Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 299 of 320
Found at i:95109046 original size:30 final size:29
Alignment explanation
Indices: 95109012--95109109 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 29
95109002 AATAACTTTT
*
95109012 AAATATTATAAAAACTTATAAAAATTCTAA
1 AAATATTATAAAAACTTAT-AAAATTATAA
* *
95109042 AAATA-TATTAAAAATTTATAAACTTATAA
1 AAATATTA-TAAAAACTTATAAAATTATAA
*
95109071 AAA-ATTCATAAAAA--T-TAAAATTATTAT
1 AAATATT-ATAAAAACTTATAAAATTA-TAA
95109098 AAAT-TTATAAAA
1 AAATATTATAAAA
95109110 TATATGAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
26 13 0.22
27 8 0.14
28 1 0.02
29 20 0.34
30 16 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATATTATAAAAACTTATAAAATTATAA
Found at i:95109061 original size:40 final size:39
Alignment explanation
Indices: 95108961--95109086 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 39
95108951 TTAAAATGTT
* *
95108961 AAAATTTTATATAAATTTATAAAAAGTTATAAAATAATCATA
1 AAAATTTTA-A-AAATTTATAAAAACTTATAAAA-ATTCATA
* *
95109003 ATAACTTTTAAATA-TTATAAAAACTTATAAAAATTC-TA
1 A-AAATTTTAAAAATTTATAAAAACTTATAAAAATTCATA
95109041 AAAATATATTAAAAATTTAT--AAACTTATAAAAAATTCATA
1 AAAAT-T-TTAAAAATTTATAAAAACTTAT-AAAAATTCATA
95109081 AAAATT
1 AAAATT
95109087 AAAATTATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
37 3 0.04
38 12 0.17
39 18 0.25
40 28 0.39
41 2 0.03
42 2 0.03
43 7 0.10
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (39 bp):
AAAATTTTAAAAATTTATAAAAACTTATAAAAATTCATA
Found at i:95109073 original size:19 final size:18
Alignment explanation
Indices: 95109023--95109126 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 18
95109013 AATATTATAA
95109023 AAACTTATAAAAATTCTA-
1 AAACTTATAAAAATT-TAT
*
95109041 AAAATATATTAAAAATTTAT
1 AAACT-TA-TAAAAATTTAT
*
95109061 AAACTTATAAAAAATTCAT
1 AAACTTAT-AAAAATTTAT
** *
95109080 AAAAAT-TAAAATTATTAT
1 AAACTTATAAAAAT-TTAT
* *
95109098 AAATTTAT-AAAATATAT
1 AAACTTATAAAAATTTAT
*
95109115 GAA-TTATAAAAA
1 AAACTTATAAAAA
95109127 GGTTATTTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.06
17 14 0.21
18 17 0.25
19 20 0.30
20 12 0.18
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.36
Consensus pattern (18 bp):
AAACTTATAAAAATTTAT
Found at i:95121965 original size:25 final size:25
Alignment explanation
Indices: 95121920--95121968 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
95121910 CTTTATACAT
*
95121920 TTAGAATTAAACTCTTATATTTTTA
1 TTAGAATTAAACTCTCATATTTTTA
*
95121945 TTAGAATTTAA-TCTCACTATTTTT
1 TTAGAATTAAACTCTCA-TATTTTT
95121969 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAGAATTAAACTCTCATATTTTTA
Found at i:95123141 original size:20 final size:18
Alignment explanation
Indices: 95123117--95123164 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
95123107 TGATTTTTTT
95123117 TAATTTTTATAAGTTTATA
1 TAATTTTTATAAGTTTA-A
* *
95123136 TCAATTTTAATAATTTTAA
1 T-AATTTTTATAAGTTTAA
95123155 TAATTTTTAT
1 TAATTTTTAT
95123165 GATTTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 8 0.32
19 3 0.12
20 14 0.56
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TAATTTTTATAAGTTTAA
Found at i:95123159 original size:38 final size:38
Alignment explanation
Indices: 95123117--95123190 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
95123107 TGATTTTTTT
95123117 TAATTTTTATAAGTTTATATCAATTTTAATA-ATTTTAA
1 TAATTTTTATAAGTTTATA-CAATTTTAATATATTTTAA
* * *
95123155 TAATTTTTATGATTTTATAGAATTTTAATATATTTT
1 TAATTTTTATAAGTTTATACAATTTTAATATATTTT
95123191 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 10 0.31
38 22 0.69
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (38 bp):
TAATTTTTATAAGTTTATACAATTTTAATATATTTTAA
Found at i:95123189 original size:10 final size:9
Alignment explanation
Indices: 95123117--95123190 Score: 67
Period size: 9 Copynumber: 7.8 Consensus size: 9
95123107 TGATTTTTTT
*
95123117 TAATTTTTA
1 TAATTTTAA
*
95123126 TAAGTTTATA
1 TAATTTTA-A
95123136 TCAATTTTAA
1 T-AATTTTAA
95123146 TAATTTTAA
1 TAATTTTAA
*
95123155 TAATTTTTA
1 TAATTTTAA
*
95123164 TGATTTTATA
1 TAATTTTA-A
*
95123174 GAATTTTAA
1 TAATTTTAA
95123183 TATATTTT
1 TA-ATTTT
95123191 TTAAAATTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
9 30 0.58
10 16 0.31
11 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (9 bp):
TAATTTTAA
Found at i:95123198 original size:20 final size:20
Alignment explanation
Indices: 95123138--95123219 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
95123128 AGTTTATATC
95123138 AATTTTAATA-A--TTTTAA
1 AATTTTAATATATTTTTTAA
* *
95123155 TAATTTT--TATGATTTTATAG
1 -AATTTTAATAT-ATTTTTTAA
95123175 AATTTTAATATATTTTTTAA
1 AATTTTAATATATTTTTTAA
* *
95123195 AATTTAAATATATTTTTTAT
1 AATTTTAATATATTTTTTAA
95123215 AATTT
1 AATTT
95123220 ATTTGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.04
18 7 0.13
19 6 0.12
20 34 0.65
21 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
AATTTTAATATATTTTTTAA
Found at i:95123304 original size:27 final size:27
Alignment explanation
Indices: 95123274--95123334 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
95123264 TGTATATCAA
95123274 TTTTTATTTTT-AT-ATTTTATTAATAT
1 TTTTTATTTTTGATAATTTT-TTAATAT
*
95123300 TTTTTATTTTTGATAATTTTTTAATCT
1 TTTTTATTTTTGATAATTTTTTAATAT
95123327 TTTTTATT
1 TTTTTATT
95123335 GGAAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 11 0.34
27 16 0.50
28 5 0.16
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTTTATTTTTGATAATTTTTTAATAT
Found at i:95123316 original size:19 final size:19
Alignment explanation
Indices: 95123280--95123321 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
95123270 TCAATTTTTA
95123280 TTTTTATATTTTATTAATAT
1 TTTTTATATTTTATTAAT-T
95123300 TTTTTAT-TTTTGA-TAATT
1 TTTTTATATTTT-ATTAATT
95123318 TTTT
1 TTTT
95123322 AATCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATATTTTATTAATT
Found at i:95128981 original size:16 final size:17
Alignment explanation
Indices: 95128957--95128989 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
95128947 AAGCTATTTA
95128957 CTTTAATAT-TATTTTT
1 CTTTAATATATATTTTT
*
95128973 CTTTTATATATATTTTT
1 CTTTAATATATATTTTT
95128990 TACTCATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTTAATATATATTTTT
Found at i:95136800 original size:2 final size:2
Alignment explanation
Indices: 95136795--95136834 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
95136785 GTGAGGGGGG
* *
95136795 GA GA GA GA GA GA GA GA GA GA GC GA GA GA GA GA GA GC GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
95136835 AAGAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.05, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:95144051 original size:69 final size:70
Alignment explanation
Indices: 95143914--95144051 Score: 194
Period size: 69 Copynumber: 2.0 Consensus size: 70
95143904 AAAAAAAAAA
* *
95143914 AAAAAGTTTCACAAAATCCCAACACATCATAAGTACGTTGGATCGAAAGGCAGCATAATTGCATC
1 AAAAAGTTTCACAAAATCCCAACACATCATAAGTACGTTGGATCGAAAGGCAGCATAAATGCACC
95143979 AATGT
66 AATGT
*
95143984 AAAAA-TTTCACAAAATCCCAACACA-C-TATAGATACGTTGGATTGAAAGGCAG-ACTAAATGC
1 AAAAAGTTTCACAAAATCCCAACACATCATA-AG-TACGTTGGATCGAAAGGCAGCA-TAAATGC
95144045 ACCAATG
63 ACCAATG
95144052 ACAAACTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
67 2 0.03
68 4 0.06
69 51 0.82
70 5 0.08
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (70 bp):
AAAAAGTTTCACAAAATCCCAACACATCATAAGTACGTTGGATCGAAAGGCAGCATAAATGCACC
AATGT
Found at i:95164562 original size:38 final size:38
Alignment explanation
Indices: 95164520--95164600 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
95164510 AGTTTAAATT
* *
95164520 TAAAAA-AAATATTTGCTTTAAAATAAAAATAAAACAAA
1 TAAAAAGAAAT-TTTACTTCAAAATAAAAATAAAACAAA
* *
95164558 TAAAAATGTAATTTTACTTCAAAATAAAAATAAAACAAT
1 TAAAAA-GAAATTTTACTTCAAAATAAAAATAAAACAAA
95164597 TAAA
1 TAAA
95164601 TTAAATTCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 6 0.16
39 28 0.76
40 3 0.08
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.28
Consensus pattern (38 bp):
TAAAAAGAAATTTTACTTCAAAATAAAAATAAAACAAA
Found at i:95173545 original size:29 final size:29
Alignment explanation
Indices: 95173498--95173555 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
95173488 TGATTGATAG
* *
95173498 TTCAGCTCATCAAAGGGAGACTGAAACCT
1 TTCAGCTCATCAAAAGGAGACTAAAACCT
*
95173527 TTCAGCTCATTAAAAGGAGACTAAAACCT
1 TTCAGCTCATCAAAAGGAGACTAAAACCT
95173556 CAAGACTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (29 bp):
TTCAGCTCATCAAAAGGAGACTAAAACCT
Found at i:95178268 original size:46 final size:46
Alignment explanation
Indices: 95178226--95178400 Score: 269
Period size: 46 Copynumber: 3.8 Consensus size: 46
95178216 ATGGTCTCAC
*
95178226 TCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
* * *
95178272 TCACTTCCTGTCATGTTGCCATGGTATCTTTTAACCATGGTCTTAT
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
* *
95178318 TCATTTCCTATCATGTTGCCATGGTATCTTTCAACCACGGTCTTAT
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
* **
95178364 TCGTTTCCTGTCATGTTATCATGGTATCTTTCAACCA
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCA
95178401 TGTCTTACAC
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (46 bp):
TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
Found at i:95178353 original size:92 final size:92
Alignment explanation
Indices: 95178216--95178414 Score: 292
Period size: 92 Copynumber: 2.2 Consensus size: 92
95178206 TTTTTCAATT
* * *
95178216 ATGGTCTCACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
1 ATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
* *
95178281 GTCATGTTGCCATGGTATCTTTTAACC
66 GTCATGTTACCATGGTATCTTTCAACC
* * **
95178308 ATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCGTTTCCT
1 ATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
*
95178373 GTCATGTTATCATGGTATCTTTCAACC
66 GTCATGTTACCATGGTATCTTTCAACC
*
95178400 AT-GTCTTACACATTT
1 ATGGTCTTACTCATTT
95178415 GAATCGCGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 11 0.12
92 84 0.88
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (92 bp):
ATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
GTCATGTTACCATGGTATCTTTCAACC
Found at i:95178451 original size:45 final size:45
Alignment explanation
Indices: 95178402--95178505 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
95178392 TTTCAACCAT
* *
95178402 GTCTTACACATTTGAATCGCGATGCCATAGCGTCTTTCAGTTATG
1 GTCTTACACATTTCAATCGCGATGCCATAGCGTCTTTCAGCTATG
* * *
95178447 GTCTTACTA-GTCTCAATCGTGATGCCATAGCGTCTTTCAGCTATG
1 GTCTTAC-ACATTTCAATCGCGATGCCATAGCGTCTTTCAGCTATG
*
95178492 GTCTTACTCATTTC
1 GTCTTACACATTTC
95178506 TGGTATGATG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (45 bp):
GTCTTACACATTTCAATCGCGATGCCATAGCGTCTTTCAGCTATG
Found at i:95178571 original size:33 final size:33
Alignment explanation
Indices: 95178529--95178669 Score: 96
Period size: 33 Copynumber: 4.3 Consensus size: 33
95178519 TAGTCCAACT
95178529 ATGGTCTTACACATGCATTGCAATGGCCCAGCC
1 ATGGTCTTACACATGCATTGCAATGGCCCAGCC
* **
95178562 ATGGTCTTACAC-T-CGTGGTGTCATAT--CCCAGAT
1 ATGGTCTTACACATGCAT--TG-CA-ATGGCCCAGCC
* * * *
95178595 ATGGTCTTATCATCATG-A-TGCCATAGCCTAGCT
1 ATGGTCTTA-CA-CATGCATTGCAATGGCCCAGCC
** *
95178628 ATGGTCTTACACATATATTGCTATGGCCCAGCC
1 ATGGTCTTACACATGCATTGCAATGGCCCAGCC
95178661 ATGGTCTTA
1 ATGGTCTTA
95178670 TCCGTCAATT
Statistics
Matches: 84, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
31 7 0.08
32 5 0.06
33 64 0.76
34 4 0.05
35 3 0.04
36 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (33 bp):
ATGGTCTTACACATGCATTGCAATGGCCCAGCC
Found at i:95180235 original size:11 final size:11
Alignment explanation
Indices: 95180219--95180248 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95180209 ATATATACTA
95180219 AATAAAATAAT
1 AATAAAATAAT
95180230 AATAAAATAAT
1 AATAAAATAAT
95180241 AA-AAAATA
1 AATAAAATA
95180249 TCATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:95180580 original size:30 final size:31
Alignment explanation
Indices: 95180514--95180582 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
95180504 CACCCTTAAA
*
95180514 ATATTTACACTATTAGTCCTTCAAAATTTTC
1 ATATTTACACTATTACTCCTTCAAAATTTTC
*
95180545 ATATTTACACT-TTAACTCC-TC-AAATTTTG
1 ATATTTACACTATT-ACTCCTTCAAAATTTTC
95180574 AGTATTTAC
1 A-TATTTAC
95180583 TCTTATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 8 0.24
30 11 0.32
31 15 0.44
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (31 bp):
ATATTTACACTATTACTCCTTCAAAATTTTC
Found at i:95182333 original size:42 final size:42
Alignment explanation
Indices: 95182254--95182333 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
95182244 GTGCAGGTTT
**
95182254 CACACGGCCAAGACACACACCCATGTTCTAGGTCGTGTAGCA
1 CACACGGCCAAGACACACACCCATGTTCTAGCCCGTGTAGCA
*
95182296 CACACGGCTAAGACACACACCCATGTCTCT-GCCCGTGT
1 CACACGGCCAAGACACACACCCATGT-TCTAGCCCGTGT
95182334 GCTCAATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACACCCATGTTCTAGCCCGTGTAGCA
Found at i:95186304 original size:17 final size:16
Alignment explanation
Indices: 95186282--95186313 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
95186272 TGATTATTTC
95186282 AATATTTTATCATTTTG
1 AATATTTTAT-ATTTTG
95186299 AATATTTTATATTTT
1 AATATTTTATATTTT
95186314 ATAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
AATATTTTATATTTTG
Found at i:95186625 original size:15 final size:16
Alignment explanation
Indices: 95186597--95186629 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
95186587 TGCTATACTC
95186597 ATTCGATTCCATTACA
1 ATTCGATTCCATTACA
*
95186613 ATTC-ATTCTATTACA
1 ATTCGATTCCATTACA
95186628 AT
1 AT
95186630 AAACCAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTCGATTCCATTACA
Found at i:95194923 original size:19 final size:20
Alignment explanation
Indices: 95194880--95194927 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
95194870 ATTAAAATTT
95194880 TAAAT-TTAAAAAAATATAA
1 TAAATATTAAAAAAATATAA
*
95194899 -AGATATTAAAAAAATA-AA
1 TAAATATTAAAAAAATATAA
95194917 TAAATA-TAAAA
1 TAAATATTAAAA
95194928 TATAAGCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAATATTAAAAAAATATAA
Found at i:95205872 original size:15 final size:16
Alignment explanation
Indices: 95205852--95205884 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95205842 ATAGAGATAT
95205852 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
95205867 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
95205883 AA
1 AA
95205885 GAGAGACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:95206891 original size:11 final size:11
Alignment explanation
Indices: 95206875--95206900 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95206865 AACAGTTTAT
95206875 CCCTATATATA
1 CCCTATATATA
95206886 CCCTATATATA
1 CCCTATATATA
95206897 CCCT
1 CCCT
95206901 TAACCTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (11 bp):
CCCTATATATA
Found at i:95213486 original size:20 final size:20
Alignment explanation
Indices: 95213433--95213493 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
95213423 TCTCTCAATA
*
95213433 AAAAT-TTTA-AAAAAATTC
1 AAAATATTTATAAAAATTTC
* *
95213451 AAAATAATTT-TTAAAATTTT
1 AAAAT-ATTTATAAAAATTTC
*
95213471 AAAATATTTATAAAAATTCC
1 AAAATATTTATAAAAATTTC
95213491 AAA
1 AAA
95213494 TTTTATCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
20 24 0.73
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATATTTATAAAAATTTC
Found at i:95213494 original size:19 final size:18
Alignment explanation
Indices: 95213433--95213499 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
95213423 TCTCTCAATA
*
95213433 AAAATTTTAAAAAAATTC
1 AAAATTTTATAAAAATTC
* * *
95213451 AAAATAATTTTTAAAATTTT
1 AAAAT--TTTATAAAAATTC
95213471 AAAATATTTATAAAAATTC
1 AAAAT-TTTATAAAAATTC
*
95213490 CAAATTTTAT
1 AAAATTTTAT
95213500 CTTTTTTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 10 0.26
19 15 0.38
20 14 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTTATAAAAATTC
Found at i:95214662 original size:30 final size:29
Alignment explanation
Indices: 95214600--95214664 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
95214590 AGTTTATATC
* **
95214600 TTTATAATTTTTAAAAATTAAATAATTTT
1 TTTATTATTTTTAAAAATTAAATAATAAT
95214629 TTTATTATTTTTAAAAAATTAAA-ATATAAT
1 TTTATTATTTTT-AAAAATTAAATA-ATAAT
95214659 TTTATT
1 TTTATT
95214665 TTTACTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTATTATTTTTAAAAATTAAATAATAAT
Found at i:95214910 original size:26 final size:25
Alignment explanation
Indices: 95214843--95214911 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
95214833 TTTTAATATT
* * *
95214843 AATATAATTTTAAATATTATTTAAAAT
1 AATATAATTTT-AAT-TTAATCAAAAG
95214870 AATAT-ATTTT-A-TTAATCAATAAG
1 AATATAATTTTAATTTAATCAA-AAG
95214893 AATATAATTTTAATTTAAT
1 AATATAATTTTAATTTAAT
95214912 TTCTTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 6 0.17
23 7 0.20
24 6 0.17
25 1 0.03
26 10 0.29
27 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
AATATAATTTTAATTTAATCAAAAG
Found at i:95214950 original size:25 final size:25
Alignment explanation
Indices: 95214893--95214950 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
95214883 AATCAATAAG
95214893 AATATAA-TTTTAATTTAATTTCTT
1 AATATAATTTTTAATTTAATTTCTT
95214917 AA-ATAAATTTTTAATTTTTAA-TT-TT
1 AATAT-AATTTTTAA--TTTAATTTCTT
95214942 AATATAATT
1 AATATAATT
95214951 ATTATTAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 2 0.07
24 4 0.14
25 14 0.48
26 4 0.14
27 5 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AATATAATTTTTAATTTAATTTCTT
Found at i:95215698 original size:19 final size:19
Alignment explanation
Indices: 95215676--95215724 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
95215666 AGTAACTACC
**
95215676 AAATAAAAATATTTTAAAA
1 AAATAAAAATATTGGAAAA
* *
95215695 AAATTAACATATTGGAAAA
1 AAATAAAAATATTGGAAAA
*
95215714 TAATAAAAATA
1 AAATAAAAATA
95215725 GATAAGCGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
AAATAAAAATATTGGAAAA
Found at i:95227309 original size:17 final size:17
Alignment explanation
Indices: 95227287--95227334 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
95227277 GGTCCGCTCA
*
95227287 TATTTTATTTTTAATAT
1 TATTTTATTTTTAAAAT
95227304 TATTTT-TTATTTAAAAT
1 TATTTTATT-TTTAAAAT
95227321 TA--TTATTTTTAAAA
1 TATTTTATTTTTAAAA
95227335 ATATAATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.32
16 4 0.14
17 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTATTTTTAAAAT
Found at i:95231723 original size:19 final size:19
Alignment explanation
Indices: 95231699--95231745 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
95231689 AACTTTACAT
95231699 CAACTTATATCCAAGTATA
1 CAACTTATATCCAAGTATA
95231718 CAACTTATATCCAAGTATA
1 CAACTTATATCCAAGTATA
95231737 CAACTTATA
1 CAACTTATA
95231746 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (19 bp):
CAACTTATATCCAAGTATA
Found at i:95232161 original size:26 final size:26
Alignment explanation
Indices: 95232132--95232212 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
95232122 TGATACAAAT
*
95232132 TGATAATGGGTCAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
95232158 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95232184 TGATAATGGGTTAGGTAAA-GTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95232209 TGAT
1 TGAT
95232213 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 9 0.17
26 43 0.83
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:95233633 original size:12 final size:12
Alignment explanation
Indices: 95233616--95233648 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
95233606 TCTTGCATAT
95233616 ATGATTAATAAC
1 ATGATTAATAAC
95233628 ATGATTAATAAC
1 ATGATTAATAAC
95233640 ATGATTAAT
1 ATGATTAAT
95233649 GGTTCTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (12 bp):
ATGATTAATAAC
Found at i:95234296 original size:16 final size:16
Alignment explanation
Indices: 95234270--95234302 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
95234260 TTTTCAGGAC
95234270 TTTTTTATAATATTTTA
1 TTTTTTATAAT-TTTTA
95234287 TTTTTT-TAATTTTTA
1 TTTTTTATAATTTTTA
95234302 T
1 T
95234303 GACCTTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:95240892 original size:14 final size:14
Alignment explanation
Indices: 95240853--95240895 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
95240843 TTTTTTTAAA
* *
95240853 TTAAAATTTAATTC
1 TTAAAATTTTATTT
* *
95240867 TTATATTTTTATTT
1 TTAAAATTTTATTT
95240881 TTAAAATTTTATTT
1 TTAAAATTTTATTT
95240895 T
1 T
95240896 ATATATTATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAAAATTTTATTT
Found at i:95242593 original size:16 final size:17
Alignment explanation
Indices: 95242576--95242634 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 17
95242566 TGTTAATGAT
95242576 TAAATATTAATTAAAT-
1 TAAATATTAATTAAATA
* *
95242592 TAGATATTAATGATTAAAATG
1 TAAATATT-A--ATT-AAATA
95242613 TAAAT-TTAATTAAATA
1 TAAATATTAATTAAATA
95242629 TAAATA
1 TAAATA
95242635 ATTATTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
16 16 0.47
17 4 0.12
19 4 0.12
20 6 0.18
21 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAAATATTAATTAAATA
Found at i:95248513 original size:6 final size:6
Alignment explanation
Indices: 95248504--95248531 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
95248494 AAATCCTTAT
95248504 CCTTCC CCTTCC CCTTCC CCTTCC CCTT
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTT
95248532 GTAGTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CCTTCC
Found at i:95251202 original size:20 final size:21
Alignment explanation
Indices: 95251173--95251213 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
95251163 TAATTAGTAC
95251173 TCTAAGTGGTT-ATATGATTT
1 TCTAAGTGGTTAATATGATTT
*
95251193 TCTAATTGGTTAATATGATTT
1 TCTAAGTGGTTAATATGATTT
95251214 GATAATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (21 bp):
TCTAAGTGGTTAATATGATTT
Found at i:95251219 original size:21 final size:20
Alignment explanation
Indices: 95251179--95251219 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
95251169 GTACTCTAAG
**
95251179 TGGTTATATGATTTTCTAAT
1 TGGTTATATGATTTGATAAT
95251199 TGGTTAATATGATTTGATAAT
1 TGGTT-ATATGATTTGATAAT
95251220 GTATGATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.51
Consensus pattern (20 bp):
TGGTTATATGATTTGATAAT
Found at i:95259028 original size:12 final size:12
Alignment explanation
Indices: 95259011--95259037 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
95259001 TTGAGTGGAA
95259011 AGTTTGCTGAGG
1 AGTTTGCTGAGG
95259023 AGTTTGCTGAGG
1 AGTTTGCTGAGG
95259035 AGT
1 AGT
95259038 CTGTTAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.41, T:0.33
Consensus pattern (12 bp):
AGTTTGCTGAGG
Found at i:95265362 original size:4 final size:4
Alignment explanation
Indices: 95265353--95265409 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
95265343 TCAGGTAAAT
95265353 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
95265401 TACA TACA T
1 TACA TACA T
95265410 TACCACTACG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:95274502 original size:23 final size:22
Alignment explanation
Indices: 95274474--95274516 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
95274464 GATATTTTAA
*
95274474 ATATAAATATTTATTTTATTTTT
1 ATATAAATATTT-GTTTATTTTT
95274497 ATATAAATATTTGTTTATTT
1 ATATAAATATTTGTTTATTT
95274517 ATATTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATAAATATTTGTTTATTTTT
Found at i:95274787 original size:84 final size:85
Alignment explanation
Indices: 95274656--95274821 Score: 244
Period size: 84 Copynumber: 2.0 Consensus size: 85
95274646 GAGAGTAAAA
* * * * *
95274656 AATTAAAATTGAATAAAATCTGTTTTGGAATTTATTCTTGCCGTTTAATAGATTTTGTTCCATTT
1 AATTAAAATTGAATAAAATCTATTTCGGAATTTATTCTCGCCGTTTAACAGATTTTATTCCATTT
95274721 TAATTTTGTTTCCAAACTAT
66 TAATTTTGTTTCCAAACTAT
* * *
95274741 AATTAAAATTGAAT-AATTCTATTTCGGAATTTATTCTCGCCTTTTAACATATTTTATTCCATTT
1 AATTAAAATTGAATAAAATCTATTTCGGAATTTATTCTCGCCGTTTAACAGATTTTATTCCATTT
*
95274805 TGATTTTGTTTCCAAAC
66 TAATTTTGTTTCCAAAC
95274822 GAGAATTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 58 0.81
85 14 0.19
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (85 bp):
AATTAAAATTGAATAAAATCTATTTCGGAATTTATTCTCGCCGTTTAACAGATTTTATTCCATTT
TAATTTTGTTTCCAAACTAT
Found at i:95284050 original size:23 final size:25
Alignment explanation
Indices: 95284016--95284069 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
95284006 CAATATAATC
95284016 ATTATTTAATTT-T-AGTAAAAATA
1 ATTATTTAATTTATCAGTAAAAATA
*
95284039 ATTAGTTT-ATTTATGCATTAAAAATA
1 ATTA-TTTAATTTAT-CAGTAAAAATA
95284065 ATTAT
1 ATTAT
95284070 ACTCTATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 8 0.31
24 4 0.15
25 1 0.04
26 13 0.50
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (25 bp):
ATTATTTAATTTATCAGTAAAAATA
Found at i:95284270 original size:20 final size:20
Alignment explanation
Indices: 95284245--95284284 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
95284235 GCCTTCGTTT
95284245 ATTTTTTGTAAAAGCAAATG
1 ATTTTTTGTAAAAGCAAATG
* *
95284265 ATTTTTTGTGAAAGTAAATG
1 ATTTTTTGTAAAAGCAAATG
95284285 TCTTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTTTTTGTAAAAGCAAATG
Found at i:95285839 original size:3 final size:3
Alignment explanation
Indices: 95285831--95285872 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
95285821 TGCATTTACT
95285831 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
95285873 ACTTCCTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:95289562 original size:29 final size:29
Alignment explanation
Indices: 95289530--95289590 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
95289520 AACAAGAGTA
*
95289530 AAAACAAAGATAATTTCAAAATAATTTTT
1 AAAACAAAGATAATTTCAAAATAAATTTT
*
95289559 AAAACAAAGATAATTTCAAGATAAATTTT
1 AAAACAAAGATAATTTCAAAATAAATTTT
95289588 AAA
1 AAA
95289591 GAAGACTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAACAAAGATAATTTCAAAATAAATTTT
Found at i:95290417 original size:6 final size:6
Alignment explanation
Indices: 95290408--95290434 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
95290398 TGGAAAACAA
95290408 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
95290435 TAAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:95299217 original size:26 final size:26
Alignment explanation
Indices: 95299188--95299266 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
95299178 AAACACTCAA
95299188 ATTTCTCAAAAGCACTTCTGAAAAGC
1 ATTTCTCAAAAGCACTTCTGAAAAGC
*
95299214 ATTTCTCAAAAGCACTTTTGAAAAGC
1 ATTTCTCAAAAGCACTTCTGAAAAGC
* * *
95299240 ACTTCTCAAAAGCAATTCTCAAAAGC
1 ATTTCTCAAAAGCACTTCTGAAAAGC
95299266 A
1 A
95299267 ATGAAGAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.27
Consensus pattern (26 bp):
ATTTCTCAAAAGCACTTCTGAAAAGC
Found at i:95299268 original size:13 final size:13
Alignment explanation
Indices: 95299190--95299266 Score: 109
Period size: 13 Copynumber: 5.9 Consensus size: 13
95299180 ACACTCAAAT
95299190 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
95299203 TTCTGAAAAGCAT
1 TTCTCAAAAGCAC
95299216 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
95299229 TTTTGAAAAGCAC
1 TTCTCAAAAGCAC
*
95299242 TTCTCAAAAGCAA
1 TTCTCAAAAGCAC
95299255 TTCTCAAAAGCA
1 TTCTCAAAAGCA
95299267 ATGAAGAACT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:95299548 original size:27 final size:27
Alignment explanation
Indices: 95299510--95299572 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
95299500 ATACATACAT
* *
95299510 GTTGCGCCTATCTAACAAGCTCAACTA
1 GTTGAGCCTATCTAACAAGCACAACTA
* * *
95299537 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGAGCCTATCTAACAAGCACAACTA
*
95299564 GTTGTGCCT
1 GTTGAGCCT
95299573 TCTTGGTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (27 bp):
GTTGAGCCTATCTAACAAGCACAACTA
Found at i:95303072 original size:14 final size:15
Alignment explanation
Indices: 95303045--95303073 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95303035 AATTTTATGA
95303045 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
95303060 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
95303074 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:95303266 original size:50 final size:51
Alignment explanation
Indices: 95303189--95303317 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
95303179 GACCATGGCA
95303189 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
95303240 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
95303290 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
95303318 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:95303331 original size:31 final size:31
Alignment explanation
Indices: 95303293--95303441 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
95303283 ACAAATGACA
*
95303293 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
95303324 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
95303355 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
95303386 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
95303417 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
95303442 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 104 0.97
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:95303536 original size:47 final size:46
Alignment explanation
Indices: 95303466--95303630 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 46
95303456 AAGTGATTTC
* *
95303466 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
95303512 CTGTATAAGACCATATTTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
95303559 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
95303601 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
95303631 ATTATGTGAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 26 0.25
47 40 0.38
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:95303668 original size:42 final size:42
Alignment explanation
Indices: 95303560--95303657 Score: 162
Period size: 42 Copynumber: 2.3 Consensus size: 42
95303550 TATGTGATTC
*
95303560 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
*
95303602 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
95303644 GTGTAAGACCATAG
1 GTGTAAGACCATAG
95303658 TTGAACTATG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:95305851 original size:22 final size:22
Alignment explanation
Indices: 95305817--95305880 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
95305807 TCAACATTTT
*
95305817 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
95305839 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
95305860 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
95305881 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:95305874 original size:15 final size:16
Alignment explanation
Indices: 95305854--95305885 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95305844 ATATATAATA
95305854 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
95305869 ATATAAAAATTACATT
1 ATATAAAAATTACATT
95305885 A
1 A
95305886 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:95306226 original size:229 final size:228
Alignment explanation
Indices: 95305934--95306384 Score: 714
Period size: 229 Copynumber: 2.0 Consensus size: 228
95305924 TATAATCATA
*
95305934 TACTAATACAAATTAACTATAAAATTATTTTTTTAAATACATTACTAAAAAAAATCACAATACAC
1 TACTAATACAAATTAACTATAAAAATATTTTTTTAAATACATTACTAAAAAAAATCACAATACAC
95305999 TAATACACACTAAACCACTAAACACTAACAA-TATATAACATAATCTTAAATTACTAATAAAATA
66 -AA-ACACACTAAACCACTAAACACTAACAATTATATAACATAATCTTAAATTACTAATAAAATA
95306063 GCTATAAAAATATATTTTTT-AAATATATTACTAAAAAAAATCACAATACACTAATACACTAAAC
129 GCTAT-AAAAT-TATTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAATACACTAAAC
95306127 CACTAAACACTAACAATTTATATAACCTAACCTTAAAT
191 CACTAAACACTAACAATTTATATAACCTAACCTTAAAT
* * *
95306165 TACTAATA-AAA-TAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATACA
1 TACTAATACAAATTAACTATAAAAATATTTTTTT-AAATACATTACTAAAAAAAATCACAATACA
* * * *
95306227 CAAATACACTAAACCACTAAACACTAACAATTTATGTAACCTAATCTTAAATTACTAATAAAATT
65 CAAACACACTAAACCACTAAACACTAACAA-TTATATAACATAATCTTAAATTACTAATAAAATA
*
95306292 GCTATAAAATTATTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTA
129 GCTATAAAATTATTTTTT-AAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCA
95306357 CTAAACACTAACAATTTATATAACCTAA
193 CTAAACACTAACAATTTATATAACCTAA
95306385 TCAACTATAA
Statistics
Matches: 206, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
227 34 0.17
228 67 0.33
229 83 0.40
230 14 0.07
231 8 0.04
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (228 bp):
TACTAATACAAATTAACTATAAAAATATTTTTTTAAATACATTACTAAAAAAAATCACAATACAC
AAACACACTAAACCACTAAACACTAACAATTATATAACATAATCTTAAATTACTAATAAAATAGC
TATAAAATTATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTA
AACACTAACAATTTATATAACCTAACCTTAAAT
Found at i:95306267 original size:114 final size:114
Alignment explanation
Indices: 95305934--95306386 Score: 689
Period size: 114 Copynumber: 3.9 Consensus size: 114
95305924 TATAATCATA
* * *
95305934 TACTAATACAAATTAACTATAAAATTATTTTTTTAAATACATTACTAAAAAAAATCACAATACAC
1 TACTAATA-AAA-TAGCTATAAAAATATTTTTTTAAATATATTACTAAAAAAAATCACAATACAC
* *
95305999 TAATACACACTAAACCACTAAACACTAACAA--TATATAACATAATCTTAAAT
64 -AA-ATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
*
95306050 TACTAATAAAATAGCTATAAAAATATATTTTTTAAATATATTACTAAAAAAAATCACAATACACT
1 TACTAATAAAATAGCTATAAAAATAT-TTTTTTAAATATATTACTAAAAAAAATCACAATACACA
*
95306115 AATACACTAAACCACTAAACACTAACAATTTATATAACCTAACCTTAAAT
65 AATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
*
95306165 TACTAATAAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATACACA
1 TACTAATAAAATAGCTATAAAAATATTTTTTT-AAATATATTACTAAAAAAAATCACAATACACA
*
95306229 AATACACTAAACCACTAAACACTAACAATTTATGTAACCTAATCTTAAAT
65 AATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
* * * *
95306279 TACTAATAAAATTGCTATAAAATTATTTTTTAAAAATATATTACT-AAAAAAATCACAATACACT
1 TACTAATAAAATAGCTATAAAAATATTTTTT-TAAATATATTACTAAAAAAAATCACAATACACA
*
95306343 AATACACTAAACTACTAAACACTAACAATTTATATAACCTAATC
65 AATACACTAAACCACTAAACACTAACAATTTATATAACCTAATC
95306387 AACTATAAAA
Statistics
Matches: 314, Mismatches: 18, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
113 26 0.08
114 185 0.59
115 95 0.30
116 8 0.03
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (114 bp):
TACTAATAAAATAGCTATAAAAATATTTTTTTAAATATATTACTAAAAAAAATCACAATACACAA
ATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
Found at i:95306675 original size:16 final size:16
Alignment explanation
Indices: 95306654--95306684 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95306644 TACCCTTTTT
*
95306654 TTTTTCTTCTTCTTCA
1 TTTTTCTTCTCCTTCA
95306670 TTTTTCTTCTCCTTC
1 TTTTTCTTCTCCTTC
95306685 TCCTTCTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTCTTCTCCTTCA
Found at i:95309078 original size:21 final size:22
Alignment explanation
Indices: 95309052--95309098 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
95309042 CTCTGCTCAA
*
95309052 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
95309073 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
95309095 ACTC
1 ACTC
95309099 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:95317039 original size:57 final size:57
Alignment explanation
Indices: 95316976--95317090 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
95316966 TGTAAATATG
*
95316976 AAAAAGTTAAATGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTA
1 AAAAAGTTAAAGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTA
*
95317033 AAAAAGTTGAAGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTA
1 AAAAAGTTAAAGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTA
95317090 A
1 A
95317091 GGAAAATGGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (57 bp):
AAAAAGTTAAAGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTA
Found at i:95317300 original size:20 final size:21
Alignment explanation
Indices: 95317266--95317319 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
95317256 TGATGATATT
*
95317266 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
95317287 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
95317307 TTTTATTATTTTA
1 TTATATTATTTTA
95317320 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:95317323 original size:3 final size:3
Alignment explanation
Indices: 95317305--95317353 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
95317295 TTTAATGAGA
*
95317305 TAT T-T TAT TAT T-T TAT TAT TAT T-T TAT TAT TAT T-T CAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
95317350 TAT T
1 TAT T
95317354 TAGTCTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:95317325 original size:11 final size:11
Alignment explanation
Indices: 95317309--95317347 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
95317299 ATGAGATATT
95317309 TTATTATTTTA
1 TTATTATTTTA
95317320 TTATTATTTTA
1 TTATTATTTTA
*
95317331 TTATTATTTCA
1 TTATTATTTTA
95317342 TTATTA
1 TTATTA
95317348 ATTATTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:95317344 original size:19 final size:19
Alignment explanation
Indices: 95317305--95317346 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
95317295 TTTAATGAGA
*
95317305 TATTTTATTATTTTATTAT
1 TATTTTATTATTTTATCAT
95317324 TATTTTATTATTATT-TCAT
1 TATTTTATTATT-TTATCAT
95317343 TATT
1 TATT
95317347 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTTATTATTTTATCAT
Found at i:95320364 original size:15 final size:15
Alignment explanation
Indices: 95320344--95320377 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
95320334 CTTAAACTCG
95320344 TATATTTTATACATA
1 TATATTTTATACATA
*
95320359 TATATTTTATATATA
1 TATATTTTATACATA
95320374 TATA
1 TATA
95320378 CACAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTTTATACATA
Found at i:95321760 original size:130 final size:132
Alignment explanation
Indices: 95321426--95321798 Score: 321
Period size: 130 Copynumber: 2.9 Consensus size: 132
95321416 ATGTTCGAAT
* * ** * *
95321426 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCGATTTCGTATTTGCTCAAAATAATCGAAGT-
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAAATAATC-AAATA
* * * * * * * * * ** ** * * *
95321490 TCCCTTCGAAACTTCATTC--ATATTTTTAAAATCC-CTTAAATAAAGATGAGATTTGATGTTTG
65 TCACTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTCTAAAACGAAGGCGATATGTGATATTTG
95321552 GCA
130 GCA
* * * * *
95321555 ATTCGCGGAATTGTGCGCTAACGTGTTGGGTTGCAATTTCGCATTTGTTCAAAATAATCGAATAT
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAAATAATCAAATAT
* * ** *
95321620 CATTTTAAAATTTTGCTCGTG-TCTT-TTAAAAT-CTCTAAAACGAAGGCGATATGTGATATTTG
66 CACTTCAAAATTTCACTCG-GCTCTTCTAAAAATCCTCTAAAACGAAGGCGATATGTGATATTTG
95321682 GCA
130 GCA
* ** *
95321685 ATTCGTGGGCTCGTGCCCTAACGTGTTGGGTAGCAATTTCCCGA-TTGTTTAAAATAATCAAATA
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCC-ATTTGTTCAAAATAATCAAATA
* *
95321749 TCCCTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTTTAAAACGAAGGC
65 TCACTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTCTAAAACGAAGGC
95321799 AATACTTGGT
Statistics
Matches: 195, Mismatches: 40, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
128 2 0.01
129 67 0.34
130 102 0.52
131 10 0.05
132 14 0.07
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (132 bp):
ATTCGCGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAAATAATCAAATAT
CACTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTCTAAAACGAAGGCGATATGTGATATTTGG
CA
Found at i:95323141 original size:21 final size:21
Alignment explanation
Indices: 95323115--95323161 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
95323105 CAACCGGATA
*
95323115 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATCGT
95323136 TGAAATGTGTAAGACCATCGT
1 TGAAATGTGTAAGACCATCGT
95323157 TGAAA
1 TGAAA
95323162 GATACCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATCGT
Found at i:95323182 original size:67 final size:67
Alignment explanation
Indices: 95323069--95323207 Score: 260
Period size: 67 Copynumber: 2.1 Consensus size: 67
95323059 CTCTCTCATA
*
95323069 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCGGATATGAAATGTGTAAGACCATG
1 TGAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCGGATATGAAATGTGTAAGACCATG
95323134 GT
66 GT
*
95323136 TGAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATG
1 TGAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCGGATATGAAATGTGTAAGACCATG
95323201 GT
66 GT
95323203 TGAAA
1 TGAAA
95323208 GATACCATGG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (67 bp):
TGAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCGGATATGAAATGTGTAAGACCATG
GT
Found at i:95323189 original size:46 final size:46
Alignment explanation
Indices: 95323136--95323311 Score: 239
Period size: 46 Copynumber: 3.8 Consensus size: 46
95323126 AGACCATGGT
* *
95323136 TGAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCTGATA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
* *
95323182 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
** *
95323228 TGAAATGAACAAGACCATGGTTGAAAGATACCATGGC-ACCATGACA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC-TGATA
* *
95323274 -GAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 TG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
95323312 TCATGTCAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
45 3 0.03
46 113 0.97
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
Found at i:95326406 original size:46 final size:46
Alignment explanation
Indices: 95326349--95326515 Score: 165
Period size: 46 Copynumber: 3.5 Consensus size: 46
95326339 ACACACCGTA
95326349 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * *
95326395 GCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
95326448 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
95326494 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
95326516 TTCTGTCAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
46 44 0.44
47 8 0.08
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 6 0.06
53 28 0.28
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:95327682 original size:23 final size:22
Alignment explanation
Indices: 95327580--95327686 Score: 132
Period size: 21 Copynumber: 5.0 Consensus size: 22
95327570 TCTGATCAGT
*
95327580 ATACGACACATAA-GTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
95327601 A-ACGACACACGAGGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
95327622 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
95327642 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* *
95327665 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
95327687 TCAGTATAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
20 10 0.13
21 47 0.61
22 1 0.01
23 19 0.25
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.14
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:95327946 original size:23 final size:24
Alignment explanation
Indices: 95327877--95327971 Score: 84
Period size: 28 Copynumber: 3.6 Consensus size: 24
95327867 AAATGTCCAA
95327877 CCAAAACACACCA-ATATAATCCT
1 CCAAAACACACCAGATATAATCCT
*
95327900 TCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
95327928 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
95327957 CCAAAACACACCAGA
1 CCAAAACACACCAGA
95327972 ATAGCACAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
23 12 0.20
25 1 0.02
28 33 0.55
29 14 0.23
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:95327973 original size:29 final size:28
Alignment explanation
Indices: 95327889--95327974 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
95327879 AAAACACACC
* *
95327889 AATATAATCCTTCAAAACACACCAGTAT
1 AATATAATCCTCCAAAACACACCAGAAT
* *
95327917 CATATAATCCTCCCAAACACACCAGAAT
1 AATATAATCCTCCAAAACACACCAGAAT
95327945 AATATAATCCATCCAAAACACACCAGAAT
1 AATATAATCC-TCCAAAACACACCAGAAT
95327974 A
1 A
95327975 GCACAAAGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.20
Consensus pattern (28 bp):
AATATAATCCTCCAAAACACACCAGAAT
Found at i:95332715 original size:17 final size:17
Alignment explanation
Indices: 95332669--95332717 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
95332659 ACTTAACAGC
*
95332669 TTAATAATTTAAATAAA
1 TTAATAATTTAAATAAT
*
95332686 TT--T--TTTGAATAAT
1 TTAATAATTTAAATAAT
95332699 TTAATAATTTAAATAAT
1 TTAATAATTTAAATAAT
95332716 TT
1 TT
95332718 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
13 10 0.40
15 2 0.08
17 13 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAATAATTTAAATAAT
Found at i:95338555 original size:2 final size:2
Alignment explanation
Indices: 95338550--95338575 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95338540 TTTTTTTTTT
95338550 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
95338576 ATAAGAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:95341152 original size:21 final size:22
Alignment explanation
Indices: 95341118--95341159 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
95341108 TAAAATATTT
*
95341118 TTTTTCCTTGTAAAAACTCAAG
1 TTTTTCCTTATAAAAACTCAAG
*
95341140 TTTTTCC-TATAAAAATTCAA
1 TTTTTCCTTATAAAAACTCAA
95341160 ATAATTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.43
Consensus pattern (22 bp):
TTTTTCCTTATAAAAACTCAAG
Found at i:95348345 original size:21 final size:23
Alignment explanation
Indices: 95348303--95348357 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
95348293 TTTATTTATC
95348303 TATTTA-ATATTATATTCAA-TT
1 TATTTATATATTATATTCAATTT
*
95348324 TATTTATATATTATA-TCTATTT
1 TATTTATATATTATATTCAATTT
95348346 TATTATATATAT
1 TATT-TATATAT
95348358 ACTCTAGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 9 0.30
22 14 0.47
23 7 0.23
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTTATATATTATATTCAATTT
Found at i:95348692 original size:21 final size:21
Alignment explanation
Indices: 95348668--95348709 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
95348658 GTGAAGAAAA
*
95348668 GATTCTGACCTGAAAATAAGG
1 GATTCTGACCTCAAAATAAGG
95348689 GATTCTGACCTCAAAATAAGG
1 GATTCTGACCTCAAAATAAGG
95348710 ACAGCAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (21 bp):
GATTCTGACCTCAAAATAAGG
Found at i:95348945 original size:27 final size:27
Alignment explanation
Indices: 95348907--95348958 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
95348897 CAAAAAAAAA
*
95348907 GGTGATGTGGGTGCCAGAGGCGGCACC
1 GGTGATGTGGGTGCCAAAGGCGGCACC
* *
95348934 GGTGGTGTGGGTTCCAAAGGCGGCA
1 GGTGATGTGGGTGCCAAAGGCGGCA
95348959 TCTAAGCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.48, T:0.17
Consensus pattern (27 bp):
GGTGATGTGGGTGCCAAAGGCGGCACC
Found at i:95349067 original size:25 final size:25
Alignment explanation
Indices: 95349016--95349067 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
95349006 AAGCAGCAGC
* **
95349016 AAGGAGAAGAAAATAAAGGGAAAGA
1 AAGGAGAAGAAAAGAAAAAGAAAGA
* *
95349041 AAGGAGAAGAGAAGAAAAAGAAGGA
1 AAGGAGAAGAAAAGAAAAAGAAAGA
95349066 AA
1 AA
95349068 AAAAAAGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (25 bp):
AAGGAGAAGAAAAGAAAAAGAAAGA
Found at i:95349361 original size:26 final size:26
Alignment explanation
Indices: 95349330--95349381 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
95349320 TTTATTTCAT
*
95349330 TAAATAAAAAAAATTTAAAAATATAA
1 TAAATAAAAAAAATTTAAAAACATAA
* *
95349356 TAAATAAAATATATTTAAAAACATAA
1 TAAATAAAAAAAATTTAAAAACATAA
95349382 AAACAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
TAAATAAAAAAAATTTAAAAACATAA
Found at i:95349403 original size:22 final size:21
Alignment explanation
Indices: 95349331--95349420 Score: 76
Period size: 21 Copynumber: 4.1 Consensus size: 21
95349321 TTATTTCATT
*
95349331 AAATAAAAAAAAT-TTAAAAAT
1 AAATAAAAAAAATATT-AAAAC
95349352 ATAATAAATAAAATATATTTAAAA-
1 A-AATAAA-AAAA-ATA-TTAAAAC
*
95349376 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
95349398 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
95349419 AA
1 AA
95349421 TTTTTAAAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
21 19 0.33
22 19 0.33
23 11 0.19
24 3 0.05
25 4 0.07
26 2 0.03
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:95350464 original size:44 final size:44
Alignment explanation
Indices: 95350416--95350505 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
95350406 AAATAAAAAG
*
95350416 TATAGGTTCATGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
1 TATAGGTTCACGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
95350460 TATAGGTTCACGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
1 TATAGGTTCACGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
95350504 TA
1 TA
95350506 CCAGGGATGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (44 bp):
TATAGGTTCACGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
Found at i:95354536 original size:17 final size:17
Alignment explanation
Indices: 95354514--95354552 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
95354504 CGGTAATAGT
95354514 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
95354531 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
95354548 ATGTT
1 ATGTT
95354553 GTAATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:95357408 original size:139 final size:138
Alignment explanation
Indices: 95357254--95357694 Score: 762
Period size: 139 Copynumber: 3.2 Consensus size: 138
95357244 AATATATTAT
* *
95357254 TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAATCTT
1 TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCT
95357319 GATTTT-TCCCCTTTGTTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTT
66 GATTTTGT-CCCTTTGTTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTT
95357383 CGTATTTTA
130 CGTATTTTA
*
95357392 TTTTATTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCC
1 TTTT-TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCC
* * *
95357457 TGATTTTGTCCCTTTATTTTTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTT
65 TGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTT
95357522 CGTATTTTA
130 CGTATTTTA
*
95357531 TTTTTTATCTTATTTTAGTACATAATGATTCAAATGTATTATTTTAGTGTTTTTTTAAATAACCC
1 TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTTAAATAACCC
95357596 TGATTTTGTCCCTTTGTTTGTATTTCTAAAATATT-AGTATTTTATTTTTTAAAATATACTATTT
65 TGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCAG-ATTTTATTTTTTAAAATATACTATTT
95357660 TCGTA-TTTA
129 TCGTATTTTA
95357669 TTTTTTATCTTATTTTAGTACATAAT
1 TTTTTTATCTTATTTTAGTACATAAT
95357695 ATGTTTTTTA
Statistics
Matches: 288, Mismatches: 11, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
138 78 0.27
139 209 0.73
140 1 0.00
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (138 bp):
TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCT
GATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTC
GTATTTTA
Found at i:95357705 original size:117 final size:118
Alignment explanation
Indices: 95357581--95357812 Score: 412
Period size: 117 Copynumber: 2.0 Consensus size: 118
95357571 ATTTTAGTGT
*
95357581 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAGTATTTTATTTTTT
1 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAGGATTTTATTTTTT
95357646 AAAATATACTATTTTCGTA-TTTATTTTTTATCTTATTTTAGTACATAATATG
66 AAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAATATG
*
95357698 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCGGATTTTATTTTTT
1 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAGGATTTTATTTTTT
* * *
95357763 ATAATATATTATTTTCGTATTTTATTTTTTTTCTTATTTTAGTACATAAT
66 AAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAAT
95357813 GTTTTAAATG
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
117 80 0.73
118 29 0.27
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (118 bp):
TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAGGATTTTATTTTTT
AAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAATATG
Found at i:95357726 original size:256 final size:262
Alignment explanation
Indices: 95357254--95357939 Score: 978
Period size: 256 Copynumber: 2.6 Consensus size: 262
95357244 AATATATTAT
* *
95357254 TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAATCTT
1 TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCT
95357319 GATTTT-TCCCCTTTGTTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTT
66 GATTTTGT-CCCTTTGTTTGTATTTCTAAAATATT-AGATTTTATTTTTTAAAATATACTATTTT
95357383 CGTATTTTATTTTATTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
129 CGTA-TTTATTTT-TTATATTATTTTAG---ATAA----TC-AA-GTA-TA--TTAGTGTTTTTT
*
95357448 AAATAACCCTGATTTTGTCCCTTTATTTTTATTTCTAAAATATTCGGATTTTATTTTTTAAAATA
180 AAATAACCCTGATTTTGTCCCTTTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATA
95357513 TACTATTTTCGTATTTTA
245 TACTATTTTCGTATTTTA
*
95357531 TTTTTTATCTTATTTTAGTACATAATGATTCAAATGTATTATTTTAGTGTTTTTTTAAATAACCC
1 TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTTAAATAACCC
95357596 TGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAGTATTTTATTTTTTAAAATATACTATTTT
65 TGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAG-ATTTTATTTTTTAAAATATACTATTTT
*
95357661 CGTATTTATTTTTTATCTTATTTTAG-T-A-C-A-TA-A-TA-TGTTTTTTAAATAACCCTGATT
129 CGTATTTATTTTTTATATTATTTTAGATAATCAAGTATATTAGTGTTTTTTAAATAACCCTGATT
* * *
95357718 TTGTCCCTTTGTTTGTATTTCTAAAATATTCGGATTTTATTTTTTATAATATATTATTTTCGTAT
194 TTGTCCCTTTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTAT
95357783 TTTA
259 TTTA
* *
95357787 TTTTTTTTCTTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTAAATAACCCT
1 TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCT
* ** * *
95357852 GATTTTGTCCCTTTGTTTGTATTTTTATATTTTTTAGATTTTAATTTTTAAAATATACTATTTTC
66 GATTTTGTCCCTTTGTTTGTATTTCTA-AAATATTAGATTTTATTTTTTAAAATATACTATTTTC
*
95357917 ATATTT-TATTTTTATATTATTTT
130 GTATTTAT-TTTTTATATTATTTT
95357940 TATACTATTT
Statistics
Matches: 386, Mismatches: 18, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
254 1 0.00
255 88 0.23
256 139 0.36
257 2 0.01
260 1 0.00
262 2 0.01
264 1 0.00
266 1 0.00
271 1 0.00
272 1 0.00
276 13 0.03
277 58 0.15
278 77 0.20
279 1 0.00
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (262 bp):
TTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCT
GATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAGATTTTATTTTTTAAAATATACTATTTTCG
TATTTATTTTTTATATTATTTTAGATAATCAAGTATATTAGTGTTTTTTAAATAACCCTGATTTT
GTCCCTTTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTT
TA
Found at i:95357761 original size:59 final size:59
Alignment explanation
Indices: 95357581--95357768 Score: 156
Period size: 59 Copynumber: 3.2 Consensus size: 59
95357571 ATTTTAGTGT
*
95357581 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTAGTATTTTA
1 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCGTATTTTA
* * *** * * * * *
95357640 TTTTTTAAAATATA--CT-ATTTTCGT--ATTTATTT-T-TTATCTTATTTTAGTACATAATATG
1 TTTTTT-AAATA-ACCCTGATTTT-GTCCCTTTGTTTGTATT-TC-TAAAATA-TTCGTATTTTA
*
95357698 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCGGATTTTA
1 TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCGTATTTTA
95357757 TTTTTTATAATA
1 TTTTTTA-AATA
95357769 TATTATTTTC
Statistics
Matches: 93, Mismatches: 22, Indels: 27
0.65 0.15 0.19
Matches are distributed among these distances:
55 2 0.02
56 4 0.04
57 15 0.16
58 20 0.22
59 27 0.29
60 19 0.20
61 4 0.04
62 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (59 bp):
TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCGTATTTTA
Found at i:95357938 original size:11 final size:11
Alignment explanation
Indices: 95357922--95357956 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
95357912 TTTTCATATT
95357922 TTATTTTTATA
1 TTATTTTTATA
95357933 TTATTTTTATA
1 TTATTTTTATA
* *
95357944 CTATTTTCATA
1 TTATTTTTATA
95357955 TT
1 TT
95357957 TTATTGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:95357994 original size:17 final size:17
Alignment explanation
Indices: 95357968--95358000 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95357958 TATTGTAATT
95357968 TTTTCATATTTTATTTC
1 TTTTCATATTTTATTTC
*
95357985 TTTTCGTATTTTATTT
1 TTTTCATATTTTATTT
95358001 TTTCATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:95358047 original size:256 final size:255
Alignment explanation
Indices: 95357501--95358047 Score: 551
Period size: 256 Copynumber: 2.1 Consensus size: 255
95357491 TCGGATTTTA
* * * * *
95357501 TTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAATGATTCAAAT
1 TTTTTTAATATATTCT-TTTT-GTATATTATTTTTTTTCTTATTTTAGTACATAATGTTTCAAAT
* *
95357566 GTATTATTTTAGTGTTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATT
64 GTATTATTTTAGTG-TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAATTTTT
*
95357631 AGTATTTTATTTTTTAAAATATACTATTTTCGTA-TTTATTTTTTATCTTATTTTAGTAC-A---
128 AG-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACTATTT
* * *** * * * ** * ** *
95357691 TAATATGTTT-TTTAA-ATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCGGATT
192 TCATATGTTTATTTAATTTTTTCATAATTTTATTTC-TT-TTCGTATTT-T-ATTTTTTC--ATT
*
95357754 -TTAT
251 GATAT
* * * *
95357758 TTTTTATAATATATTATTTTCGTATTTTATTTTTTTTCTTATTTTAGTACATAATGTTTTAAATG
1 TTTTT-TAATATATTCTTTTTGTATATTATTTTTTTTCTTATTTTAGTACATAATGTTTCAAATG
* *
95357823 TATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTTTATATTTTTTA
65 TATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTA-AATTTTTA
* *
95357888 GATTTTAATTTTTAAAATATACTATTTTCATATTTTA-TTTTTATATTATTTTTA-TACTATTTT
129 GATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA-TTTTAGTACTATTTT
95357951 CATAT-TTTATTGTAATTTTTTCAT-ATTTTATTTCTTTTCGTATTTTATTTTTTCATTAAGATA
193 CATATGTTTATT-TAATTTTTTCATAATTTTATTTCTTTTCGTATTTTATTTTTTCATT--GATA
95358014 T
255 T
* * * *
95358015 TTTTTTCATATTTTCTTTTTTTATACTATTTTT
1 TTTTTTAATATATTCTTTTTGTATATTATTTTT
95358048 GTAAAATAGT
Statistics
Matches: 241, Mismatches: 35, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
254 3 0.01
255 84 0.35
256 96 0.40
257 17 0.07
258 19 0.08
259 9 0.04
260 10 0.04
261 3 0.01
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (255 bp):
TTTTTTAATATATTCTTTTTGTATATTATTTTTTTTCTTATTTTAGTACATAATGTTTCAAATGT
ATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAATTTTTAGA
TTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACTATTTTCAT
ATGTTTATTTAATTTTTTCATAATTTTATTTCTTTTCGTATTTTATTTTTTCATTGATAT
Found at i:95358740 original size:22 final size:21
Alignment explanation
Indices: 95358712--95358762 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
95358702 TCTGTTTCAG
*
95358712 TTTTTTTCAGCTTTATACTGT
1 TTTTTTTTAGCTTTATACTGT
95358733 TTTTTTTTAGCTTTATACTGT
1 TTTTTTTTAGCTTTATACTGT
95358754 TTTTGTTTT
1 TTTT-TTTT
95358763 TTTTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.69
Consensus pattern (21 bp):
TTTTTTTTAGCTTTATACTGT
Found at i:95359486 original size:16 final size:18
Alignment explanation
Indices: 95359446--95359487 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
95359436 TTATTTTTTA
95359446 TTAATTTATATATATATT
1 TTAATTTATATATATATT
*
95359464 TGAAATTTA-ATATAT-TT
1 T-TAATTTATATATATATT
95359481 TTAATTT
1 TTAATTT
95359488 TAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 7 0.33
19 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTAATTTATATATATATT
Found at i:95361000 original size:16 final size:16
Alignment explanation
Indices: 95360979--95361063 Score: 66
Period size: 16 Copynumber: 5.3 Consensus size: 16
95360969 TATAAGTTAG
95360979 TTCAAAATTATGCATT
1 TTCAAAATTATGCATT
* * * *
95360995 TTCAAATGTTTTGTA-G
1 TTCAAA-ATTATGCATT
95361011 TTCAAAATTATGCATT
1 TTCAAAATTATGCATT
* * * *
95361027 TTCAAATGTTTTGTA-G
1 TTCAAA-ATTATGCATT
95361043 TTCAAAATTATGCATT
1 TTCAAAATTATGCATT
95361059 TTCAA
1 TTCAA
95361064 GTGTTTTGTT
Statistics
Matches: 49, Mismatches: 16, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
15 10 0.20
16 29 0.59
17 10 0.20
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
TTCAAAATTATGCATT
Found at i:95361013 original size:32 final size:32
Alignment explanation
Indices: 95360976--95361072 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
95360966 ACCTATAAGT
95360976 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
1 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
95361008 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
1 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
*
95361040 TAGTTCAAAATTATGCATTTTCAAGTGTTTTG
1 TAGTTCAAAATTATGCATTTTCAAATGTTTTG
95361072 T
1 T
95361073 TTTATTTTCT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (32 bp):
TAGTTCAAAATTATGCATTTTCAAATGTTTTG
Found at i:95361595 original size:16 final size:16
Alignment explanation
Indices: 95361570--95361610 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
95361560 AGAAAAATTA
95361570 TATTTTCTA-CCCTTC
1 TATTTTCTACCCCTTC
95361585 TATTATTCTACCCCTTC
1 TATT-TTCTACCCCTTC
*
95361602 AATTTTCTA
1 TATTTTCTA
95361611 TCTTTCCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTTCTACCCCTTC
Found at i:95363905 original size:16 final size:16
Alignment explanation
Indices: 95363884--95363915 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
95363874 TTGATTGAAG
95363884 ATAGAGAGGTTGCCTC
1 ATAGAGAGGTTGCCTC
95363900 ATAGAGAGGTTGCCTC
1 ATAGAGAGGTTGCCTC
95363916 TTTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (16 bp):
ATAGAGAGGTTGCCTC
Found at i:95366647 original size:14 final size:14
Alignment explanation
Indices: 95366628--95366657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95366618 TTATATCGAG
95366628 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
95366642 ACCAATCCAATTCA
1 ACCAATCCAAATCA
95366656 AC
1 AC
95366658 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:95370244 original size:19 final size:19
Alignment explanation
Indices: 95370199--95370244 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
95370189 AGCTTTTGCA
*
95370199 TCTGTTTCTTTCTTCTTTC
1 TCTGTTTCTTTCTTCCTTC
*
95370218 TCTTTTTCTTTCTTTCCTT-
1 TCTGTTTCTTTC-TTCCTTC
95370237 TCTGTTTC
1 TCTGTTTC
95370245 GTTTTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (19 bp):
TCTGTTTCTTTCTTCCTTC
Found at i:95371656 original size:22 final size:24
Alignment explanation
Indices: 95371607--95371656 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
95371597 GCCTTTTAGA
*
95371607 TATTGTTTGTATGGCTTTATTTTG
1 TATTGTTTGTATGGCTTTATCTTG
*
95371631 TATT-TTTGTATGG-TTTGTCTTG
1 TATTGTTTGTATGGCTTTATCTTG
95371653 TATT
1 TATT
95371657 AATTATATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.46
23 9 0.38
24 4 0.17
ACGTcount: A:0.12, C:0.04, G:0.20, T:0.64
Consensus pattern (24 bp):
TATTGTTTGTATGGCTTTATCTTG
Found at i:95378344 original size:12 final size:12
Alignment explanation
Indices: 95378327--95378353 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
95378317 ATATATGTAG
95378327 TAGTCTCTTCTT
1 TAGTCTCTTCTT
95378339 TAGTCTCTTCTT
1 TAGTCTCTTCTT
95378351 TAG
1 TAG
95378354 ACGACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (12 bp):
TAGTCTCTTCTT
Found at i:95383546 original size:13 final size:13
Alignment explanation
Indices: 95383528--95383557 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95383518 ATTTTTTTAC
*
95383528 TATTTTTGGAAAG
1 TATTTTTGAAAAG
95383541 TATTTTTGAAAAG
1 TATTTTTGAAAAG
95383554 TATT
1 TATT
95383558 ATGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTTTTGAAAAG
Found at i:95386116 original size:27 final size:27
Alignment explanation
Indices: 95386086--95386185 Score: 105
Period size: 27 Copynumber: 3.6 Consensus size: 27
95386076 GGCATTTATT
95386086 GGTGTGTT-TGGGAGGACATATTATACC
1 GGTGTGTTAT-GGAGGACATATTATACC
* * * *
95386113 GGTGTGTTATGGAGGATTTACAATATTCC
1 GGTGTGTTATGGAGGA--CATATTATACC
95386142 GGGTGTGTT-TGGGAGGACATATTATACC
1 -GGTGTGTTAT-GGAGGACATATTATACC
95386170 GGTGTGTTATGGAGGA
1 GGTGTGTTATGGAGGA
95386186 TTTACAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
27 28 0.47
28 9 0.15
29 8 0.14
30 14 0.24
ACGTcount: A:0.22, C:0.09, G:0.35, T:0.34
Consensus pattern (27 bp):
GGTGTGTTATGGAGGACATATTATACC
Found at i:95386148 original size:30 final size:29
Alignment explanation
Indices: 95386113--95386211 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 29
95386103 ATATTATACC
95386113 GGTGTGTTATGGAGGATTTACAATATTCCG
1 GGTGTGTT-TGGAGGATTTACAATATTCCG
* * * *
95386143 GGTGTGTTTGGGAGGA--CATATTATACC-
1 GGTGTGTTT-GGAGGATTTACAATATTCCG
95386170 GGTGTGTTATGGAGGATTTACAATATTCCG
1 GGTGTGTT-TGGAGGATTTACAATATTCCG
95386200 GGTGTGTTTGGA
1 GGTGTGTTTGGA
95386212 TGGAATCCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
27 14 0.25
28 8 0.14
29 12 0.21
30 22 0.39
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.36
Consensus pattern (29 bp):
GGTGTGTTTGGAGGATTTACAATATTCCG
Found at i:95386149 original size:57 final size:57
Alignment explanation
Indices: 95386086--95386210 Score: 250
Period size: 57 Copynumber: 2.2 Consensus size: 57
95386076 GGCATTTATT
95386086 GGTGTGTTTGGGAGGACATATTATACCGGTGTGTTATGGAGGATTTACAATATTCCG
1 GGTGTGTTTGGGAGGACATATTATACCGGTGTGTTATGGAGGATTTACAATATTCCG
95386143 GGTGTGTTTGGGAGGACATATTATACCGGTGTGTTATGGAGGATTTACAATATTCCG
1 GGTGTGTTTGGGAGGACATATTATACCGGTGTGTTATGGAGGATTTACAATATTCCG
95386200 GGTGTGTTTGG
1 GGTGTGTTTGG
95386211 ATGGAATCCG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.21, C:0.10, G:0.34, T:0.36
Consensus pattern (57 bp):
GGTGTGTTTGGGAGGACATATTATACCGGTGTGTTATGGAGGATTTACAATATTCCG
Found at i:95388397 original size:44 final size:45
Alignment explanation
Indices: 95388349--95388434 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
95388339 GAATTATTCC
* *
95388349 TGTCTCCAATGTCATA-TATAATATGGACTTACATGGCTCAATCT
1 TGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATCT
*
95388393 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
95388435 TTTCTGTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 14 0.38
46 23 0.62
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (45 bp):
TGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAATCT
Found at i:95393108 original size:22 final size:21
Alignment explanation
Indices: 95393067--95393116 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
95393057 TTTTAAATAA
95393067 ATTTAAATAATTAATATAAAGT
1 ATTTAAATAATTAATATAAA-T
95393089 ATTTAAA-AATTTAGAT-TAAAT
1 ATTTAAATAA-TTA-ATATAAAT
*
95393110 ATATAAA
1 ATTTAAA
95393117 CATTACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.36
22 14 0.56
23 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTTAAATAATTAATATAAAT
Found at i:95393434 original size:33 final size:33
Alignment explanation
Indices: 95393394--95393460 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
95393384 TAATAAAAAT
95393394 AAATTTACTCATTAATTGAACCTACAAAAATTA
1 AAATTTACTCATTAATTGAACCTACAAAAATTA
95393427 AAATTTACTCATTAATTGAACCTACAAAAATTA
1 AAATTTACTCATTAATTGAACCTACAAAAATTA
95393460 A
1 A
95393461 CTTTTTTTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (33 bp):
AAATTTACTCATTAATTGAACCTACAAAAATTA
Found at i:95393824 original size:6 final size:6
Alignment explanation
Indices: 95393795--95393825 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
95393785 GTCCCAACCC
*
95393795 CAGCCC CAGCCT CAGCCT CAGCCT CAGCCT C
1 CAGCCT CAGCCT CAGCCT CAGCCT CAGCCT C
95393826 GGAGACCCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.55, G:0.16, T:0.13
Consensus pattern (6 bp):
CAGCCT
Found at i:95395994 original size:16 final size:16
Alignment explanation
Indices: 95395973--95396005 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95395963 AAGGAATGTG
95395973 TCTAATGACGTCTGCT
1 TCTAATGACGTCTGCT
*
95395989 TCTAATGATGTCTGCT
1 TCTAATGACGTCTGCT
95396005 T
1 T
95396006 GTTTCAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (16 bp):
TCTAATGACGTCTGCT
Found at i:95396735 original size:18 final size:18
Alignment explanation
Indices: 95396712--95396751 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
95396702 TTCAGGTAAC
*
95396712 TCTTGCTTATATTGATTG
1 TCTTGCTTATACTGATTG
95396730 TCTTGCTTATACTGATTG
1 TCTTGCTTATACTGATTG
95396748 TCTT
1 TCTT
95396752 TCCTAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (18 bp):
TCTTGCTTATACTGATTG
Found at i:95411754 original size:46 final size:46
Alignment explanation
Indices: 95411736--95411892 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
95411726 TGACAAGTGG
* * *
95411736 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
95411782 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
95411828 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
95411880 AAAGTGATAAGTG
1 AAAGTGATAAGTG
95411893 GCTACACTTA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
46 57 0.56
52 44 0.44
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:95411755 original size:52 final size:51
Alignment explanation
Indices: 95411684--95411892 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
95411674 ATCAAGTGAC
* **
95411684 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
95411736 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
95411782 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
95411833 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
95411886 ATAAGTG
1 A-AAGTG
95411893 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Done.