Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold260
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: 200848
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1443 original size:58 final size:55
Alignment explanation
Indices: 1371--1541 Score: 233
Period size: 58 Copynumber: 3.1 Consensus size: 55
1361 TATTAGTTTA
1371 TTGCCCATTGCTTCTTATTTTATTCTCCATTAACACAACATGTTTCGGATGACATGTT
1 TTGCCCA-TGCTTCTTATTTTATTCTCCATTAACACAACATGTTTC--ATGACATGTT
*
1429 TTGCCCATGCCTTCTTATTTTATTCTTCCATTAA-AC-AC--GTTTCATGACATGTC
1 TTGCCCATG-CTTCTTATTTTATTC-TCCATTAACACAACATGTTTCATGACATGTT
* * *
1482 TGGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTCCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTCCATTAACACAACATGTTTCATGACATGTT
1537 TTGCC
1 TTGCC
1542 TTCATCCATT
Statistics
Matches: 101, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
51 8 0.08
52 16 0.16
53 19 0.19
55 22 0.22
57 4 0.04
58 24 0.24
59 8 0.08
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.43
Consensus pattern (55 bp):
TTGCCCATGCTTCTTATTTTATTCTCCATTAACACAACATGTTTCATGACATGTT
Found at i:2695 original size:17 final size:17
Alignment explanation
Indices: 2661--2695 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2651 ATGGTAATTG
*
2661 TAATTATTATATTCAAT
1 TAATTATTATAATCAAT
*
2678 TAATTATTATAATGAAT
1 TAATTATTATAATCAAT
2695 T
1 T
2696 TTGATTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATTATTATAATCAAT
Found at i:12208 original size:27 final size:27
Alignment explanation
Indices: 12178--12242 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
12168 GGGCAAAACA
*
12178 GTCATTTTACCCTACAAGGGTATGTTG
1 GTCATTTTACACTACAAGGGTATGTTG
*
12205 GTCATTTTACACTACAAGGGTATTTTG
1 GTCATTTTACACTACAAGGGTATGTTG
* *
12232 ATAATTTTACA
1 GTCATTTTACA
12243 AATTAAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTTG
Found at i:12398 original size:134 final size:132
Alignment explanation
Indices: 12221--12667 Score: 436
Period size: 134 Copynumber: 3.3 Consensus size: 132
12211 TTACACTACA
* * **
12221 AGGGTATTTTGATAATTTTACAAATTAAGGATATTTCGATAATTTTAAAATTGAGGGTATTTTAT
1 AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAATAATTTTAAAATTGAGGGTATTTTA-
* * * * * * *
12286 TAATTTTATAAATCGAGGGTGTTTCGGTAATTTTACAAATTGAGGGTGTTTCGATAATTTCACAA
65 TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAA
*
12351 ATT
130 ATC
** * * * *
12354 ATGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAATAATTTCACAATCGAGGGTATTTCG
1 A-GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAATAATTTTAAAATTGAGGGTATTT-T
* * *
12419 ATAATTCTACAAAT-TAGAGGTATTTCGATAATTTTACAAATCG-GGAGTATTTCGGTAATTTTA
64 ATAATTTTACAAATCAAG-GGTATTTCGATAATTTTACAAATCGAGG-GTATTTCGATAATTTTA
12482 CAAATC
127 CAAATC
* * * ** *
12488 GAAGGTGTTTTGGTAATTTTACAAATTAAGGGTGTTTTGGTAATTTTACAAA-TCAGGGGTA-TT
1 -AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAATAATTTTA-AAATTGA-GGGTATTT
* ** *
12551 TAGGTAATTTTACAAATCAAGGATATTTTAATAATTTCAC-AATCGAGGGTATTTCGATAATTTT
63 TA--TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTT
12615 ACAAATC
126 ACAAATC
* * * * *
12622 GGGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTTAGTAATTT
1 -AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAATAATTT
12668 CTCTTTATCA
Statistics
Matches: 258, Mismatches: 45, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
133 6 0.02
134 212 0.82
135 38 0.15
136 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (132 bp):
AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAATAATTTTAAAATTGAGGGTATTTTAT
AATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAA
TC
Found at i:12659 original size:161 final size:160
Alignment explanation
Indices: 12193--12668 Score: 577
Period size: 161 Copynumber: 3.0 Consensus size: 160
12183 TTTACCCTAC
* * * * * *
12193 AAGGGTATGTTGGTCATTTTAC-ACTACAAGGGTATTTTGATAATTTTACAAATTAAGGATATTT
1 AAGGGTATTTTGGTAATTTTACAAAT-CGAGGGTATTTAGATAATTTTACAAATCAAGGATATTT
* * * * * *
12257 CGATAATTTTAAAATTGAGGGTATTT-TATTAATTTTATAAATCGAGGGTGTTTCGGTAATTTTA
65 CGATAATTTCACAA-TGAGGGTATTTCGA-TAATTTTACAAATCGGGGGTATTTCGGTAATTTTA
* *
12321 CAAATTGAGGGTGTTTCGATAATTTCACAAATT
128 CAAATTGAGGGTGTTTTGGTAATTTCACAAATT
* * * *
12354 ATGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTA-ATAATTTCAC-AATCGAGGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTA-TTTAGATAATTTTACAAATCAAGGATATTT
* *
12417 CGATAA-TTCTACAAATTAGAGGTATTTCGATAATTTTACAAATCGGGAGTATTTCGGTAATTTT
65 CGATAATTTC-AC-AATGAG-GGTATTTCGATAATTTTACAAATCGGGGGTATTTCGGTAATTTT
* * *
12481 ACAAATCGAAGGTGTTTTGGTAATTTTACAAATT
127 ACAAATTGAGGGTGTTTTGGTAATTTCACAAATT
* *
12515 AAGGGTGTTTTGGTAATTTTACAAATC-AGGGGTATTTAGGTAATTTTACAAATCAAGGATATTT
1 AAGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTAGATAATTTTACAAATCAAGGATATTT
**
12579 TAATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCGGTAATTTTAC
65 CGATAATTTCACAAT-GAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCGGTAATTTTAC
*
12644 AAATTGAGGGTGTTTTAGTAATTTC
129 AAATTGAGGGTGTTTTGGTAATTTC
12669 TCTTTATCAT
Statistics
Matches: 267, Mismatches: 37, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
159 2 0.01
160 26 0.10
161 210 0.79
162 26 0.10
163 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (160 bp):
AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTAGATAATTTTACAAATCAAGGATATTTC
GATAATTTCACAATGAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCGGTAATTTTACAA
ATTGAGGGTGTTTTGGTAATTTCACAAATT
Found at i:12664 original size:27 final size:27
Alignment explanation
Indices: 12194--12667 Score: 397
Period size: 27 Copynumber: 17.7 Consensus size: 27
12184 TTACCCTACA
* * * *
12194 AGGGTATGTTGGTCATTTTAC-ACTACA
1 AGGGTATTTTGGTAATTTTACAAAT-CG
* **
12221 AGGGTATTTTGATAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * *
12248 AGGATATTTCGATAATTTTA-AAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
** *
12274 AGGGTATTTTATTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
12301 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * * *
12328 AGGGTGTTTCGATAATTTCACAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
12354 ATGGGTATTTTGGTAATTTTACAAATCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
** *
12382 AGGGTATTTTAATAATTTCAC-AATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * *
12408 AGGGTATTTCGATAATTCTACAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
12434 AGAGGTATTTCGATAATTTTACAAATCG
1 AG-GGTATTTTGGTAATTTTACAAATCG
*
12462 -GGAGTATTTCGGTAATTTTACAAATCG
1 AGG-GTATTTTGGTAATTTTACAAATCG
* * **
12489 AAGGTGTTTTGGTAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTACAAATCG
*
12516 AGGGTGTTTTGGTAATTTTACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
12542 AGGGGTATTTAGGTAATTTTACAAATCA
1 A-GGGTATTTTGGTAATTTTACAAATCG
* ** *
12570 AGGATATTTTAATAATTTCAC-AATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
12596 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
12623 GGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
12650 AGGGTGTTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
12668 CTCTTTATCA
Statistics
Matches: 371, Mismatches: 64, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
26 69 0.19
27 297 0.80
28 5 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:21243 original size:17 final size:18
Alignment explanation
Indices: 21215--21248 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21205 AGTGTAAAAG
21215 TAGTGTTCTAATAGCTAA
1 TAGTGTTCTAATAGCTAA
21233 TAGTG-TCTAATAGCTA
1 TAGTGTTCTAATAGCTA
21249 CGGAATCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (18 bp):
TAGTGTTCTAATAGCTAA
Found at i:25729 original size:45 final size:45
Alignment explanation
Indices: 25622--25737 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 45
25612 AGGAGGAAGA
* * * *
25622 ATTGGTGGCTTCGTCCACAACTTACATGACAGTTTGTTTGCAAAT
1 ATTGGTGGCTTCTTCCACAACCTACATGACAGCTTGTCTGCAAAT
* *
25667 -TTTGTGG-TT-TATCCACAACCTACA-GAATAGCTTGTCTGCAAAT
1 ATTGGTGGCTTCT-TCCACAACCTACATG-ACAGCTTGTCTGCAAAT
25710 ATTGGTGGCTTCTTCCACAACCTACATG
1 ATTGGTGGCTTCTTCCACAACCTACATG
25738 GTGGTTTATC
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
42 1 0.02
43 28 0.48
44 12 0.21
45 15 0.26
46 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (45 bp):
ATTGGTGGCTTCTTCCACAACCTACATGACAGCTTGTCTGCAAAT
Found at i:25796 original size:68 final size:68
Alignment explanation
Indices: 25670--25796 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
25660 TGCAAATTTT
** **
25670 GTGGTTTATCCACAACCTACAGAATAGCTTGTCTGCAAATATTGGTGGCTTCTTCCACAACCTAC
1 GTGGTTTATCCACAACCTACAGAATAGCTTGTCTGCAAATATTGGTCACTTCAACCACAACCTAC
25735 ATG
66 ATG
* *
25738 GTGGTTTATCCACAACCTACATGGCA-A-CTTGTCTGCAAATTTTGGTCACTTCAACCACA
1 GTGGTTTATCCACAACCTACA--GAATAGCTTGTCTGCAAATATTGGTCACTTCAACCACA
25797 TATATTTGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
68 48 0.94
69 1 0.02
70 2 0.04
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (68 bp):
GTGGTTTATCCACAACCTACAGAATAGCTTGTCTGCAAATATTGGTCACTTCAACCACAACCTAC
ATG
Found at i:33862 original size:30 final size:33
Alignment explanation
Indices: 33828--33894 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
33818 TTCTGTTTTA
33828 ATTATTATTT-ACCTAAAACTCTTTTAAATAATT
1 ATTATTATTTAACCTAAAACTCTTTTAAATAA-T
* *
33861 ATTATTATTTAATCTAAAACTCTTTTAAAGAAT
1 ATTATTATTTAACCTAAAACTCTTTTAAATAAT
33894 A
1 A
33895 ACTAAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.46
Consensus pattern (33 bp):
ATTATTATTTAACCTAAAACTCTTTTAAATAAT
Found at i:34879 original size:29 final size:29
Alignment explanation
Indices: 34841--34904 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
34831 ACGGTCAGGT
*
34841 CACACGCCCATGGGGCTGACCGTGTGTCA
1 CACACGCCCATGGGGCTGACCATGTGTCA
34870 CACACGCCCATGGGGCTGACCATGTGTCA
1 CACACGCCCATGGGGCTGACCATGTGTCA
34899 CACACG
1 CACACG
34905 GCCTACACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.20, C:0.36, G:0.28, T:0.16
Consensus pattern (29 bp):
CACACGCCCATGGGGCTGACCATGTGTCA
Found at i:35647 original size:292 final size:289
Alignment explanation
Indices: 35123--35682 Score: 1003
Period size: 292 Copynumber: 1.9 Consensus size: 289
35113 GGCACTCCAC
**
35123 ACCAATTTCATATCCAATCAACATTATTAATCTACTCTCAATTCACACATTTAAATTATGATCAT
1 ACCAATTTCATATCCAATCAACATTATTAATCTACTCTCAATTCACACATTTAAACCATGATCAT
* *
35188 AGCCATACCAATTTGTCATCATCCATTCATCATACTTGTATTCCATATAACACCATCCATTATCA
66 AGCCATACCAATTTGTCATCATCCATTCATCATACTTGTATGCCATATAACACCATCCATCATCA
* *
35253 TCAAGACTTTGACACATGCATGCATAAATAATTAGGTTTACAACCCAATAGTCAATATGAACCAT
131 TCAAGACATTGACACATGCATGCATAAATAATTAGGTTTACAACCCAATAATCAATATGAACCAT
35318 ATCTCATGGCCATATACAAAATGAATCATCAAATCATTATAAGCCAACACACTTGGCCAAATTAA
196 ATCTCATGGCCATATACAAAATGAATCATCAAATCATTATAAGCCAACACACTT-GCCAAATT-A
35383 TATGACACATACTCAAATTAACAAGCTTACTT
259 -ATGACACATACTCAAATTAACAAGCTTACTT
35415 ACCAATTTCATATCCAATCAACATTATTAATCTACTCTCAATTCACACATTTAAACCATGATCAT
1 ACCAATTTCATATCCAATCAACATTATTAATCTACTCTCAATTCACACATTTAAACCATGATCAT
35480 AGCCATACCAATTTGTCATCATCCATTCATCATACTTGTATGCCATATAACACCATCCATCATCA
66 AGCCATACCAATTTGTCATCATCCATTCATCATACTTGTATGCCATATAACACCATCCATCATCA
* *
35545 TTAAGACATTGACACATGCATGCATAAATAATTAGGTTTACAACCTAATAATCAATATGAACCAT
131 TCAAGACATTGACACATGCATGCATAAATAATTAGGTTTACAACCCAATAATCAATATGAACCAT
* *
35610 ATCTCATGGCCATATACAAAATGAATCATCAAATCATTATAAGCCAACACGCTTGCTAAATTAAT
196 ATCTCATGGCCATATACAAAATGAATCATCAAATCATTATAAGCCAACACACTTGCCAAATTAAT
35675 GACACATA
261 GACACATA
35683 AACAAAAAGA
Statistics
Matches: 258, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
289 10 0.04
290 1 0.00
291 7 0.03
292 240 0.93
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (289 bp):
ACCAATTTCATATCCAATCAACATTATTAATCTACTCTCAATTCACACATTTAAACCATGATCAT
AGCCATACCAATTTGTCATCATCCATTCATCATACTTGTATGCCATATAACACCATCCATCATCA
TCAAGACATTGACACATGCATGCATAAATAATTAGGTTTACAACCCAATAATCAATATGAACCAT
ATCTCATGGCCATATACAAAATGAATCATCAAATCATTATAAGCCAACACACTTGCCAAATTAAT
GACACATACTCAAATTAACAAGCTTACTT
Found at i:36303 original size:42 final size:44
Alignment explanation
Indices: 36200--36409 Score: 144
Period size: 48 Copynumber: 4.7 Consensus size: 44
36190 CAATGTCATA
* *
36200 TCCCAAATATGGTCTTACATGGGATCACATATCGATGCCGATAG
1 TCCCAAACATGGTCTTACACGGGATCACATATCGATGCCGATAG
* *
36244 -CCC-AACTATGGTCTTACACGATG-TCTCATATCGATGCC-AT-G
1 TCCCAAAC-ATGGTCTTACACG-GGATCACATATCGATGCCGATAG
* ** *
36285 TCCCAAACATGGTCTTACAAGAAATCACATATAGATGCCAATGCCATA-
1 TCCCAAACATGGTCTTACACGGGATCACATATCGATGCC---G--ATAG
* * * * *
36333 TCCCATATATGGTCTTACATGGGATCACATATCGGTGCCAATGCCATG
1 TCCCAAACATGGTCTTACACGGGATCACATATCGATGCCGAT---A-G
* *
36381 TCCCAGACATGGTCTTACATGGGATCACA
1 TCCCAAACATGGTCTTACACGGGATCACA
36410 CATAACCCTA
Statistics
Matches: 130, Mismatches: 19, Indels: 30
0.73 0.11 0.17
Matches are distributed among these distances:
41 1 0.01
42 32 0.25
43 34 0.26
44 1 0.01
46 1 0.01
48 61 0.47
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
TCCCAAACATGGTCTTACACGGGATCACATATCGATGCCGATAG
Found at i:36400 original size:48 final size:48
Alignment explanation
Indices: 36277--36409 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
36267 TCTCATATCG
* **
36277 ATGCCATGTCCCAAACATGGTCTTACAAGAAATCACATATAGATGCCA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATAGATGCCA
* * * * *
36325 ATGCCATATCCCATATATGGTCTTACATGGGATCACATATCGGTGCCA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATAGATGCCA
*
36373 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCCAAACATGGTCTTACATGGGATCACA
36410 CATAACCCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATAGATGCCA
Found at i:44836 original size:15 final size:15
Alignment explanation
Indices: 44816--44846 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44806 AAATATGAAA
44816 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
44831 GATATGTTTTGTATT
1 GATATGTTTTGGATT
44846 G
1 G
44847 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:47269 original size:46 final size:50
Alignment explanation
Indices: 47212--47317 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 50
47202 GGACAGGACA
* * *
47212 AGACAGAAATGAGCAATGTAAGTCCATA-T-CA-A-ATATATGGCTTTGG
1 AGACAGGAATGAGCAATGTAAGCCCATATTACATATATATATGGCATTGG
* *
47258 AGACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGG
1 AGACAGGAATGAGCAATGTAAGCCCATATTACATATATATATGGCATTGG
47308 AGACAGGAAT
1 AGACAGGAAT
47318 AATTCATGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 25 0.49
47 1 0.02
48 1 0.02
49 1 0.02
50 23 0.45
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.25
Consensus pattern (50 bp):
AGACAGGAATGAGCAATGTAAGCCCATATTACATATATATATGGCATTGG
Found at i:57110 original size:26 final size:27
Alignment explanation
Indices: 57062--57113 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57052 CTCGCTGCAA
57062 TCTGGTGGACTCGCCACATATATCTGT
1 TCTGGTGGACTCGCCACATATATCTGT
*
57089 TCTGGT-GACTTCGTCACA-ATATCTG
1 TCTGGTGGAC-TCGCCACATATATCTG
57114 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGACTCGCCACATATATCTGT
Found at i:65954 original size:93 final size:93
Alignment explanation
Indices: 65846--66016 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
65836 GCCCCTAAGT
* * * * *
65846 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCACCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCACCCATAAGTGAACTCAGACCCAACTCAA
65911 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
65939 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAGGTGAACTCAGACCCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCACCCATAAGTGAACTCAGACCCAACTCAA
66004 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66017 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCACCCATAAGTGAACTCAGACCCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66470 original size:30 final size:30
Alignment explanation
Indices: 66436--66495 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
66426 ATTTAATACG
66436 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
66466 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
66496 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71537 original size:40 final size:39
Alignment explanation
Indices: 71466--71601 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 39
71456 AAACCAAGTA
* * *
71466 CCTTCGGGATTTAGCCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
71505 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCC-GGATATAGTAACTCGCACAAATG
* *
71545 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
*
71585 CCTTTGAGGACTTAGCC
1 CCTTCG-GGACTTAGCC
71602 CGGTTATCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
39 16 0.19
40 61 0.71
41 9 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:79428 original size:40 final size:40
Alignment explanation
Indices: 79358--79493 Score: 208
Period size: 38 Copynumber: 3.5 Consensus size: 40
79348 AAACCAAGTA
* * *
79358 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
79397 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
79437 CCTTC--GACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
79475 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79494 TTATCATCCG
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
38 38 0.42
39 14 0.16
40 38 0.42
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84005 original size:40 final size:39
Alignment explanation
Indices: 83948--84125 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 39
83938 CGGTTTTAGT
* *
83948 AACTCACAC-AATGCCTTCGGGACATAACCCGGATTTAA
1 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
*
83986 CAACTCGCACGACTGCCTTCGGGACTTAACCCGGATTTAA
1 -AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
84026 TAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 -AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
* *
84066 TACTC-CAAC-AATGCCTTCGGGACTTAACCCGGATTTAGT
1 AACTCGC-ACGAATGCCTTCGGGACTTAACCCGGATTTA-A
* * *
84105 ATCTCGCACAAAGGCCTTCGG
1 AACTCGCACGAATGCCTTCGG
84126 ATCTAATCCG
Statistics
Matches: 124, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
38 29 0.23
39 19 0.15
40 76 0.61
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (39 bp):
AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
Found at i:84111 original size:78 final size:79
Alignment explanation
Indices: 83920--84125 Score: 260
Period size: 78 Copynumber: 2.6 Consensus size: 79
83910 TCCTCGTTCA
* * * *
83920 AATGCCTTC-GGACAT-AGCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGATT
83983 TAACAACTCGCACG
66 TAACAACTCGCACG
* * *
83997 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACATAACCCGGAT
*
84062 TTAA-TACTC-CAAC-
65 TTAACAACTCGC-ACG
* *
84075 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGG
84126 ATCTAATCCG
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
77 8 0.07
78 52 0.46
79 24 0.21
80 28 0.25
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:90237 original size:40 final size:40
Alignment explanation
Indices: 90139--90401 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
90129 TCCTCGTTCA
* * * * *
90139 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
90178 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
90218 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
90258 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
90298 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
90338 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
90378 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
90402 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:92206 original size:63 final size:63
Alignment explanation
Indices: 92115--92310 Score: 234
Period size: 63 Copynumber: 3.1 Consensus size: 63
92105 ATATGCCTTG
* * * * * *
92115 GCCGTGTGGTTTTTA-ACCACAAACAGTGAGTTACATAGCCTGGGCACATGCTTGTGTCCCTG
1 GCCGTATGGTTTTTATACCTCAAAAAGTGAGTTACATGGCCTGGGCACATGCTCGTGTCCCTA
* *
92177 GCCGTATGGTTTTTATACCTCAAATAGTGAGTTACATGGCCTGGGCACATGCCCGTGTCCCTA
1 GCCGTATGGTTTTTATACCTCAAAAAGTGAGTTACATGGCCTGGGCACATGCTCGTGTCCCTA
* * * * * * *
92240 ACCATGTGGTTTTTGTA-CTACAAAAAGTGAGTTATACGGCCTGGGCAAATGCTCGTGTCCCTA
1 GCCGTATGGTTTTTATACCT-CAAAAAGTGAGTTACATGGCCTGGGCACATGCTCGTGTCCCTA
92303 GCCGTATG
1 GCCGTATG
92311 AACCATGCAC
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
62 16 0.14
63 97 0.86
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (63 bp):
GCCGTATGGTTTTTATACCTCAAAAAGTGAGTTACATGGCCTGGGCACATGCTCGTGTCCCTA
Found at i:92993 original size:23 final size:23
Alignment explanation
Indices: 92967--93020 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
92957 AAAGGATAGA
92967 AAAAGAATAAAAAAAATAAAGA-G
1 AAAAGAA-AAAAAAAATAAAGAGG
** *
92990 AAAAGAAGGAAAAAATATAGAGG
1 AAAAGAAAAAAAAAATAAAGAGG
93013 AAAAGAAA
1 AAAAGAAA
93021 TATGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (23 bp):
AAAAGAAAAAAAAAATAAAGAGG
Found at i:93002 original size:22 final size:23
Alignment explanation
Indices: 92977--93019 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
92967 AAAAGAATAA
92977 AAAAAATAAAGA-GAAAAGAAGG
1 AAAAAATAAAGAGGAAAAGAAGG
*
92999 AAAAAATATAGAGGAAAAGAA
1 AAAAAATAAAGAGGAAAAGAA
93020 ATATGGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (23 bp):
AAAAAATAAAGAGGAAAAGAAGG
Found at i:93056 original size:40 final size:40
Alignment explanation
Indices: 93012--93091 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
93002 AAATATAGAG
*
93012 GAAAAGAAATATGGAAAAATAACTAACGTTAATTATTAAT
1 GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
*
93052 GAAAAGAAATATGGAAAAAGAACTAAGGTTAATTATTAAT
1 GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
93092 TAACTTCCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.55, C:0.04, G:0.15, T:0.26
Consensus pattern (40 bp):
GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
Found at i:96402 original size:28 final size:28
Alignment explanation
Indices: 96337--96435 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
96327 CATGAGATTG
* * *
96337 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
96366 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
96394 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
96422 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
96436 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:102795 original size:20 final size:20
Alignment explanation
Indices: 102764--102842 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 20
102754 ATTGCTGTGA
*
102764 TACTTATGGCTTTGTGCCAC
1 TACTGATGGCTTTGTGCCAC
* * *
102784 TATTGGTGGCTTTGTGCCGC
1 TACTGATGGCTTTGTGCCAC
* * *
102804 TACTGATGGCTTCGAGCCGC
1 TACTGATGGCTTTGTGCCAC
* *
102824 TACTCATGGATTTGTGCCA
1 TACTGATGGCTTTGTGCCA
102843 TATACTAATA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (20 bp):
TACTGATGGCTTTGTGCCAC
Found at i:102879 original size:25 final size:26
Alignment explanation
Indices: 102851--102899 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
102841 CATATACTAA
*
102851 TACTGGCAGC-TTGCTGCGTTATTGT
1 TACTGGCAGCTTTGCTGCGATATTGT
102876 TACTGGCAGCTTTGCTGCGATATT
1 TACTGGCAGCTTTGCTGCGATATT
102900 TTTGTGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTGT
Found at i:108135 original size:122 final size:120
Alignment explanation
Indices: 107920--108143 Score: 315
Period size: 122 Copynumber: 1.9 Consensus size: 120
107910 CACAATAACA
* * *
107920 ATGAGAATGAGAATAGAGATGTAATGGGTCTGAGGTTTTCCTAATCTCAATTTAACACGAAATGT
1 ATGAGAATAAGAATAGAGATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACGAAATGT
* *
107985 ATGATAACTAACCTAGGCATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
* * ** *
108040 ATGAGAATAAGCATAGTA-ATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACATGAAA
1 ATGAGAATAAGAATAG-AGATGTAATGGGTATGAGGTGTTCCTAAT--CTCAATTTAACACGAAA
*
108104 TGTATGATAATTAACCTAAGAATGCAAATTAAATGATAGA
63 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
108144 AAAATGAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
120 38 0.42
121 1 0.01
122 51 0.57
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAGATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACGAAATGT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
Found at i:114929 original size:14 final size:16
Alignment explanation
Indices: 114903--114934 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
114893 TTTTTATAGT
114903 AATAACAATAAAA-AA
1 AATAACAATAAAAGAA
114918 AATAAC-ATAAAAGAA
1 AATAACAATAAAAGAA
114933 AA
1 AA
114935 CTAAATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AATAACAATAAAAGAA
Found at i:117899 original size:6 final size:6
Alignment explanation
Indices: 117881--117962 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
117871 AAGAAACATT
*
117881 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
117930 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
117963 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 4 0.06
6 49 0.79
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:117925 original size:31 final size:31
Alignment explanation
Indices: 117890--117962 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
117880 TATCAGAACT
*
117890 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
117921 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
117952 AAAATCAGAAT
1 AGAATCAGAAT
117963 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:122952 original size:43 final size:41
Alignment explanation
Indices: 122799--122953 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 41
122789 TGTTATCATA
122799 TAAGACCACA-TCTGGGATGTTGGCATCAACTTATGATTTACGTG
1 TAAGACCA-AGTCTGGGATGTTGGCATCAA-TT-TGA-TTACGTG
* * * * * **
122843 TAAAACCACGTCTGGGACGTTGACATTAGATTTGATTTTGTG
1 TAAGACCAAGTCTGGGATGTTGGCATCA-ATTTGATTACGTG
** * *
122885 TAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTACATG
1 TAAGACCAAGTCTGGGA-TGTTGGCATC-A-ATTTGATTACGTG
122928 TAAGACCAAGTCTGGGATGTTGGCAT
1 TAAGACCAAGTCTGGGATGTTGGCAT
122954 TGTACGAGCT
Statistics
Matches: 86, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 25 0.29
43 36 0.42
44 24 0.28
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TAAGACCAAGTCTGGGATGTTGGCATCAATTTGATTACGTG
Found at i:123711 original size:10 final size:10
Alignment explanation
Indices: 123671--123713 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
123661 TTTTGAAACA
*
123671 TATGCTTTGG
1 TATGATTTGG
123681 TATGATTTTGG
1 TATGA-TTTGG
123692 TATAGATTTGG
1 TAT-GATTTGG
123703 TATGATTTGG
1 TATGATTTGG
123713 T
1 T
123714 TGGTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 12 0.40
11 16 0.53
12 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (10 bp):
TATGATTTGG
Found at i:124186 original size:42 final size:42
Alignment explanation
Indices: 124127--124265 Score: 179
Period size: 42 Copynumber: 3.3 Consensus size: 42
124117 CCAGGCTAGA
* * * * * * *
124127 CACACAGGCGTGTCTAAAGTCATGTGTGACATATGGCCTGTT
1 CACACGGGTGTGTCTAAAGCCGTGTGTGACACACGACCTGTT
*
124169 CACACGGGTGTGTCTAAAGCCGCGTGTGACACACGACCTGTT
1 CACACGGGTGTGTCTAAAGCCGTGTGTGACACACGACCTGTT
*
124211 CACACGGGTGTGTCTAAAGCCGTGTGTGACACACAACCTGTT
1 CACACGGGTGTGTCTAAAGCCGTGTGTGACACACGACCTGTT
* *
124253 CAGACTGGTGTGT
1 CACACGGGTGTGT
124266 GGCTTGTAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (42 bp):
CACACGGGTGTGTCTAAAGCCGTGTGTGACACACGACCTGTT
Found at i:131719 original size:16 final size:16
Alignment explanation
Indices: 131700--131730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
131690 CTTCTTCACT
131700 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
131716 TACTTACTTACTTAA
1 TACTCACTTACTTAA
131731 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:131736 original size:20 final size:20
Alignment explanation
Indices: 131697--131736 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
131687 AAACTTCTTC
* *
131697 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
131717 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
131737 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:132112 original size:108 final size:110
Alignment explanation
Indices: 131968--132165 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 110
131958 ATCCTTTTGA
* *
131968 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTACCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTA-GAAACCTCACCAA
132031 -TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** * *
132076 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTAGAAACCTCACCAAT
*
132141 TGCCATGCCTTGGCATGGTCTTACA
66 TACCATGCCTTGGCATGGTCTTACA
132166 CGGTATCCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 24 0.30
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTAGAAACCTCACCAAT
TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:132175 original size:55 final size:54
Alignment explanation
Indices: 131921--132175 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 54
131911 ACGCGGGCAC
* *
131921 CTTACC-ATTGCCATGACC-TGCCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATG-CCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
131970 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTACCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
132023 CTCACCAA-TACCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
132078 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
132131 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
132176 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
48 1 0.01
49 37 0.22
52 4 0.02
53 42 0.25
54 12 0.07
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:139306 original size:16 final size:16
Alignment explanation
Indices: 139287--139317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
139277 CTTCTTCACT
139287 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
139303 TACTTACTTACTTAA
1 TACTCACTTACTTAA
139318 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:139323 original size:20 final size:20
Alignment explanation
Indices: 139284--139323 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
139274 AAACTTCTTC
* *
139284 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
139304 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
139324 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:139637 original size:53 final size:54
Alignment explanation
Indices: 139555--139761 Score: 206
Period size: 55 Copynumber: 3.8 Consensus size: 54
139545 ATCATTTTGT
* * *
139555 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA
* * * * *
139608 AACTCACCAATGCCATGCCTCGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GA
* * * * *
139663 AACTTATCAATGCCATGTCTTGACATGTTCTTACATGATTTCCTTGCCTTA-GA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA
* * *
139716 AACCTTACCAATTGCCATGCCATGGCATGG-CTTACACGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
139762 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 46 0.37
54 21 0.17
55 53 0.43
56 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA
Found at i:139708 original size:108 final size:109
Alignment explanation
Indices: 139553--139751 Score: 280
Period size: 108 Copynumber: 1.8 Consensus size: 109
139543 GTATCATTTT
* *
139553 GTAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACC
1 GTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACC
139616 AA-TGCCATGCC-TCGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCAT-GGCATGG-CTTACATGGGACCTTTGCCTTATA
* * ** *
139661 GTAACTTATCAATGCCATGTCTTGACATGTTCTTACATGATTTCCTTGCCTTAGAAACCTTACCA
1 GTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCA
139726 ATTGCCATGCCATGGCATGGCTTACA
66 ATTGCCATGCCATGGCATGGCTTACA
139752 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
107 1 0.01
108 49 0.61
109 13 0.16
110 16 0.20
111 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (109 bp):
GTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCATGGCATGGCTTACATGGGACCTTTGCCTTATA
Found at i:143311 original size:47 final size:47
Alignment explanation
Indices: 143252--143489 Score: 334
Period size: 47 Copynumber: 5.1 Consensus size: 47
143242 TTAGGATTTT
* ** * * *
143252 ATGTCATGAATGTGAATGTGTATATATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
143299 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
143346 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
143393 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
143440 ATGTGATGAACGTGGAA-GTGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
143487 ATG
1 ATG
143490 CGAAGTGTGT
Statistics
Matches: 173, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 170 0.98
48 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:143736 original size:563 final size:562
Alignment explanation
Indices: 142935--144052 Score: 2121
Period size: 563 Copynumber: 2.0 Consensus size: 562
142925 GTGGTTATGT
142935 TGTAAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTC
1 TGTAAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTC
143000 TAAATTGTGATATTACAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGAA
66 TAAATTGTGATATTACAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGAA
143065 ATTGTAAGTTTATAAGTTTTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTGG
131 ATTGTAAGTTTATAAGTTTTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTGG
143130 AAAATGATAGATGTAGATTCAGCCAAGACAAAGTGTATACATGAAAGTATATGTGGTTTATGAAG
196 AAAATGATAGATGTAGATTCAGCCAAGACAAAGTGTATACATGAAAGTATATGTGGTTTATGAAG
143195 TATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTAGGATTTTATGTCATG
261 TATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTAGGATTTTATGTCATG
143260 AATGTGAATGTGTATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATATA
326 AATGTGAATGTGTATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATATA
143325 TGTGATAAGGCCGAATGGCTAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
391 TGTGATAAGGCCGAATGGCTAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
*
143390 CCAATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCAATGTGATGAACGTGG
456 CCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAACGT-G
* * * *
143455 AA-GTGCATATATGTGGTAAAGCCGAATGGCTAATGCGAAGTG
520 AACATGCATATATGTGATAAAGCAGAATGGCCAATGCGAAGTG
143497 TGTATAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATT
1 TGTA-AACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATT
*
143562 CTAAATTGTGATATTATAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGA
65 CTAAATTGTGATATTACAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGA
*
143627 AATTGTAAGTTTATAAGTTTTCGAATATGAAATGATAGTATGTCTTGAAATTGAATTATTCATTG
130 AATTGTAAGTTTATAAGTTTTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTG
143692 GAAAATGATAGATGTAGATTCAGCCAAGACAAAGTGTATACATGAAAGTATATGTGGTTTATGAA
195 GAAAATGATAGATGTAGATTCAGCCAAGACAAAGTGTATACATGAAAGTATATGTGGTTTATGAA
143757 GTATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTAGGATTTTATGTCAT
260 GTATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTAGGATTTTATGTCAT
143822 GAATGTGAATGTGTATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATAT
325 GAATGTGAATGTGTATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATAT
143887 ATGTGATAAGGCCGAATGGCTAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATG
390 ATGTGATAAGGCCGAATGGCTAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATG
* *
143952 GCCAATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
455 GCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTG
*
144017 AACATGCATATATGTGATAAGGCAGAATGGCCAATG
520 AACATGCATATATGTGATAAAGCAGAATGGCCAATG
144053 TGATGAACGT
Statistics
Matches: 544, Mismatches: 10, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
562 7 0.01
563 537 0.99
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (562 bp):
TGTAAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTC
TAAATTGTGATATTACAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGAA
ATTGTAAGTTTATAAGTTTTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTGG
AAAATGATAGATGTAGATTCAGCCAAGACAAAGTGTATACATGAAAGTATATGTGGTTTATGAAG
TATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATTTTGATTAGGATTTTATGTCATG
AATGTGAATGTGTATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATATA
TGTGATAAGGCCGAATGGCTAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGA
ACATGCATATATGTGATAAAGCAGAATGGCCAATGCGAAGTG
Found at i:143874 original size:47 final size:47
Alignment explanation
Indices: 143815--144093 Score: 416
Period size: 47 Copynumber: 5.9 Consensus size: 47
143805 TTAGGATTTT
* ** * * *
143815 ATGTCATGAATGTGAATGTGTATATATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
143862 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
143909 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
143956 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
144003 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
144050 ATGTGATGAACGTGGAA-GTGCATATATGTGGTAAAGCCGAATGG
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGG
144094 GTAATGCGAA
Statistics
Matches: 213, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 210 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:143915 original size:22 final size:22
Alignment explanation
Indices: 143887--144009 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
143877 ACATGCATAT
143887 ATGTGATAAGGCCGAATGGCTA
1 ATGTGATAAGGCCGAATGGCTA
* *
143909 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-TA
* *
143933 TGTGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCTA
* * *
143956 ATGTGATGAATG-TGAATATGCATA
1 ATGTGAT-AAGGCCGAAT-GGC-TA
*
143980 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCTA
144003 ATGTGAT
1 ATGTGAT
144010 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
22 25 0.34
23 15 0.20
24 16 0.22
25 18 0.24
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCTA
Found at i:144056 original size:22 final size:22
Alignment explanation
Indices: 143935--144056 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
143925 CATGCATATG
*
143935 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
143957 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
143982 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
144004 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
144029 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
144051 TGTGAT
1 TGTGAT
144057 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:144129 original size:46 final size:46
Alignment explanation
Indices: 144073--144209 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
144063 GGAAGTGCAT
*
144073 ATATGTGGTAAAGCCGAATGGGTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
144119 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * **
144165 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
144210 TGTAAATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:145748 original size:40 final size:40
Alignment explanation
Indices: 145693--145986 Score: 527
Period size: 40 Copynumber: 7.4 Consensus size: 40
145683 TGAGAGTTAT
*
145693 ATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
145733 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
145773 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
145813 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
145853 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
145893 ATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
145933 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
145973 AT-TATCCGGGCTAA
1 ATATATCCGGGCTAA
145987 ACCTCGAAGG
Statistics
Matches: 246, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
39 12 0.05
40 234 0.95
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:146104 original size:57 final size:57
Alignment explanation
Indices: 146014--146202 Score: 238
Period size: 57 Copynumber: 3.3 Consensus size: 57
146004 GCTGGAATTA
* * * * *
146014 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGTAGT
* ** *
146071 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGTAGT
* *
146128 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGT-AGT
* *
146185 TG-GGCACTGTGTATGCGA
1 TGAGGCACTATGTGTGCGA
146203 AGTGTGTTTC
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
56 14 0.12
57 99 0.87
58 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGTAGT
Found at i:146145 original size:29 final size:29
Alignment explanation
Indices: 146046--146147 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
146036 CTCCAACCGA
* * * *
146046 GCACTATGTGTGCCAAATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
** *
146075 GCACTATGTGTGCGAG-TTCTTCAATCGA-
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
*
146103 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
146132 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
146148 TTCTTTAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 23 0.38
29 37 0.62
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:146156 original size:29 final size:28
Alignment explanation
Indices: 146075--146174 Score: 130
Period size: 28 Copynumber: 3.5 Consensus size: 28
146065 AGTAGTTGAG
*
146075 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTTTAATCGA
** *
146103 GCACTATGTGTGCGAGATT-GGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTTAATCGA
146131 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATCGA
*
146160 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
146175 AATCAGTCAG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 37 0.61
29 24 0.39
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATCGA
Found at i:150038 original size:47 final size:46
Alignment explanation
Indices: 149984--150127 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 46
149974 TTAGGATTTT
* *
149984 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-GTGCATATATGTGATAAGGCCGAATGGCCA
*
150031 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-GTGCATATATGTGATAAGGCCGAATGGCCA
* * * *
150078 ATGTGATGAACGTGGAAGTGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAAGTGCATATATGTGATAAGGCCGAATGGCCA
150125 ATG
1 ATG
150128 CGAAGTGTGT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 84 0.97
48 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.26
Consensus pattern (46 bp):
ATGTGATGAATGTGAAGTGCATATATGTGATAAGGCCGAATGGCCA
Found at i:150084 original size:22 final size:22
Alignment explanation
Indices: 150013--150084 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
150003 GTATATATGA
150013 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
150035 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
150060 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
150082 GAT
1 GAT
150085 GAACGTGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:150508 original size:47 final size:47
Alignment explanation
Indices: 150454--150738 Score: 387
Period size: 47 Copynumber: 6.1 Consensus size: 47
150444 TTAGGATTTT
** * *
150454 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
150501 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
150548 ATGTGATGAATCTGAACATGCACATGTGT-ATTAA-GCCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGA-TAAGGCC-GAATGGCCA
*
150595 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
150642 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
150689 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
150736 ATG
1 ATG
150739 CGAAGTGTGT
Statistics
Matches: 213, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
46 4 0.02
47 202 0.95
48 7 0.03
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:150550 original size:470 final size:469
Alignment explanation
Indices: 149666--150557 Score: 1775
Period size: 470 Copynumber: 1.9 Consensus size: 469
149656 GTGGTTATGT
149666 TGTAAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTC
1 TGTAAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTC
149731 TAAATTGTGATATTATAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGAA
66 TAAATTGTGATATTATAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGAA
149796 ATTGTAAGTTTATAAGTATTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTGG
131 ATTGTAAGTTTATAAGTATTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTGG
149861 AAAATGATAGATGTAGATTCAGCTAAGACAAAGTGTATACATGAAAGTATATGTGGTATGTGAAG
196 AAAATGATAGATGTAGATTCAGCTAAGACAAAGTGTATACATGAAAGTATATGTGGTATGTGAAG
149926 TATATTTGGATAATTGTGATGTGAATATATGAAAATTTATATTTTGATTTAGGATTTTATGTGAT
261 TATATTTGGATAATTGTGATGTGAATATATGAAAATTTATATTTTGATTTAGGATTTTATGTGAT
149991 GAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
326 GAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
150056 ATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGGAAGTGCATATATGTGGTAAAGCCGAATG
391 ATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGGAAGTGCATATATGTGGTAAAGCCGAATG
150121 GCTAATGCGAAGTG
456 GCTAATGCGAAGTG
150135 TGTATAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATT
1 TGTA-AACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATT
150200 CTAAATTGTGATATTATAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGA
65 CTAAATTGTGATATTATAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGA
150265 AATTGTAAGTTTATAAGTATTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTG
130 AATTGTAAGTTTATAAGTATTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTG
150330 GAAAATGATAGATGTAGATTCAGCTAAGACAAAGTGTATACATGAAAGTATATGTGGTATGTGAA
195 GAAAATGATAGATGTAGATTCAGCTAAGACAAAGTGTATACATGAAAGTATATGTGGTATGTGAA
150395 GTATATTTGGATAATTGTGATGTGAATATATGAAAATTTATATTTTGATTTAGGATTTTATGTGA
260 GTATATTTGGATAATTGTGATGTGAATATATGAAAATTTATATTTTGATTTAGGATTTTATGTGA
150460 TGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA
325 TGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA
150525 TATGTGATAAGGCCGAATGGCCAATGTGATGAA
390 TATGTGATAAGGCCGAATGGCCAATGTGATGAA
150558 TCTGAACATG
Statistics
Matches: 422, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
469 4 0.01
470 418 0.99
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (469 bp):
TGTAAACATGGATAAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTC
TAAATTGTGATATTATAAAATGATATATGAGTGTTAGATGGATCTTTGATATTAAAATTTGTGAA
ATTGTAAGTTTATAAGTATTCGAATATGAAATGATAGTATGGCTTGAAATTGAATTATTCATTGG
AAAATGATAGATGTAGATTCAGCTAAGACAAAGTGTATACATGAAAGTATATGTGGTATGTGAAG
TATATTTGGATAATTGTGATGTGAATATATGAAAATTTATATTTTGATTTAGGATTTTATGTGAT
GAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGGAAGTGCATATATGTGGTAAAGCCGAATG
GCTAATGCGAAGTG
Found at i:150554 original size:22 final size:22
Alignment explanation
Indices: 150483--150554 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
150473 GTATATATGA
150483 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
150505 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
150530 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
150552 GAT
1 GAT
150555 GAATCTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:150624 original size:25 final size:25
Alignment explanation
Indices: 150595--150673 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
150585 TGAATGGCCA
150595 ATGTGATGAATGTGAATATGCATAT
1 ATGTGATGAATGTGAATATGCATAT
* * * *
150620 ATGTGAT-AAGGCCGAAT-GGC-CA-
1 ATGTGATGAATG-TGAATATGCATAT
*
150642 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAATATGCATAT
150667 ATGTGAT
1 ATGTGAT
150674 AAGGCAGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.25
23 6 0.15
24 6 0.15
25 18 0.45
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAATATGCATAT
Found at i:150695 original size:22 final size:22
Alignment explanation
Indices: 150620--150695 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
150610 ATATGCATAT
*
150620 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
150642 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
150666 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
150689 ATGTGAT
1 ATGTGAT
150696 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:150768 original size:46 final size:46
Alignment explanation
Indices: 150712--150894 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
150702 GGAAGTGTAT
* ***
150712 ATATGTGGTAAAGCCGAATGGCTAATGCGAAGTGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
*
150758 ATATGAGGTAAAGTCGAATGGCTAATGCGAAACATGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
*
150804 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
* * * * *
150850 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATG
150895 TGTAAATATA
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:152703 original size:47 final size:44
Alignment explanation
Indices: 152642--152808 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 44
152632 GTGTCGAAGC
152642 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCT-ATATCTCAAGTCGATG
* * *
152688 CCATGTCCCAGACATGGTCTTACATTAACTATCATCTCGTAGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTAT-ATCTC-AAGTCGATG
* * * *
152736 TATGTCCCAGACATGCCTTTCACTGGCT-TACGTCTCAAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATA--TCTCAA-GTCGATG
152782 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
152809 CAACAATAAC
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 45 0.45
47 45 0.45
48 8 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCTATATCTCAAGTCGATG
Found at i:154991 original size:44 final size:44
Alignment explanation
Indices: 154928--155086 Score: 168
Period size: 43 Copynumber: 3.7 Consensus size: 44
154918 TATGTGTTAT
*
154928 CGTGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGATTTA
* **
154972 CGTGTAAGACCACGTCTGGGACGTTAACATC-ATATTTGATTT-
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTA
* *
155014 TGTGTAAGACC-CTGTCTGGGACAGTT-GCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATTTGATTTA
** *
155057 AATGTAAGACCACATCTGGGATGTTGGCAT
1 CGTGTAAGACCACATCTGGGACGTTGGCAT
155087 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 39 0.40
44 29 0.30
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:155848 original size:10 final size:10
Alignment explanation
Indices: 155808--155850 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
155798 TATTGAAACA
*
155808 TATGCTTTGG
1 TATGATTTGG
155818 TATGATTTTGG
1 TATGA-TTTGG
155829 TATAGATTTGG
1 TAT-GATTTGG
155840 TATGATTTGG
1 TATGATTTGG
155850 T
1 T
155851 TGGTGAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 12 0.40
11 16 0.53
12 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (10 bp):
TATGATTTGG
Found at i:158643 original size:196 final size:196
Alignment explanation
Indices: 158309--158703 Score: 612
Period size: 196 Copynumber: 2.0 Consensus size: 196
158299 TTGAAACATT
*
158309 TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATTCATGTCAGTTTCCTTCTTGAAAACA
1 TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATCCATGTCAGTTTCCTTCTTGAAAACA
* * * * *
158374 CATTTGCACCTAATGGTGTTTGTATCTTTAGGTGGATCAATCAAGGTCCATACTTGATTATCATA
66 CATTTGCACCTAATGGTCTTTGTACCTTTAGGTGGATCAACCAAGGTCCATACCTAATTATCATA
* *
158439 CATGGATTAC-TTTCCAGGCTTCATGGCCTCCAACCATTTCTTAGAGTCCAGATCTGACATAGCC
131 CATGGATTACATTT-CAGACTTCATGGCCTCCAACCATTTCTTAAAGTCCAGATCTGACATAGCC
158503 TC
195 TC
* * * * * *
158505 TTGCAACTAACGTTGCTTTGTAAGTATGCACTTTGCCATCCATGTTAGTTTTCTTCTTGAAAACC
1 TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATCCATGTCAGTTTCCTTCTTGAAAACA
*
158570 CATTTGCACCTAATGGTCTTTGTACCTTTATGTGGATCAACCAAGGTCCATACCTAATTATCATA
66 CATTTGCACCTAATGGTCTTTGTACCTTTAGGTGGATCAACCAAGGTCCATACCTAATTATCATA
* * *
158635 CATGGATTACATTTCAGACTTGATGGCTTCCAACCATTTCTTAAAGTCTAGATCTGACATAGCCT
131 CATGGATTACATTTCAGACTTCATGGCCTCCAACCATTTCTTAAAGTCCAGATCTGACATAGCCT
158700 C
196 C
158701 TTG
1 TTG
158704 ATAGGTACTA
Statistics
Matches: 180, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
196 177 0.98
197 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (196 bp):
TTGCAACTAACCTTGCTTTGTAAGTACGCACTTTACCATCCATGTCAGTTTCCTTCTTGAAAACA
CATTTGCACCTAATGGTCTTTGTACCTTTAGGTGGATCAACCAAGGTCCATACCTAATTATCATA
CATGGATTACATTTCAGACTTCATGGCCTCCAACCATTTCTTAAAGTCCAGATCTGACATAGCCT
C
Found at i:162674 original size:52 final size:51
Alignment explanation
Indices: 162591--162708 Score: 129
Period size: 52 Copynumber: 2.4 Consensus size: 51
162581 TTAAAACTTG
* * *
162591 TTTAAATAATAAT--TTAAATTCTATTTAATTATCT-TTTATTTAAA-ACTCT
1 TTTAAATAATAATAATTAAATTATATTTAATTAT-TATTTATCTAAACA-TAT
* *
162640 TTTGAATAATAATAATTAAATTATGTTTCAATTATTATTTATCTAAACATAT
1 TTTAAATAATAATAATTAAATTATATTT-AATTATTATTTATCTAAACATAT
162692 TTTAAATAAT-ATAATTA
1 TTTAAATAATAATAATTA
162709 TTATTTATCT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
49 12 0.21
51 19 0.33
52 26 0.45
53 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (51 bp):
TTTAAATAATAATAATTAAATTATATTTAATTATTATTTATCTAAACATAT
Found at i:162709 original size:35 final size:35
Alignment explanation
Indices: 162669--162737 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
162659 ATTATGTTTC
162669 AATTATTATTTATCT-AAACATATTTTAAATAATAT
1 AATTATTATTTATCTAAAAC-TATTTTAAATAATAT
*
162704 AATTATTATTTATCTAAAACTCTTTTAAATAATA
1 AATTATTATTTATCTAAAACTATTTTAAATAATA
162738 ACTATATTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (35 bp):
AATTATTATTTATCTAAAACTATTTTAAATAATAT
Found at i:162810 original size:94 final size:94
Alignment explanation
Indices: 162703--162874 Score: 317
Period size: 94 Copynumber: 1.8 Consensus size: 94
162693 TTAAATAATA
* *
162703 TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTATATTCTATTTCCTTATTTGATAAGGA
1 TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATTTCCTTATCTGATAAGGA
162768 ATATATCAAATCCTTTTGCTTTTGAATTT
66 ATATATCAAATCCTTTTGCTTTTGAATTT
*
162797 TAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTGATAAGGA
1 TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATTTCCTTATCTGATAAGGA
162862 ATATATCAAATCC
66 ATATATCAAATCC
162875 CCTTTTTATA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (94 bp):
TAATTATTATTTATCTAAAACTCTTTTAAATAATAACTAAATTCTATTTCCTTATCTGATAAGGA
ATATATCAAATCCTTTTGCTTTTGAATTT
Found at i:179616 original size:25 final size:25
Alignment explanation
Indices: 179582--179631 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
179572 TAGCCTCATT
179582 GTGTGATCTAGAAAATAATTTTAAA
1 GTGTGATCTAGAAAATAATTTTAAA
179607 GTGTGATCTAGAAAATAATTTTAAA
1 GTGTGATCTAGAAAATAATTTTAAA
179632 ACTTGTGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (25 bp):
GTGTGATCTAGAAAATAATTTTAAA
Found at i:179690 original size:17 final size:17
Alignment explanation
Indices: 179653--179692 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
179643 TATCAAAAGT
* * *
179653 ATTTACTTTAAAATGTT
1 ATTTATTTTAAAATATC
179670 ATTTATTTTAAAATATC
1 ATTTATTTTAAAATATC
179687 ATTTAT
1 ATTTAT
179693 CACAGAAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTATTTTAAAATATC
Found at i:180150 original size:40 final size:34
Alignment explanation
Indices: 180044--180139 Score: 129
Period size: 34 Copynumber: 2.8 Consensus size: 34
180034 GAAAACATTT
* * * * *
180044 TGGGCCTAAGCCTATATCAGTAGCAGTAGCAGTC
1 TGGGCCTTAGCCCATTTCAGTAACAGTAGTAGTC
180078 TGGGCCTTAGCCCATTTCAGTAACAGTAGTAGTC
1 TGGGCCTTAGCCCATTTCAGTAACAGTAGTAGTC
* *
180112 TGGGCTTTAGCCCATTTCAGTTACAGTA
1 TGGGCCTTAGCCCATTTCAGTAACAGTA
180140 ATCAGGGTAG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTTCAGTAACAGTAGTAGTC
Found at i:180575 original size:27 final size:26
Alignment explanation
Indices: 180545--180644 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 26
180535 TTTATGTTAT
*
180545 AGGGGTATTACAGTCATTTTACCCTAC
1 AGGGGTATTTC-GTCATTTTACCCTAC
* * *
180572 AGGGGTATTTCGATCATTCTATCCTAT
1 AGGGGTATTTCG-TCATTTTACCCTAC
*
180599 GGGGGTATTTCGGTCATTTTACCCTA-
1 AGGGGTATTTC-GTCATTTTACCCTAC
*
180625 TGAGGGTATTTCGGTCATTT
1 AG-GGGTATTTC-GTCATTT
180645 GATCACATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.03
27 59 0.95
28 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (26 bp):
AGGGGTATTTCGTCATTTTACCCTAC
Found at i:180668 original size:27 final size:27
Alignment explanation
Indices: 180638--180899 Score: 391
Period size: 27 Copynumber: 9.7 Consensus size: 27
180628 GGGTATTTCG
* * *
180638 GTCATTTGATCACATAAGGTCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATT
*
180665 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATT
*
180692 GTTATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
180719 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
* *
180746 TTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
*
180773 GTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
*
180800 GTCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
*
180827 GTTATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATT
* **
180854 GTCATTTTATCAGA-AAGGGCAAAAGC
1 GTCATTTTATCACATAAGGGCAAAATT
*
180880 GTCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
180900 TTTAGGTACG
Statistics
Matches: 216, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
26 23 0.11
27 193 0.89
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATT
Found at i:183356 original size:30 final size:30
Alignment explanation
Indices: 183315--183371 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
183305 TTTTTGAGCA
* * *
183315 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATAGTCATTTTACCAAAGTT
*
183345 TAGGGGCAAAATAGTTATTTTACCAAA
1 TAGGGGCAAAATAGTCATTTTACCAAA
183372 TATGGGAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTT
Found at i:183818 original size:47 final size:47
Alignment explanation
Indices: 183711--183965 Score: 138
Period size: 47 Copynumber: 5.7 Consensus size: 47
183701 ATTGTGGGCT
* *
183711 AGTGTAAGACATGTCTGGGACA-CGCATTGGCCACATT---ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG---CATTGAGATGAGAGCC
* * * *
183757 AATGCAAGTCCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAG-ACATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
* * * *
183805 AGTGTAAGACATGTCTAGGACAT-ACATCGACCTTGAGACCT-A-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGA--TGAGAGCC
* *
183851 AGTGTAAAACATGTCTGGGACAT-GCAT---C---GA-CT---A--C
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
* * * *
183885 GGTGTAAGACCATGTCTAGGACATGGCATCGAC-TTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
*
183932 AGTGTAAGACCATGTCTGAGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
183966 CCTTACCTAT
Statistics
Matches: 162, Mismatches: 26, Indels: 40
0.71 0.11 0.18
Matches are distributed among these distances:
34 8 0.05
35 13 0.08
36 5 0.03
37 1 0.01
39 1 0.01
40 2 0.01
41 2 0.01
42 1 0.01
43 1 0.01
45 5 0.03
46 45 0.28
47 57 0.35
48 21 0.13
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCC
Found at i:183900 original size:35 final size:35
Alignment explanation
Indices: 183852--183918 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
183842 ACCTAAGCCA
*
183852 GTGTAAAACATGTCTGGGACAT-GCATCGACTACG
1 GTGTAAAACATGTCTAGGACATGGCATCGACTACG
*
183886 GTGTAAGACCATGTCTAGGACATGGCATCGACT
1 GTGTAA-AACATGTCTAGGACATGGCATCGACT
183919 TGAGATGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 6 0.21
35 14 0.48
36 9 0.31
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (35 bp):
GTGTAAAACATGTCTAGGACATGGCATCGACTACG
Found at i:183921 original size:81 final size:82
Alignment explanation
Indices: 183806--183962 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 82
183796 ATGAGAGCTA
*
183806 GTGTAAGACATGTCTAGGACATACATCGACCTTGAGACCTAAGCCAGTGTAA-AACATGTCTGGG
1 GTGTAAGACATGTCTAGGACATACATCGACCTTGAGACCTAAGCCAGTGTAAGAACATGTCTGAG
183870 ACAT-GCATCGACTACG
66 ACATGGCATCGACTACG
* ** * *
183886 GTGTAAGACCATGTCTAGGACATGGCATCGA-CTTGAGATGTGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGA-CATGTCTAGGACAT-ACATCGACCTTGAGACCTAAGCCAGTGTAAGAACATGTCTG
183950 AGACATGGCATCG
64 AGACATGGCATCG
183963 GCACCTTACC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 8 0.12
81 33 0.49
82 20 0.30
83 6 0.09
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (82 bp):
GTGTAAGACATGTCTAGGACATACATCGACCTTGAGACCTAAGCCAGTGTAAGAACATGTCTGAG
ACATGGCATCGACTACG
Found at i:185828 original size:63 final size:63
Alignment explanation
Indices: 185705--185932 Score: 226
Period size: 63 Copynumber: 3.6 Consensus size: 63
185695 AACATCCTGA
* * * * * * * * *
185705 TACACGGCCTGGGCACACGCCCATATGCCTTGGCCGTGTGGTTTTTA-ACCACAAACAGTGAGT
1 TACACGGCCTGGGCACATGCTCGTGT-CCCTAGCCGTATGGTTTTTATACCTCAAAAAGTGAGT
* * * * *
185768 TACACAGCCTGGGCACACGCTTGTGTCCCTGGCCGTATGGTTTTTATACCTCAAATAGTGAGT
1 TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCGTATGGTTTTTATACCTCAAAAAGTGAGT
* * * * * *
185831 TACATGGCCTGGGCACATGCCCGTGTCCCTAACCATGTGGTTTTTGTA-CTACAAAAAGTGAGT
1 TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCGTATGGTTTTTATACCT-CAAAAAGTGAGT
* *
185894 TATACGGCCTGGGCAAATGCTCGTGTCCCTAGCCGTATG
1 TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCGTATG
185933 AACCATGCAC
Statistics
Matches: 136, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
62 20 0.15
63 116 0.85
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.27
Consensus pattern (63 bp):
TACACGGCCTGGGCACATGCTCGTGTCCCTAGCCGTATGGTTTTTATACCTCAAAAAGTGAGT
Found at i:186616 original size:23 final size:23
Alignment explanation
Indices: 186590--186643 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
186580 AAAGGATAGA
186590 AAAAGAATAAAAAAAATAAAGA-G
1 AAAAGAA-AAAAAAAATAAAGAGG
** *
186613 AAAAGAAGGAAAAAATATAGAGG
1 AAAAGAAAAAAAAAATAAAGAGG
186636 AAAAGAAA
1 AAAAGAAA
186644 TATGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (23 bp):
AAAAGAAAAAAAAAATAAAGAGG
Found at i:186625 original size:22 final size:23
Alignment explanation
Indices: 186600--186642 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
186590 AAAAGAATAA
186600 AAAAAATAAAGA-GAAAAGAAGG
1 AAAAAATAAAGAGGAAAAGAAGG
*
186622 AAAAAATATAGAGGAAAAGAA
1 AAAAAATAAAGAGGAAAAGAA
186643 ATATGGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (23 bp):
AAAAAATAAAGAGGAAAAGAAGG
Found at i:186679 original size:40 final size:40
Alignment explanation
Indices: 186635--186714 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
186625 AAATATAGAG
*
186635 GAAAAGAAATATGGAAAAATAACTAACGTTAATTATTAAT
1 GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
*
186675 GAAAAGAAATATGGAAAAAGAACTAAGGTTAATTATTAAT
1 GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
186715 TAACTTCCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.55, C:0.04, G:0.15, T:0.26
Consensus pattern (40 bp):
GAAAAGAAATATGGAAAAAGAACTAACGTTAATTATTAAT
Found at i:190025 original size:28 final size:28
Alignment explanation
Indices: 189960--190058 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
189950 CATGAGATTG
* * *
189960 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
189989 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
190017 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
190045 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190059 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:196418 original size:20 final size:20
Alignment explanation
Indices: 196387--196465 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 20
196377 ATTGCTGTGA
*
196387 TACTTATGGCTTTGTGCCAC
1 TACTGATGGCTTTGTGCCAC
* * *
196407 TATTGGTGGCTTTGTGCCGC
1 TACTGATGGCTTTGTGCCAC
* * *
196427 TACTGATGGCTTCGAGCCGC
1 TACTGATGGCTTTGTGCCAC
* *
196447 TACTCATGGATTTGTGCCA
1 TACTGATGGCTTTGTGCCA
196466 TATACTAATA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (20 bp):
TACTGATGGCTTTGTGCCAC
Found at i:196502 original size:25 final size:26
Alignment explanation
Indices: 196474--196522 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
196464 CATATACTAA
*
196474 TACTGGCAGC-TTGCTGCGTTATTGT
1 TACTGGCAGCTTTGCTGCGATATTGT
196499 TACTGGCAGCTTTGCTGCGATATT
1 TACTGGCAGCTTTGCTGCGATATT
196523 TTTGTGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTGT
Done.