Mismatches: 15, Indels: 25
0.72 0.11 0.18
Matches are distributed among these distances:
23 20 0.20
24 35 0.34
25 43 0.42
26 4 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTTCA
Found at i:9439627 original size:25 final size:25
Alignment explanation
Indices: 9439571--9439637 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
9439561 TATGGCTCTT
*
9439571 ATGAGCTTCCCGTTATACAACCCGA
1 ATGAGCTTCCTGTTATACAACCCGA
* * *
9439596 ATAAGCTTCCTGTTATACAGCTC-A
1 ATGAGCTTCCTGTTATACAACCCGA
*
9439620 CATGAGCTTCCTATTATA
1 -ATGAGCTTCCTGTTATA
9439638 TGGCTCGAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATACAACCCGA
Found at i:9442404 original size:9 final size:9
Alignment explanation
Indices: 9442372--9442423 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
9442362 TTATCGCTAT
9442372 TATTATTAC
1 TATTATTAC
*
9442381 TACTT-TTAT
1 TA-TTATTAC
*
9442390 TATTATTAA
1 TATTATTAC
9442399 TATTATTAC
1 TATTATTAC
* *
9442408 TATTGTTGC
1 TATTATTAC
9442417 TATTATT
1 TATTATT
9442424 GATAATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 2 0.06
9 31 0.89
10 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (9 bp):
TATTATTAC
Found at i:9442404 original size:15 final size:15
Alignment explanation
Indices: 9442369--9442411 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
9442359 GTATTATCGC
* *
9442369 TATTATTATTACTAC
1 TATTATTATTATTAA
*
9442384 TTTTATTATTATTAA
1 TATTATTATTATTAA
*
9442399 TATTATTACTATT
1 TATTATTATTATT
9442412 GTTGCTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:9445422 original size:21 final size:22
Alignment explanation
Indices: 9445396--9445442 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9445386 CTTTATATGC
*
9445396 ATTTTTGAAGAGTGAGGATCAA
1 ATTTTTGAAGAGTAAGGATCAA
9445418 ATTTTTGAAGAGTAAGGATCAA
1 ATTTTTGAAGAGTAAGGATCAA
9445440 ATT
1 ATT
9445443 AACAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.34
Consensus pattern (22 bp):
ATTTTTGAAGAGTAAGGATCAA
Found at i:9466363 original size:44 final size:44
Alignment explanation
Indices: 9466045--9466382 Score: 200
Period size: 44 Copynumber: 7.7 Consensus size: 44
9466035 AGTGAAACCT
* * ** *
9466045 CAAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
** * * * * * **
9466089 GCAGGTCTTATCCCCCTGAATTTACAGTGGGGCAGACTGAAGATGG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTA
* * * * *
9466135 CGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGTCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * *
9466179 -ATAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATGA
1 CA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
*** * * * * * *
9466223 TGGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCA--T-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
** * * ** *
9466264 CAGGTCTTATTTCCCTGAAGTTGCAGTAGAGCAGACCGAA-TAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TA
* *
9466308 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* *
9466352 CAAATCCTATCTCCCTGACGTTGCAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG
9466383 TGGACCGAAG
Statistics
Matches: 218, Mismatches: 68, Indels: 15
0.72 0.23 0.05
Matches are distributed among these distances:
41 31 0.14
44 126 0.58
45 61 0.28
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
Found at i:9467134 original size:23 final size:22
Alignment explanation
Indices: 9467103--9467146 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
9467093 GTTAGATGTC
9467103 TTACCTTCTGTTT-TTTTATTTAT
1 TTACCTTCT-TTTCTTTT-TTTAT
*
9467126 TTACTTTCTTTTCTTTTTTTA
1 TTACCTTCTTTTCTTTTTTTA
9467147 AAAAAGACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.73
Consensus pattern (22 bp):
TTACCTTCTTTTCTTTTTTTAT
Found at i:9469582 original size:19 final size:18
Alignment explanation
Indices: 9469558--9469594 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
9469548 TAGTTGCGTC
9469558 AAACTTAGAAATGTTGAAT
1 AAACTTAGAAATG-TGAAT
9469577 AAACTTAGAAATGTGAAT
1 AAACTTAGAAATGTGAAT
9469595 TCAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (18 bp):
AAACTTAGAAATGTGAAT
Found at i:9471668 original size:14 final size:15
Alignment explanation
Indices: 9471635--9471663 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9471625 TTAAACCGAA
9471635 AAAATAAAAAATTTC
1 AAAATAAAAAATTTC
9471650 AAAATAAAAAATTT
1 AAAATAAAAAATTT
9471664 TAAATTCCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAAAAAATTTC
Found at i:9473958 original size:42 final size:42
Alignment explanation
Indices: 9473899--9473978 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
9473889 GGCGCTTGTA
9473899 CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
1 CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
* ** *
9473941 CAACAAATGCCGCTAAAGCACATGTTCTTTAGCGGCGC
1 CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGC
9473979 TTTCTTCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (42 bp):
CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
Found at i:9474000 original size:43 final size:42
Alignment explanation
Indices: 9473860--9474002 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 42
9473850 TTACAGAAAT
* ** *
9473860 AAACACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGTACAAC
1 AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGCTTCT-CAAC
* * ** * **
9473903 AAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC-CAAC
1 AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGC-TTCTCAAC
*
9473945 AAATGCCGCTAAAGCACATGTTCTTTAGCGGCGCTTTCTTC-AC
1 AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGC-TTC-TCAAC
9473988 AAACGCCGCTAAAGC
1 AAACGCCGCTAAAGC
9474003 TGCTAAAAGA
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 35 0.44
43 43 0.54
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGCTTCTCAAC
Found at i:9474486 original size:21 final size:21
Alignment explanation
Indices: 9474462--9474512 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9474452 TTCTTTTGAA
* *
9474462 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTAGCTGCAG
**
9474483 CCTCTGCTTCCCTAGCTGTTG
1 CCTCTGCTTCCCTAGCTGCAG
9474504 CCTCTGCTT
1 CCTCTGCTT
9474513 TTAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCCCTAGCTGCAG
Found at i:9480163 original size:29 final size:30
Alignment explanation
Indices: 9480110--9480169 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9480100 TCCGAGCCTT
*
9480110 GGGGCAAAAATGTAATTATGTAAAAATTTA
1 GGGGCAAAAATGTAATTATGTAAAAAGTTA
* *
9480140 GGGGCAAAATTGTAATTTTG-AAAAAGTTA
1 GGGGCAAAAATGTAATTATGTAAAAAGTTA
9480169 G
1 G
9480170 AGTCGAGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAAGTTA
Found at i:9480559 original size:43 final size:43
Alignment explanation
Indices: 9480481--9480692 Score: 247
Period size: 43 Copynumber: 5.0 Consensus size: 43
9480471 GTGAATCCGC
* * * *
9480481 ATCATTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCATCGT
1 ATCATTGACTGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * * *
9480524 ATCCTTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CTGC
1 ATCATTGACTGT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
9480566 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGACTGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
9480609 ATCCTTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CCGT
1 ATCATTGACTGT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
9480651 ATCATTGA-T-TATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGACTGTA-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
9480693 GTAACGGTTA
Statistics
Matches: 142, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 25 0.18
42 44 0.31
43 57 0.40
44 10 0.07
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
ATCATTGACTGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Found at i:9480622 original size:85 final size:85
Alignment explanation
Indices: 9480477--9480692 Score: 380
Period size: 85 Copynumber: 2.6 Consensus size: 85
9480467 CTATGTGAAT
* *
9480477 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCATCGTATCCTTGACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
9480542 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
*
9480562 CTGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
9480627 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
* *
9480647 CCGTATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
9480693 GTAACGGTTA
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
84 30 0.24
85 95 0.76
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (85 bp):
CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
GGTTGCTATGTGCTGATTCC
Found at i:9482346 original size:7 final size:7
Alignment explanation
Indices: 9482336--9482445 Score: 94
Period size: 7 Copynumber: 14.0 Consensus size: 7
9482326 TGATATATTT
9482336 TTATGTA
1 TTATGTA
9482343 TTATGTAA
1 TTATGT-A
9482351 GTTATGTA
1 -TTATGTA
9482359 TTATGTAA
1 TTATGT-A
9482367 GTTATGTAA
1 -TTATGT-A
*
9482376 GTTGTGTA
1 -TTATGTA
9482384 TTATGTGA
1 TTATGT-A
9482392 GTTATGTA
1 -TTATGTA
*
9482400 GGTTGTGTA
1 --TTATGTA
9482409 TTATGTAA
1 TTATGT-A
9482417 GTTATGTA
1 -TTATGTA
9482425 TTATGTA
1 TTATGTA
9482432 TTATGTA
1 TTATGTA
9482439 TTATGTA
1 TTATGTA
9482446 AGTATTGTAA
Statistics
Matches: 90, Mismatches: 4, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
7 43 0.48
8 8 0.09
9 39 0.43
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (7 bp):
TTATGTA
Found at i:9482357 original size:9 final size:9
Alignment explanation
Indices: 9482343--9483069 Score: 716
Period size: 9 Copynumber: 84.2 Consensus size: 9
9482333 TTTTTATGTA
9482343 TTATGTAAG
1 TTATGTAAG
9482352 TTATGT-A-
1 TTATGTAAG
9482359 TTATGTAAG
1 TTATGTAAG
9482368 TTATGTAAG
1 TTATGTAAG
*
9482377 TTGTGT-A-
1 TTATGTAAG
*
9482384 TTATGTGAG
1 TTATGTAAG
*
9482393 TTATGTAGG
1 TTATGTAAG
*
9482402 TTGTGT-A-
1 TTATGTAAG
9482409 TTATGTAAG
1 TTATGTAAG
9482418 TTATGT-A-
1 TTATGTAAG
9482425 TTATGT-A-
1 TTATGTAAG
9482432 TTATGT-A-
1 TTATGTAAG
9482439 TTATGTAAG
1 TTATGTAAG
9482448 -TATTGTAAG
1 TTA-TGTAAG
*
9482457 TAATGTAAG
1 TTATGTAAG
*
9482466 TTATATAAG
1 TTATGTAAG
*
9482475 TAATGT-A-
1 TTATGTAAG
9482482 TTATGTAAG
1 TTATGTAAG
*
9482491 TTGTGTATA-
1 TTATGTA-AG
*
9482500 ATAT-TAA-
1 TTATGTAAG
9482507 TTATGTAAG
1 TTATGTAAG
*
9482516 TTGTGT-A-
1 TTATGTAAG
*
9482523 TAATGTAAG
1 TTATGTAAG
*
9482532 TTA-GGAAGG
1 TTATGTAA-G
9482541 TTATGT-A-
1 TTATGTAAG
9482548 TTATGTAAG
1 TTATGTAAG
*
9482557 TTATTTAAG
1 TTATGTAAG
9482566 TTATGTAAG
1 TTATGTAAG
* *
9482575 TTATTTAAT
1 TTATGTAAG
*
9482584 TTATGTAAA
1 TTATGTAAG
9482593 TTATGTAAG
1 TTATGTAAG
*
9482602 TTATGTAGG
1 TTATGTAAG
*
9482611 CTATGT-A-
1 TTATGTAAG
*
9482618 TTATGTAAA
1 TTATGTAAG
*
9482627 TAATGTAAG
1 TTATGTAAG
*
9482636 TTA-GGAAGG
1 TTATGTAA-G
9482645 TTATGT-A-
1 TTATGTAAG
9482652 TTATGTAAG
1 TTATGTAAG
9482661 TTATGTAAG
1 TTATGTAAG
9482670 TTATGTAAG
1 TTATGTAAG
* *
9482679 TTATTTAAT
1 TTATGTAAG
*
9482688 TTATGTAAA
1 TTATGTAAG
9482697 TTATGTAAG
1 TTATGTAAG
*
9482706 TTATGTAGG
1 TTATGTAAG
*
9482715 CTATGT-A-
1 TTATGTAAG
*
9482722 TTATGTAAA
1 TTATGTAAG
*
9482731 TAATGTAAG
1 TTATGTAAG
*
9482740 TTA-GGAAGG
1 TTATGTAA-G
9482749 TTATGT-A-
1 TTATGTAAG
9482756 TTATGTAAG
1 TTATGTAAG
9482765 TTATGTAAG
1 TTATGTAAG
9482774 TTATGTAAG
1 TTATGTAAG
* *
9482783 TTATTTAAT
1 TTATGTAAG
9482792 TTATGTAAG
1 TTATGTAAG
9482801 TTATGTAAG
1 TTATGTAAG
9482810 TTATGTAAG
1 TTATGTAAG
* *
9482819 TTATTTAAT
1 TTATGTAAG
9482828 TTATGTAAG
1 TTATGTAAG
9482837 TTATGTAAG
1 TTATGTAAG
9482846 TTATGTAAG
1 TTATGTAAG
* *
9482855 TTATTTAAT
1 TTATGTAAG
9482864 TTATGTAAG
1 TTATGTAAG
9482873 TTATGTAAG
1 TTATGTAAG
9482882 TTATGTAAG
1 TTATGTAAG
* *
9482891 TTATTTAAT
1 TTATGTAAG
9482900 TTATGTAAG
1 TTATGTAAG
9482909 TTATGTAAG
1 TTATGTAAG
9482918 TTATGTAAG
1 TTATGTAAG
* *
9482927 TTATTTAAT
1 TTATGTAAG
9482936 TTATGTAAG
1 TTATGTAAG
9482945 TTATGTAAG
1 TTATGTAAG
9482954 TTATGTAAG
1 TTATGTAAG
* *
9482963 TTATTTAAT
1 TTATGTAAG
9482972 TTATGTAAG
1 TTATGTAAG
9482981 TTATGTAAG
1 TTATGTAAG
9482990 TTATGTAAG
1 TTATGTAAG
* *
9482999 TTATTTAAT
1 TTATGTAAG
*
9483008 TTATGTAAA
1 TTATGTAAG
9483017 TTATGTAAG
1 TTATGTAAG
*
9483026 TTATGTAGG
1 TTATGTAAG
*
9483035 CTATGT-A-
1 TTATGTAAG
*
9483042 TTATGTTA-
1 TTATGTAAG
*
9483050 TTATATAAG
1 TTATGTAAG
*
9483059 TTATGCAAG
1 TTATGTAAG
9483068 TT
1 TT
9483070 TATAGATAAG
Statistics
Matches: 593, Mismatches: 90, Indels: 70
0.79 0.12 0.09
Matches are distributed among these distances:
7 82 0.14
8 39 0.07
9 467 0.79
10 5 0.01
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9483257 original size:9 final size:9
Alignment explanation
Indices: 9483243--9483311 Score: 79
Period size: 9 Copynumber: 7.9 Consensus size: 9
9483233 TAAATATTTA
9483243 TAAGTTATG
1 TAAGTTATG
*
9483252 TAAGTTATT
1 TAAGTTATG
*
9483261 TAATTTATG
1 TAAGTTATG
9483270 TAAGTTATG
1 TAAGTTATG
9483279 TAAGTTATG
1 TAAGTTATG
* *
9483288 TAGGTAATG
1 TAAGTTATG
9483297 T-A-TTATG
1 TAAGTTATG
*
9483304 TTAGTTAT
1 TAAGTTAT
9483312 TATGTTATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
7 5 0.10
8 1 0.02
9 44 0.88
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (9 bp):
TAAGTTATG
Found at i:9483489 original size:17 final size:18
Alignment explanation
Indices: 9483457--9483490 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9483447 TGATTGATAA
9483457 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
9483475 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
9483491 TATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:9483505 original size:15 final size:15
Alignment explanation
Indices: 9483465--9483507 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
9483455 AAATTTTGAA
* *
9483465 AAAAATATAGATTTT
1 AAAAATATATATATT
9483480 AAAAATATATATATT
1 AAAAATATATATATT
*
9483495 AAAAATGTATATA
1 AAAAATATATATA
9483508 AATATGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAAAATATATATATT
Found at i:9483592 original size:24 final size:23
Alignment explanation
Indices: 9483562--9483652 Score: 116
Period size: 23 Copynumber: 4.0 Consensus size: 23
9483552 TATATAAGTT
9483562 TATATTAAATTTTAAAAGTATATA
1 TATATTAAATTTTAAAA-TATATA
* *
9483586 TAAATTAAAATTTAAAATATATA
1 TATATTAAATTTTAAAATATATA
* *
9483609 CATATTAAATTTT-AAAGATATA
1 TATATTAAATTTTAAAATATATA
9483631 TATA-T-AATTTTAAAATATATA
1 TATATTAAATTTTAAAATATATA
9483652 T
1 T
9483653 TAATAAGTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.10
21 10 0.17
22 11 0.19
23 16 0.28
24 15 0.26
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (23 bp):
TATATTAAATTTTAAAATATATA
Found at i:9483607 original size:21 final size:21
Alignment explanation
Indices: 9483565--9483651 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 21
9483555 ATAAGTTTAT
9483565 ATTAAATTTTAAAAGTATATATAA
1 ATTAAATTTT-AAA--ATATATAA
*
9483589 ATTAAAATTTAAAATATATACA
1 ATTAAATTTTAAAATATATA-A
*
9483611 TATTAAATTTTAAAGATATATAT
1 -ATTAAATTTTAAA-ATATATAA
9483634 A-T-AATTTTAAAATATATA
1 ATTAAATTTTAAAATATATA
9483652 TTAATAAGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
19 7 0.12
20 9 0.16
21 8 0.14
22 2 0.04
23 15 0.26
24 16 0.28
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAAATTTTAAAATATATAA
Found at i:9483644 original size:43 final size:47
Alignment explanation
Indices: 9483563--9483651 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 47
9483553 ATATAAGTTT
9483563 ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATAC
1 ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATAC
* *
9483610 ATATTAAATTTT-AAAG-ATATATATA-T-AATTTTAAAATATATA
1 ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATA
9483652 TTAATAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 15 0.38
44 1 0.03
45 8 0.20
46 4 0.10
47 12 0.30
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (47 bp):
ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATAC
Found at i:9485244 original size:13 final size:13
Alignment explanation
Indices: 9485226--9485250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9485216 CTGAAACGAG
9485226 TTAGGGATTTCAC
1 TTAGGGATTTCAC
9485239 TTAGGGATTTCA
1 TTAGGGATTTCA
9485251 GATCAGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (13 bp):
TTAGGGATTTCAC
Found at i:9502143 original size:15 final size:15
Alignment explanation
Indices: 9502123--9502163 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
9502113 CGGCACCGTC
9502123 CGAAACCGCTACTGT
1 CGAAACCGCTACTGT
9502138 CGAAACCGCTACTGT
1 CGAAACCGCTACTGT
9502153 CGAAACCGCTA
1 CGAAACCGCTA
9502164 TTATATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (15 bp):
CGAAACCGCTACTGT
Found at i:9505052 original size:43 final size:43
Alignment explanation
Indices: 9504994--9505177 Score: 133
Period size: 42 Copynumber: 4.2 Consensus size: 43
9504984 AACTTTTGCA
* ** *
9504994 GCGCTTACAGAAAAAAATGCCGCTAAAGGTCATGTTCTTTAGCG
1 GCGCTTA-GGAAAAAAACACCGCTAAAAGTCATGTTCTTTAGCG
* *
9505038 GCGCTTAGGAAAAAAACACTGCT-AATGATCATGTTCTTTA-CTGG
1 GCGCTTAGGAAAAAAACACCGCTAAAAG-TCATGTTCTTTAGC--G
* * *
9505082 CGCTTTGCTTAGGAAGAAAACACCGCTAAAAGTAATGTTCTATAGCG
1 -GC---GCTTAGGAAAAAAACACCGCTAAAAGTCATGTTCTTTAGCG
* ** **
9505129 GCACTT-GGTCAAAAATGCCGCTAAAAGT-AGTGTTCTTTAGCG
1 GCGCTTAGGAAAAAAACACCGCTAAAAGTCA-TGTTCTTTAGCG
9505171 GCGCTTA
1 GCGCTTA
9505178 TTTCACAAAC
Statistics
Matches: 111, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 37 0.33
43 27 0.24
44 8 0.07
45 2 0.02
46 2 0.02
47 1 0.01
48 29 0.26
49 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
GCGCTTAGGAAAAAAACACCGCTAAAAGTCATGTTCTTTAGCG
Found at i:9510991 original size:25 final size:25
Alignment explanation
Indices: 9510960--9511198 Score: 119
Period size: 25 Copynumber: 8.9 Consensus size: 25
9510950 ATTTTTCTCA
9510960 ATGTAAGTTATGTATTAAGTAAATT
1 ATGTAAGTTATGTATTAAGTAAATT
*
9510985 ATGTAAGTTATGTA-TATAGTATAAAAGAT
1 ATGTAAGTTATGTATTA-AG--T-AAA-TT
* *
9511014 ATGTAAGTTATGTATTATGTAAGTT
1 ATGTAAGTTATGTATTAAGTAAATT
**
9511039 ATGTAAGTTATGTAGGTTATTA-TAAGCT
1 ATGTAAGTTATGTA--TTA--AGTAAATT
9511067 ATGTAAGTTATTATGTAAGTTAAGATATAATAT
1 ATGTAAG---TTATGT-A-TTAAG-TA-AAT-T
* *
9511100 ATGT-TGATTATGCATTAAGTAAATT
1 ATGTAAG-TTATGTATTAAGTAAATT
* * * *
9511125 ATGTAAGTTATGGAGTATGTAAGTT
1 ATGTAAGTTATGTATTAAGTAAATT
* **
9511150 ATATAAGTTATGTAAGTTATA-TAAGCT
1 ATGTAAGTTATGT-A-TTA-AGTAAATT
9511177 ATGTAAGTTAT-TATGTAAGTAA
1 ATGTAAGTTATGTAT-TAAGTAA
9511199 TGTATTAAAT
Statistics
Matches: 169, Mismatches: 21, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
24 4 0.02
25 67 0.40
26 8 0.05
27 24 0.14
28 20 0.12
29 18 0.11
30 8 0.05
31 12 0.07
32 3 0.02
33 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.42
Consensus pattern (25 bp):
ATGTAAGTTATGTATTAAGTAAATT
Found at i:9510995 original size:9 final size:9
Alignment explanation
Indices: 9510960--9511323 Score: 177
Period size: 9 Copynumber: 40.6 Consensus size: 9
9510950 ATTTTTCTCA
9510960 ATGTAAGTT
1 ATGTAAGTT
9510969 ATGT-A-TT
1 ATGTAAGTT
* *
9510976 AAGTAAATT
1 ATGTAAGTT
9510985 ATGTAAGTT
1 ATGTAAGTT
9510994 ATGTATA-TAGT
1 ATGTA-AGT--T
** *
9511005 ATAAAAGAT
1 ATGTAAGTT
9511014 ATGTAAGTT
1 ATGTAAGTT
9511023 ATGT-A-TT
1 ATGTAAGTT
9511030 ATGTAAGTT
1 ATGTAAGTT
9511039 ATGTAAGTT
1 ATGTAAGTT
*
9511048 ATGTAGGTT
1 ATGTAAGTT
* *
9511057 ATTATAAGCT
1 A-TGTAAGTT
9511067 ATGTAAGTTATT
1 ATGTAAG---TT
9511079 ATGTAAGTT
1 ATGTAAGTT
* *
9511088 AAGATATAATAT
1 ATG-TA-AGT-T
*
9511100 ATGT-TGATT
1 ATGTAAG-TT
*
9511109 ATG-CA-TT
1 ATGTAAGTT
* *
9511116 AAGTAAATT
1 ATGTAAGTT
9511125 ATGTAAGTT
1 ATGTAAGTT
*
9511134 ATG-GAG-T
1 ATGTAAGTT
9511141 ATGTAAGTT
1 ATGTAAGTT
*
9511150 ATATAAGTT
1 ATGTAAGTT
9511159 ATGTAAGTT
1 ATGTAAGTT
* *
9511168 ATATAAGCT
1 ATGTAAGTT
9511177 ATGTAAGTTATT
1 ATGTAAG---TT
*
9511189 ATGTAAGTA
1 ATGTAAGTT
9511198 ATGT-A-TT
1 ATGTAAGTT
**
9511205 AAATAAGTT
1 ATGTAAGTT
*
9511214 ATGT-ATTT
1 ATGTAAGTT
*
9511222 ATTTAAGTT
1 ATGTAAGTT
9511231 ATGT-A-TT
1 ATGTAAGTT
9511238 ATGTAAGTT
1 ATGTAAGTT
* *
9511247 ATATAAGCT
1 ATGTAAGTT
*
9511256 ATGTACCATTT
1 ATGTA--AGTT
9511267 AT-TAAGTT
1 ATGTAAGTT
*
9511275 ATGTATG-T
1 ATGTAAGTT
* *
9511283 ATGTGACTT
1 ATGTAAGTT
*
9511292 TTGTAAGTT
1 ATGTAAGTT
*
9511301 ATGTGAGTT
1 ATGTAAGTT
*
9511310 ATGTAAATT
1 ATGTAAGTT
9511319 ATGTA
1 ATGTA
9511324 TTAAATTAAA
Statistics
Matches: 262, Mismatches: 60, Indels: 66
0.68 0.15 0.17
Matches are distributed among these distances:
7 28 0.11
8 29 0.11
9 162 0.62
10 13 0.05
11 11 0.04
12 19 0.07
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:9511069 original size:19 final size:19
Alignment explanation
Indices: 9511029--9511080 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
9511019 AGTTATGTAT
* *
9511029 TATGTAAGTTA-TGTAAGT
1 TATGTAAGTTATTATAAGC
*
9511047 TATGTAGGTTATTATAAGC
1 TATGTAAGTTATTATAAGC
9511066 TATGTAAGTTATTAT
1 TATGTAAGTTATTAT
9511081 GTAAGTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (19 bp):
TATGTAAGTTATTATAAGC
Found at i:9511230 original size:17 final size:16
Alignment explanation
Indices: 9511013--9511248 Score: 109
Period size: 16 Copynumber: 14.8 Consensus size: 16
9511003 GTATAAAAGA
9511013 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
9511029 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
9511047 TATGTAGGTTAT-TA-
1 TATGTAAGTTATGTAT
* * *
9511061 TAAGCTATG-TAAGTTAT
1 TATG-TAAGTTATG-TAT
*
9511078 TATGTAAGTTAAGATAT
1 TATGTAAGTTATG-TAT
* * *
9511095 AATATATGTTGAT-TAT
1 TATGTAAGTT-ATGTAT
* *
9511111 GCAT-TAAG-TA--AAT
1 -TATGTAAGTTATGTAT
* *
9511124 TATGTAAGTTATGGAG
1 TATGTAAGTTATGTAT
*
9511140 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
9511158 TATGTAAGTTATATAAGC
1 TATGTAAGTTATGT-A-T
9511176 TATGTAAG---T-TAT
1 TATGTAAGTTATGTAT
*
9511188 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
**
9511204 TAAATAAGTTATGTATT
1 TATGTAAGTTATGTA-T
*
9511221 TATTTAAGTTATGTAT
1 TATGTAAGTTATGTAT
9511237 TATGTAAGTTAT
1 TATGTAAGTTAT
9511249 ATAAGCTATG
Statistics
Matches: 172, Mismatches: 28, Indels: 40
0.72 0.12 0.17
Matches are distributed among these distances:
12 10 0.06
13 7 0.04
14 9 0.05
15 6 0.03
16 66 0.38
17 36 0.21
18 38 0.22
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:9511253 original size:25 final size:25
Alignment explanation
Indices: 9511107--9511232 Score: 74
Period size: 25 Copynumber: 4.8 Consensus size: 25
9511097 TATATGTTGA
* * * *
9511107 TTATGCATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATATAAG
* *
9511132 TTATGGAGTATGTAAGTTATATAAG
1 TTATGTATTATGTAAGTTATATAAG
* * *
9511157 TTATGTAAGTTATATAAGCTATGTAAG
1 TTATGT-A-TTATGTAAGTTATATAAG
* *
9511184 TTAT-TATGTAAGTAATGTATTAAATAAG
1 TTATGTAT-TATGTAA-G--TTATATAAG
*
9511212 TTATGTATTTATTTAAGTTAT
1 TTATGTA-TTATGTAAGTTAT
9511233 GTATTATGTA
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
24 1 0.01
25 31 0.41
26 6 0.08
27 18 0.24
28 11 0.15
29 7 0.09
30 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATATAAG
Found at i:9513610 original size:314 final size:314
Alignment explanation
Indices: 9513035--9513654 Score: 1177
Period size: 314 Copynumber: 2.0 Consensus size: 314
9513025 CGGGTTTGGG
* * *
9513035 GAAATGTGGATTAGGGGAAATTTCTCAATATTTTAGGGAGAAATAGATTTTGGGGATAAGTCACA
1 GAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATAGATTTTGGGGAAAAGTCACA
**
9513100 ATAGTTGGGGTTTAAGTTTCGGTTAAATGTATGGGGCAGAGGAGACCGACGGAGGGAGACGGTGA
66 ATAGTTGGGGTTTAAGTTTCAATTAAATGTATGGGGCAGAGGAGACCGACGGAGGGAGACGGTGA
9513165 TGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTCGGCTTTGGGGAAATCTGGATTAGGGGAAATT
131 TGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTCGGCTTTGGGGAAATCTGGATTAGGGGAAATT
*
9513230 TAGGGATTTGGGGGAGAATGAGATTTTGGGGGATAAGTCACGATAGGGGTTTAAGTTTCGGTAAA
196 TAGGGATTTGGGGGAGAATGAGATTTTAGGGGATAAGTCACGATAGGGGTTTAAGTTTCGGTAAA
9513295 ATGTATGGGAAAAAAACGATGACGTTTTTCTATGAAATTGAAATCAGGTTCAGA
261 ATGTATGGGAAAAAAACGATGACGTTTTTCTATGAAATTGAAATCAGGTTCAGA
*
9513349 GAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATGGATTTTGGGGAAAAGTCACA
1 GAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATAGATTTTGGGGAAAAGTCACA
9513414 ATAGTTGGGGTTTAAGTTTCAATTAAATGTATGGGGCAGAGGAGACCGACGGAGGGAGACGGTGA
66 ATAGTTGGGGTTTAAGTTTCAATTAAATGTATGGGGCAGAGGAGACCGACGGAGGGAGACGGTGA
9513479 TGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTCGGCTTTGGGGAAATCTGGATTAGGGGAAATT
131 TGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTCGGCTTTGGGGAAATCTGGATTAGGGGAAATT
9513544 TAGGGATTTGGGGGAGAATGAGATTTTAGGGGATAAGTCACGATAGGGGTTTAAGTTTCGGTAAA
196 TAGGGATTTGGGGGAGAATGAGATTTTAGGGGATAAGTCACGATAGGGGTTTAAGTTTCGGTAAA
9513609 ATGTATGGGAAAAAAACGATGACGTTTTTCTATGAAATTGAAATCA
261 ATGTATGGGAAAAAAACGATGACGTTTTTCTATGAAATTGAAATCA
9513655 TTTGCGGCGC
Statistics
Matches: 299, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
314 299 1.00
ACGTcount: A:0.32, C:0.09, G:0.33, T:0.26
Consensus pattern (314 bp):
GAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATAGATTTTGGGGAAAAGTCACA
ATAGTTGGGGTTTAAGTTTCAATTAAATGTATGGGGCAGAGGAGACCGACGGAGGGAGACGGTGA
TGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTCGGCTTTGGGGAAATCTGGATTAGGGGAAATT
TAGGGATTTGGGGGAGAATGAGATTTTAGGGGATAAGTCACGATAGGGGTTTAAGTTTCGGTAAA
ATGTATGGGAAAAAAACGATGACGTTTTTCTATGAAATTGAAATCAGGTTCAGA
Found at i:9514213 original size:261 final size:261
Alignment explanation
Indices: 9513749--9514279 Score: 918
Period size: 261 Copynumber: 2.0 Consensus size: 261
9513739 AGAGTAAAAA
* * *
9513749 CGCCACTAATAACACGGACAAAACGGCATCGTTATAAGATAACATTAAACATTTTTGTGGCGCTT
1 CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
* * * * * *
9513814 TAGCTAAAGGGCCACTAATAAAAATAGGAAATGGTGTCGTTTCCTCAGCTCGTAATAAATATTTG
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTCCTCAGCTCGTAATAAATATTTC
9513879 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
131 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
*
9513944 GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCGTTTTTCAAAT
196 GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCATTTTTCAAAT
9514009 G
261 G
9514010 CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
1 CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
*
9514075 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTTCTCAGCTCGTAATAAATATTTC
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTCCTCAGCTCGTAATAAATATTTC
*
9514140 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAA
131 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
* * * *
9514205 GGAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGCATTTTTTAAAT
196 GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCATTTTTCAAAT
9514270 G
261 G
9514271 CGCCACTAA
1 CGCCACTAA
9514280 AAGAAAACAA
Statistics
Matches: 254, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
261 254 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (261 bp):
CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTCCTCAGCTCGTAATAAATATTTC
TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCATTTTTCAAAT
G
Found at i:9514347 original size:115 final size:115
Alignment explanation
Indices: 9514145--9514380 Score: 400
Period size: 115 Copynumber: 2.1 Consensus size: 115
9514135 ATTTCTGGCG
* *
9514145 TTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAAA
1 TTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGAAA
** *
9514210 TTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGCA
66 TTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGGCA
* *
9514260 TTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCATCGTCTTTGTCACAGTTAAAGGAAT
1 TTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGAAA
*
9514325 TTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGGCG
66 TTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGGCA
9514375 TTTTTT
1 TTTTTT
9514381 CTGAAGCGCC
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (115 bp):
TTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGAAA
TTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGGCA
Found at i:9515075 original size:20 final size:21
Alignment explanation
Indices: 9515037--9515086 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
9515027 TCTTCAATTT
9515037 CCAAACT-AAACCCTAAAACC
1 CCAAACTCAAACCCTAAAACC
* *
9515057 CTAAACTCAAA-CCTTAAACC
1 CCAAACTCAAACCCTAAAACC
9515077 CCAAACTCAA
1 CCAAACTCAA
9515087 TCTCTAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (21 bp):
CCAAACTCAAACCCTAAAACC
Found at i:9516015 original size:72 final size:72
Alignment explanation
Indices: 9515897--9516046 Score: 167
Period size: 72 Copynumber: 2.1 Consensus size: 72
9515887 AAAGCTGAGA
* * * *
9515897 AAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCGCTTCCCCAAAAACGCCACTAAAT-CCCAAA
1 AAACGGCACCGTTTGGCTTAGGATTATTAGCGGCGCTTCACCAAAAACGCCACTAAATCCCCAAA
9515961 AACTACGG
66 AACT-CGG
* * * ** ***
9515969 AAACGGCACCGTTTGGCTTCGGATTATTAGTGGCGCTTGATTAAAAACGTTGCTAAATCCCCAAA
1 AAACGGCACCGTTTGGCTTAGGATTATTAGCGGCGCTTCACCAAAAACGCCACTAAATCCCCAAA
*
9516034 AGCTCGG
66 AACTCGG
9516041 AAACGG
1 AAACGG
9516047 TGTCGTTGGG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 55 0.86
73 9 0.14
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (72 bp):
AAACGGCACCGTTTGGCTTAGGATTATTAGCGGCGCTTCACCAAAAACGCCACTAAATCCCCAAA
AACTCGG
Found at i:9519251 original size:25 final size:25
Alignment explanation
Indices: 9519214--9519273 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
9519204 TCTATGGCGC
*
9519214 CCCAAACCCGGTCGGGGCGGTCCGA
1 CCCAAACCCGGTCGGGGCAGTCCGA
* * *
9519239 CCCAAACCTGGTCGTGGTAGTCCGA
1 CCCAAACCCGGTCGGGGCAGTCCGA
9519264 CCCAAACCCG
1 CCCAAACCCG
9519274 AAATGACATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.40, G:0.28, T:0.12
Consensus pattern (25 bp):
CCCAAACCCGGTCGGGGCAGTCCGA
Done.