Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 155 of 356
Found at i:49910133 original size:94 final size:93
Alignment explanation
Indices: 49909948--49910160 Score: 232
Period size: 94 Copynumber: 2.3 Consensus size: 93
49909938 TTTGTGTGCC
* ** *
49909948 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGATGATGTCTAG
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATGAT-AGAGCTAGTGTAAGACCACGTCTAG
* **
49910013 GACATGGCATCAGCATTGAGACGAGAGCT
65 GACAAGGCATCAGCACGGAGACGAGAGCT
* * *
49910042 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GAT-GTGTTAGTGTAAGACCACGTCTAG
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATGATAGAGCTAGTGTAAGACCACGTCTAG
* * *
49910105 GACAAGGCATCGGCACGGATATGTGAGAGCT
65 GACAAGGCATCAGCACGGAGA--CGAGAGCT
* *
49910136 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTTTGGGACATG
49910161 GCGTCGACCT
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 35 0.35
94 51 0.51
95 14 0.14
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCACATGATAGAGCTAGTGTAAGACCACGTCTAGG
ACAAGGCATCAGCACGGAGACGAGAGCT
Found at i:49921524 original size:16 final size:15
Alignment explanation
Indices: 49921491--49921532 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
49921481 AAATGATAAT
49921491 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
49921507 TATTCATTATAATATA
1 TATTAATTATAAT-TA
49921523 TATTAATTAT
1 TATTAATTAT
49921533 TATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:49921536 original size:19 final size:22
Alignment explanation
Indices: 49921489--49921537 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
49921479 AAAAATGATA
49921489 ATTATTAATATATAATTATATTC
1 ATTA-TAATATATAATTATATTC
49921512 ATTATAATATAT-ATTA-ATT-
1 ATTATAATATATAATTATATTC
49921531 ATTATAA
1 ATTATAA
49921538 ATTTTAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 4 0.15
22 8 0.31
23 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATAATATATAATTATATTC
Found at i:49922308 original size:25 final size:24
Alignment explanation
Indices: 49922261--49922314 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
49922251 TAGTTTTCTT
*
49922261 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAATTTCATTCAATTA
*
49922285 GTTAATTTTTCAA-TTCATTGAATTA
1 -TTAATTTTT-AATTTCATTCAATTA
49922310 TTAAT
1 TTAAT
49922315 AATTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 19 0.73
26 2 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
TTAATTTTTAATTTCATTCAATTA
Found at i:49938095 original size:21 final size:20
Alignment explanation
Indices: 49938069--49938107 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
49938059 ATATGTTTTG
49938069 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
49938090 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
49938108 ACAAGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:49941062 original size:47 final size:47
Alignment explanation
Indices: 49940984--49941583 Score: 930
Period size: 47 Copynumber: 12.6 Consensus size: 47
49940974 CCCTTCGGGA
* * * * * * *
49940984 CTTATCACATTTATACATTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941031 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941078 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941125 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941172 CTTATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGTC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941221 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941270 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49941317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941364 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941413 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49941460 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49941507 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49941556 CTTATCACATATATACACTTTCACATTC
1 CTTATCACATATATACACTTTCACATTC
49941584 CAATGAATAA
Statistics
Matches: 515, Mismatches: 32, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
47 336 0.65
49 179 0.35
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49941214 original size:96 final size:94
Alignment explanation
Indices: 49940984--49941583 Score: 930
Period size: 96 Copynumber: 6.3 Consensus size: 94
49940974 CCCTTCGGGA
* * * * * * * * *
49940984 CTTATCACATTTATACATTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49941049 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
49941078 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49941143 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
49941172 CTTATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGTCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
49941237 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941270 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49941335 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
49941364 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49941429 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
49941460 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
49941525 ACTTTCACATTCATCACATTGGTCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
49941556 CTTATCACATATATACACTTTCACATTC
1 CTTATCACATATATACACTTTCACATTC
49941584 CAATGAATAA
Statistics
Matches: 466, Mismatches: 32, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
94 180 0.39
96 241 0.52
98 45 0.10
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:49941282 original size:143 final size:142
Alignment explanation
Indices: 49940984--49941583 Score: 961
Period size: 143 Copynumber: 4.2 Consensus size: 142
49940974 CCCTTCGGGA
* * * * * * * * *
49940984 CTTATCACATTTATACATTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49941049 TTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCACA
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
49941112 TCGGCCATTAGGC
130 TTGGCCATTCGGC
*
49941125 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
49941190 ACTTCCACATTCATCACATCGGCCATTAGTCCTTATCACATATATATACACTTTCACATTCATCA
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
49941255 CATTGGCCATTCGGC
128 CATTGGCCATTCGGC
*
49941270 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49941335 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
49941400 TTGGCCATTCGGC
130 TTGGCCATTCGGC
*
49941413 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49941478 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
49941543 TTGGTCATTCGGC
130 TTGGCCATTCGGC
49941556 CTTATCACATATATACACTTTCACATTC
1 CTTATCACA-ATATACACTTTCACATTC
49941584 CAATGAATAA
Statistics
Matches: 435, Mismatches: 20, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
141 45 0.10
143 300 0.69
145 90 0.21
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
TGGCCATTCGGC
Found at i:49943211 original size:13 final size:13
Alignment explanation
Indices: 49943193--49943217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49943183 TACTAAATTT
49943193 TCATGGATTCAAA
1 TCATGGATTCAAA
49943206 TCATGGATTCAA
1 TCATGGATTCAA
49943218 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:49945702 original size:40 final size:40
Alignment explanation
Indices: 49945611--49945831 Score: 252
Period size: 40 Copynumber: 5.6 Consensus size: 40
49945601 ATCCAAGTAT
* ** *
49945611 CTTCGGGATTTAG-CCGGATATAACCACTAGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
49945649 CTTCGAGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
49945689 CTTCGGGACTTAGCCTGGATATAGTCGCTATCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
49945729 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
49945769 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
49945809 CTTCGGGACTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATA
49945832 ATTCGAATAA
Statistics
Matches: 151, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 10 0.07
39 19 0.13
40 118 0.78
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:49945787 original size:120 final size:118
Alignment explanation
Indices: 49945611--49945831 Score: 320
Period size: 120 Copynumber: 1.9 Consensus size: 118
49945601 ATCCAAGTAT
* *
49945611 CTTCGGGATTTAGCCGGATATAACCACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTCA
* *
49945676 CTAGCATAAATGCCTTCGGGACTTAGCCTGGATATAGTCGCTATCACAAATGC
66 CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTATCACAAATGC
* * * *
49945729 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCG-GATCTTAGTCCGGATATA
1 CTTCGGGAT-TTAG-CCGGATATAACAACTAGCAC-AAGGCCTTCGAG-TCTTAGCCCGGATATA
49945792 GTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATA
62 GTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATA
49945832 ATTCGAATAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 18 0.20
120 61 0.67
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTCA
CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTATCACAAATGC
Found at i:49951821 original size:17 final size:19
Alignment explanation
Indices: 49951781--49951823 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
49951771 GCCTCAATGA
*
49951781 AAATTAAAAATTGAGTTGC
1 AAATTAAAAATTGAGATGC
49951800 AAATTAAAAATTG-GAT-C
1 AAATTAAAAATTGAGATGC
49951817 AAATTAA
1 AAATTAA
49951824 CCCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 2 0.09
19 13 0.57
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (19 bp):
AAATTAAAAATTGAGATGC
Found at i:49955715 original size:671 final size:671
Alignment explanation
Indices: 49954726--49956061 Score: 2334
Period size: 671 Copynumber: 2.0 Consensus size: 671
49954716 GTTAATAGCG
* *
49954726 GAGTTAAAAGAAAAACCGTTATTAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATT
1 GAGTTAAAAGAAAAACCGTTATGAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATG
*
49954791 AGTTGCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
66 AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
*
49954856 GTTTGAGGCTCAGAAATCGATTATGTGTTCTGAGAAATTCAGAGCTTATTCCGATGATTTTGAGC
131 GTTTGAGGCTCAAAAATCGATTATGTGTTCTGAGAAATTCAGAGCTTATTCCGATGATTTTGAGC
*
49954921 GAGGATCATAGCAGCCGAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAACG
196 GAGGATCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAACG
* *
49954986 TCAGTATTGGTGGCATGGTATGAAACGAGACATTTCTGACTTTGTTTCGAACTGTTTGATATGTC
261 TCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAACTGTTTGATATATC
* * **
49955051 AATAAGTGAAAGCGGAACATCAAGTGCCTTCGGGATTACTTCATTCGATCATGATACTCGAGTGG
326 AACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTGG
49955116 AAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATGT
391 AAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATGT
**
49955181 GATCTGGGTTGTGGTTGATAGATTGAAAAAGTTGGCTCATTTTATTCCCGTACGTACGGATTATT
456 GATCTGGGTTGTGGTTGATAGATTGAAAAAGTCAGCTCATTTTATTCCCGTACGTACGGATTATT
*
49955246 CACTTGATAAGTTAGTCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTCT
521 CACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTCT
49955311 ATTGTATCGGATAGAGATCCGAGATTCACAAT-GCGATTTTGGAAGAAATTGCAAGAAGCATTGG
586 ATTGTATCGGATAGAGATCCGAGATTCAC-ATCGCGATTTTGGAAGAAATTGCAAGAAGCATTGG
*
49955375 GTACTAGGTTGCATTTAGTATT
650 GTACTAAGTTGCATTTAGTATT
* * * *
49955397 GAGTTAAAAGCAAAACCGTTATGGATGCAACAAATCCGTGAAGCTGAAAAAGTTGATAATGAATG
1 GAGTTAAAAGAAAAACCGTTATGAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATG
* *
49955462 AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTTAGAATTTTTAATTGATAGTAATGATT
66 AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
* *
49955527 GTTTGAGGTTCAAAAATCGATTATGTGTT-TCGAGAAATTCAGAGCTTATTCTGATGATTTTGAG
131 GTTTGAGGCTCAAAAATCGATTATGTGTTCT-GAGAAATTCAGAGCTTATTCCGATGATTTTGAG
* * *
49955591 CGAGGCTCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTGAAAT
195 CGAGGATCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAAC
*
49955656 GTCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAAGTGTTTGATATAT
260 GTCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAACTGTTTGATATAT
49955721 CAACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTG
325 CAACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTG
49955786 GAAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATG
390 GAAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATG
* *
49955851 TGATCTGGGTTGTGGTTGATAGATTGACAAAGTCAGCTCATTTTATTCCCGTACGTATGGATTAT
455 TGATCTGGGTTGTGGTTGATAGATTGAAAAAGTCAGCTCATTTTATTCCCGTACGTACGGATTAT
49955916 TCACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTC
520 TCACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTC
* ** *
49955981 TATTGTGTCGGATAGAGATTTGAGATTCACATCGCGGTTTTGGAAGAAATTGCAAGAAGCATTGG
585 TATTGTATCGGATAGAGATCCGAGATTCACATCGCGATTTTGGAAGAAATTGCAAGAAGCATTGG
*
49956046 GTACTAAGTTGTATTT
650 GTACTAAGTTGCATTT
49956062 TAGCACCGCT
Statistics
Matches: 629, Mismatches: 34, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
670 3 0.00
671 626 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (671 bp):
GAGTTAAAAGAAAAACCGTTATGAATGCAACAAATCCGTGAAGCTCAAAAAATTGATAATGAATG
AGTTCCAAAACGAGCACTATGTGTTTCGATAGAGGATTCAAAATTTTTAATTGATAGTAATGATT
GTTTGAGGCTCAAAAATCGATTATGTGTTCTGAGAAATTCAGAGCTTATTCCGATGATTTTGAGC
GAGGATCATAGCAGCCCAATGTCAATTCACCCGGGTAGTACGAAAATGTACAACGATCTAAAACG
TCAGTATTGGTGGCATGGTATGAAACAAGACATTTCTGACTTTGTTTCGAACTGTTTGATATATC
AACAAGTGAAAGCAGAACATCAAGTGCCTTCGGGATTACTTCAGCCGATCATGATACTCGAGTGG
AAGTGGGATCGAATCACGATGGATTTTGTATCTGGGTTGCCATTGTCTCCGAGCAAGAAAGATGT
GATCTGGGTTGTGGTTGATAGATTGAAAAAGTCAGCTCATTTTATTCCCGTACGTACGGATTATT
CACTTGATAAGTTAGCCGAATTGTATGTTTCTCAGATTGTAAGGTTACACGGGGTACCTACTTCT
ATTGTATCGGATAGAGATCCGAGATTCACATCGCGATTTTGGAAGAAATTGCAAGAAGCATTGGG
TACTAAGTTGCATTTAGTATT
Found at i:49958776 original size:45 final size:45
Alignment explanation
Indices: 49958712--49958880 Score: 183
Period size: 45 Copynumber: 3.9 Consensus size: 45
49958702 CGCACAGTAT
*
49958712 TATTCGGGTCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
*
49958756 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
*
49958802 TA-TCGGGC-TTCGAGCCTAGCAGGCGA-AATGCCGGTG-AATGA
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
** * ** *
49958843 -ATTCATGTTTTTAAACCTAGCAGGCTA-AATGCCGGTGA
1 TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
49958881 TTTGATAAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
40 1 0.01
41 8 0.07
42 33 0.31
43 17 0.16
44 10 0.09
45 38 0.35
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
Found at i:49965999 original size:20 final size:20
Alignment explanation
Indices: 49965974--49966017 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
49965964 ATTCGAGGAT
*
49965974 TATCGGAGACTTTGTCACAC
1 TATCGGAAACTTTGTCACAC
49965994 TATCGGAAACTTTGTCACAC
1 TATCGGAAACTTTGTCACAC
49966014 TATC
1 TATC
49966018 TTACTATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (20 bp):
TATCGGAAACTTTGTCACAC
Found at i:49971015 original size:48 final size:48
Alignment explanation
Indices: 49970940--49971044 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
49970930 ACACATGTAG
* * * *
49970940 GATGCCAATGCCATATCCCAGATATGGTCTTACGTGGGATCGTAGATC
1 GATGCCAATGCCATATCCCAGACATGGTATTACATGGGATAGTAGATC
* *
49970988 GATGCCAATGCCATGTCCTAGACATGGTATTACATGGGATAGTAGATC
1 GATGCCAATGCCATATCCCAGACATGGTATTACATGGGATAGTAGATC
49971036 GATGCCAAT
1 GATGCCAAT
49971045 AGCCCAACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTATTACATGGGATAGTAGATC
Found at i:49978603 original size:21 final size:21
Alignment explanation
Indices: 49978577--49978618 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49978567 CCCAAAATGT
*
49978577 ACATCGGGTATAATTCAGGAC
1 ACATCGAGTATAATTCAGGAC
*
49978598 ACATCGAGTATAATTCGGGAC
1 ACATCGAGTATAATTCAGGAC
49978619 TAAACCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (21 bp):
ACATCGAGTATAATTCAGGAC
Found at i:49980401 original size:27 final size:26
Alignment explanation
Indices: 49980353--49980404 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49980343 GCGAGGCTGC
*
49980353 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
49980379 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
49980405 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49982889 original size:49 final size:49
Alignment explanation
Indices: 49982830--49983061 Score: 230
Period size: 49 Copynumber: 4.7 Consensus size: 49
49982820 CTGGTACGCA
* * *
49982830 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* *
49982879 TAGTAACCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * * ** * *
49982928 TAGTAGCCTGTACTTAGTACTACAGACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * * * *
49982978 TAGTAGCCTACAATTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACACG
* * *
49983029 AAGTAGCCTGCATTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
49983062 TCACAATAGA
Statistics
Matches: 151, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 75 0.50
50 40 0.26
51 35 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:49990229 original size:46 final size:46
Alignment explanation
Indices: 49990179--49990354 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49990169 TGGTTGAGCA
49990179 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49990225 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49990270 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49990318 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49990355 GCTGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49990335 original size:93 final size:93
Alignment explanation
Indices: 49990176--49990347 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49990166 GGATGGTTGA
* *
49990176 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49990241 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49990269 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49990334 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49990348 CTTATGGGCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49996952 original size:93 final size:92
Alignment explanation
Indices: 49996793--49996963 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 92
49996783 GGATGGTTGA
* * *
49996793 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATACGAAAGCCCGAACTCGTTGAGTT
*
49996858 GAGTTCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
49996885 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAAAGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATACGAAAGCCCGAACTCGTTGAGT
49996950 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
49996964 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 28 0.39
93 44 0.61
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATACGAAAGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49996955 original size:46 final size:46
Alignment explanation
Indices: 49996797--49996970 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
49996787 GGTTGAGCAT
* * *
49996797 CCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAAGC
* * * * * *
49996842 CCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAAAGC
*
49996887 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAAAGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAAGC
* *
49996935 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49996971 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 27 0.26
46 40 0.39
47 32 0.31
48 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAAGC
Found at i:50000186 original size:27 final size:28
Alignment explanation
Indices: 50000141--50000219 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
50000131 AGGCTGCCAG
* *
50000141 ATAT-TGTGACGAAGTCACCAGATACAA
1 ATATGTGTGGCGAAGCCACCAGATACAA
* * * *
50000168 ATAT-TGTGGCTAGGCCACCAGAATATAT
1 ATATGTGTGGCGAAGCCACCAG-ATACAA
50000196 ATATGTGTGGCGAAGCCACCAGAT
1 ATATGTGTGGCGAAGCCACCAGAT
50000220 TACAGCGAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 17 0.40
28 10 0.24
29 15 0.36
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (28 bp):
ATATGTGTGGCGAAGCCACCAGATACAA
Found at i:50000214 original size:29 final size:28
Alignment explanation
Indices: 50000141--50000223 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 28
50000131 AGGCTGCCAG
* *
50000141 ATATTGTGACGAAGTCACCAG-ATACAA
1 ATATTGTGGCGAAGCCACCAGAATACAA
* * * *
50000168 ATATTGTGGCTAGGCCACCAGAATATAT
1 ATATTGTGGCGAAGCCACCAGAATACAA
*
50000196 ATATGTGTGGCGAAGCCACCAGATTACA
1 ATAT-TGTGGCGAAGCCACCAGAATACA
50000224 GCGAGGCTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
27 17 0.39
28 8 0.18
29 19 0.43
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (28 bp):
ATATTGTGGCGAAGCCACCAGAATACAA
Found at i:50000935 original size:27 final size:27
Alignment explanation
Indices: 50000879--50000935 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
50000869 ATAGTCATTT
*
50000879 TACCCTCTAGGGGTAAATCGGTAGTCC
1 TACCCTCTAGGGGTAAATCGGTAATCC
** *
50000906 TACCCTAC-AGGGGTATTTCGGTAATTC
1 TACCCT-CTAGGGGTAAATCGGTAATCC
50000933 TAC
1 TAC
50000936 AACTTATCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (27 bp):
TACCCTCTAGGGGTAAATCGGTAATCC
Found at i:50002325 original size:48 final size:48
Alignment explanation
Indices: 50002250--50002428 Score: 172
Period size: 48 Copynumber: 3.8 Consensus size: 48
50002240 GATGTGGTAG
* * * *
50002250 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** *
50002298 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** *
50002346 GATGCCAAT---A--TCTCA-ACTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
50002389 GATGCCAAAGCCATGTCCTAGACATGGTCTTATATGGGAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
50002429 TGCACATAAC
Statistics
Matches: 102, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.02
43 30 0.29
45 1 0.01
46 1 0.01
48 66 0.65
49 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:50019599 original size:42 final size:42
Alignment explanation
Indices: 50019551--50019659 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
50019541 GAGATTTATG
* * *
50019551 TGTAAGACCATATCTTGGATATGGCATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGATC-ACA
* * *
50019593 TGTAAGACCATAGCTGGGCTATTGGCATTGATACGAGATCACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGATCACA
* *
50019636 TTTAAGACCATATATGGGATATGG
1 TGTAAGACCATATCTGGGATATGG
50019660 GATTGGTACG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 21 0.38
43 33 0.60
44 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGATCACA
Found at i:50025206 original size:11 final size:11
Alignment explanation
Indices: 50025174--50025218 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
50025164 TTTTTAGAAC
*
50025174 ATAAAACTAGAA
1 ATAAAA-TAAAA
50025186 ATAGAAATAAAA
1 ATA-AAATAAAA
50025198 ATAAAATAAAA
1 ATAAAATAAAA
50025209 ATAAAA-AAAA
1 ATAAAATAAAA
50025219 GGAAAAGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 4 0.13
11 14 0.45
12 10 0.32
13 3 0.10
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:50025210 original size:17 final size:18
Alignment explanation
Indices: 50025174--50025215 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
50025164 TTTTTAGAAC
* *
50025174 ATAAAACTAGAAATAGAA
1 ATAAAAATAGAAATAAAA
50025192 ATAAAAATA-AAATAAAA
1 ATAAAAATAGAAATAAAA
50025209 ATAAAAA
1 ATAAAAA
50025216 AAAGGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (18 bp):
ATAAAAATAGAAATAAAA
Found at i:50025212 original size:6 final size:6
Alignment explanation
Indices: 50025174--50025215 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
50025164 TTTTTAGAAC
* * *
50025174 ATAAAA CTAGAA ATAGAA ATAAAA AT-AAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
50025216 AAAGGAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:50029752 original size:40 final size:40
Alignment explanation
Indices: 50029581--50029834 Score: 317
Period size: 39 Copynumber: 6.5 Consensus size: 40
50029571 CGGATGATAA
* **
50029581 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
50029621 CTGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50029660 CC-GGCTAAGTCGCGAAGGCATTTGTGCGAGTTACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50029698 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
50029738 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50029778 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
50029817 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50029835 TACTTGGTTG
Statistics
Matches: 189, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
38 26 0.14
39 88 0.47
40 75 0.40
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50037823 original size:40 final size:40
Alignment explanation
Indices: 50037725--50037979 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
50037715 CGGATGATAA
* *
50037725 CCGGGCTAAGTCCCGAAGGCATCTGTGCAAGTTACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
50037764 TCTGGCAAAG-CCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50037803 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50037843 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
50037883 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50037923 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
50037962 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50037980 TACTTGGTTG
Statistics
Matches: 192, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 38 0.20
39 27 0.14
40 125 0.65
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50043083 original size:28 final size:28
Alignment explanation
Indices: 50043043--50043135 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
50043033 ATGTACTAGA
50043043 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
50043071 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
50043099 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
50043127 ATACCCCTA
1 ATACCCCTA
50043136 GGGTTGATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:50043267 original size:28 final size:26
Alignment explanation
Indices: 50043235--50043324 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 26
50043225 AGGAAGCGTC
50043235 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAA-TATCTGTT
* * * *
50043263 CTGGTGGCCCTGCTACATATATCTGTG
1 CTGGTGG-CATGCCACAAATATCTGTT
50043290 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
50043319 CTGGTG
1 CTGGTG
50043325 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 19 0.38
28 23 0.46
29 7 0.14
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:50043293 original size:27 final size:28
Alignment explanation
Indices: 50043235--50043316 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
50043225 AGGAAGCGTC
* *
50043235 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTG
* * *
50043263 CTGGTGGCCCTGCTAC-ATATATCTGTG
1 CTGGTGGCACTGCCACAAAATATCTGTG
50043290 CTGGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCACAAAATATCTGT
50043317 ATCTGGTGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 22 0.50
28 22 0.50
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTG
Found at i:50052597 original size:29 final size:29
Alignment explanation
Indices: 50052523--50052637 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
50052513 TACATACATG
*
50052523 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* **
50052551 CAAATGGCCCA-TATGGCCCAGTTCATATT
1 CATATGGCCCACTA-GGCCCAAATCATATT
* * * *
50052580 CTTATGGCCCACTAGGCCGAACTCACATT
1 CATATGGCCCACTAGGCCCAAATCATATT
*
50052609 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
50052638 ATACTCATGC
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
27 2 0.03
28 15 0.22
29 50 0.72
30 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:50052627 original size:58 final size:57
Alignment explanation
Indices: 50052525--50052637 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
50052515 CATACATGCA
** **
50052525 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATATGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATATGGCCCAAATCATATTCT
* *
50052582 TATGGCCCACTAGGCCGAACTCACATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCAAATGGCCCATAT-GGCCCAAATCATATT
50052638 ATACTCATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.40
58 29 0.60
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATATGGCCCAAATCATATTCT
Found at i:50052885 original size:24 final size:24
Alignment explanation
Indices: 50052852--50052910 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
50052842 GTAGCCCAAC
* *
50052852 TTTCAGCTTTTCGGCATTTCGGCT
1 TTTCAACTTTTCGGCATTTCGGCA
*
50052876 TTTCAACTTTTTGGCATTTCGGCA
1 TTTCAACTTTTCGGCATTTCGGCA
*
50052900 TTTCGACTTTT
1 TTTCAACTTTT
50052911 GTCGATTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.12, C:0.22, G:0.17, T:0.49
Consensus pattern (24 bp):
TTTCAACTTTTCGGCATTTCGGCA
Found at i:50054153 original size:16 final size:17
Alignment explanation
Indices: 50054122--50054157 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
50054112 AAAAGAAAAA
*
50054122 TTTAAGATTTTGGGATT
1 TTTAAGATTTTAGGATT
50054139 TTTAA-ATTTTAGGATT
1 TTTAAGATTTTAGGATT
50054155 TTT
1 TTT
50054158 GGGGTGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (17 bp):
TTTAAGATTTTAGGATT
Found at i:50055257 original size:13 final size:13
Alignment explanation
Indices: 50055239--50055264 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50055229 GCCCTTAAAG
50055239 ATCTCAGCCCTAT
1 ATCTCAGCCCTAT
50055252 ATCTCAGCCCTAT
1 ATCTCAGCCCTAT
50055265 TTGATCGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.08, T:0.31
Consensus pattern (13 bp):
ATCTCAGCCCTAT
Found at i:50057032 original size:29 final size:29
Alignment explanation
Indices: 50056966--50057080 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 29
50056956 TACAAACATG
* *
50056966 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
50056994 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
50057023 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
50057052 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
50057081 ATACTCATGC
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 17 0.24
29 54 0.76
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:50057070 original size:58 final size:57
Alignment explanation
Indices: 50056968--50057080 Score: 163
Period size: 58 Copynumber: 2.0 Consensus size: 57
50056958 CAAACATGCA
** * **
50056968 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATTAGGCCCAAATCATATTCT
*
50057025 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCAAATGGCCCATTAGGCCCAAATCATATT
50057081 ATACTCATGC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 19 0.39
58 30 0.61
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATTAGGCCCAAATCATATTCT
Found at i:50057327 original size:24 final size:24
Alignment explanation
Indices: 50057298--50057352 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
50057288 GCCCAACTTC
* *
50057298 GGCTTTTCGGTATTTCAACTTTTT
1 GGCTTTTCGGCATTTCAACATTTT
**
50057322 GGCTTTTCGGCATTTCGGCATTTT
1 GGCTTTTCGGCATTTCAACATTTT
50057346 GGCTTTT
1 GGCTTTT
50057353 GTTGATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.09, C:0.18, G:0.22, T:0.51
Consensus pattern (24 bp):
GGCTTTTCGGCATTTCAACATTTT
Found at i:50058603 original size:16 final size:17
Alignment explanation
Indices: 50058575--50058608 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
50058565 AAAAATTCAA
50058575 GATTTTGGGGTTTTTTG
1 GATTTTGGGGTTTTTTG
50058592 GATTTT-GGGTTTTTTG
1 GATTTTGGGGTTTTTTG
50058608 G
1 G
50058609 GGCGTTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.06, C:0.00, G:0.35, T:0.59
Consensus pattern (17 bp):
GATTTTGGGGTTTTTTG
Found at i:50064861 original size:40 final size:40
Alignment explanation
Indices: 50064816--50065085 Score: 441
Period size: 40 Copynumber: 6.8 Consensus size: 40
50064806 CAAGCTCAAT
* * * * *
50064816 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
* * *
50064856 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
* *
50064896 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
50064936 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
50064976 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
*
50065016 TGCCTTCGGGTTTTAGCCCGGATATAGCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
50065056 TGCCTTCGGGTTTTAGCCCGGATATATCAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAA
50065086 TTGCTCATGC
Statistics
Matches: 219, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
Found at i:50080969 original size:39 final size:40
Alignment explanation
Indices: 50080868--50081052 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
50080858 TCGAATGATG
* * * * *
50080868 TCCGGGCTAAGTCCCGAAGGC-TTTGTTCTAACTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
50080907 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
50080948 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
50080987 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
50081026 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
50081053 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:50081074 original size:79 final size:79
Alignment explanation
Indices: 50080921--50081085 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
50080911 GGACTAAGAT
* **
50080921 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
50080986 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
50081000 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
50081063 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
50081079 CCGAAGG
1 CCGAAGG
50081086 TATGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:50089045 original size:40 final size:39
Alignment explanation
Indices: 50088961--50089145 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 39
50088951 ACGAATGATT
* * * * *
50088961 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
50089001 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
50089041 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
50089080 TCC-GAGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGA-CTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
50089121 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
50089146 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 77 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50089168 original size:79 final size:79
Alignment explanation
Indices: 50089014--50089178 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
50089004 GGACTAAGAT
* **
50089014 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
50089079 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * *
50089093 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
50089156 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
50089172 CCGAAGG
1 CCGAAGG
50089179 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:50091538 original size:17 final size:18
Alignment explanation
Indices: 50091506--50091539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50091496 TTTAAGAAGG
50091506 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
50091524 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
50091540 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:50099496 original size:44 final size:45
Alignment explanation
Indices: 50099409--50099498 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 45
50099399 AATTATCGTG
* * * *
50099409 ATCTGAACTCATTGAGTTTTGGTCTGAGTTCATGATATTTGTGAC
1 ATCTAAACTCATTGAGTTGTAGTCTGAGTTCATGATATCTGTGAC
*
50099454 ATCTAAACTCATTGAGTTGTAGT-TGAGTTCATGATGTCTGTGAC
1 ATCTAAACTCATTGAGTTGTAGTCTGAGTTCATGATATCTGTGAC
50099498 A
1 A
50099499 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 20 0.50
45 20 0.50
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTAGTCTGAGTTCATGATATCTGTGAC
Found at i:50104326 original size:19 final size:19
Alignment explanation
Indices: 50104302--50104338 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
50104292 CAATTACTTA
50104302 GTTTTAACAACGAATTTAT
1 GTTTTAACAACGAATTTAT
50104321 GTTTTAACAACGAATTTA
1 GTTTTAACAACGAATTTA
50104339 AGTAAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
GTTTTAACAACGAATTTAT
Found at i:50125269 original size:40 final size:40
Alignment explanation
Indices: 50125210--50125557 Score: 624
Period size: 40 Copynumber: 8.7 Consensus size: 40
50125200 GAGCATTGGA
*
50125210 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
50125250 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
50125290 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
50125330 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
50125370 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
50125410 ATATATCCGGGCTATGACCCGAAGGCAGTTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
50125450 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
50125490 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
50125530 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
50125558 ATGTGTTTGC
Statistics
Matches: 299, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 299 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:50127667 original size:48 final size:48
Alignment explanation
Indices: 50127610--50127736 Score: 157
Period size: 48 Copynumber: 2.6 Consensus size: 48
50127600 GATGCTGATT
* * * *
50127610 CCATATCCCAGATATGGTCTTACACTAGCAT-ACGTATCAACGCCGATG
1 CCATGTCCCAGACATAGTCTTACACTAGC-TCACATATCAACGCCGATG
* * *
50127658 CCATGTCCCAGACATAGTCTTATACTGGCTCTCATATCAACGCCGATG
1 CCATGTCCCAGACATAGTCTTACACTAGCTCACATATCAACGCCGATG
* *
50127706 CCATGTCCCAGACATATTCTTACACAAGCTC
1 CCATGTCCCAGACATAGTCTTACACTAGCTC
50127737 TCATTAGCCG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 66 0.99
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATAGTCTTACACTAGCTCACATATCAACGCCGATG
Found at i:50127737 original size:48 final size:48
Alignment explanation
Indices: 50127644--50127740 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
50127634 CTAGCATACG
* **
50127644 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTATACTGGCTCTCA
1 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
*
50127692 TATCAACGCCGATGCCATGTCCCAGACATATTCTTACACAAGCTCTCA
1 TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
50127740 T
1 T
50127741 TAGCCGTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (48 bp):
TATCAACGCCGATGCCATGTCCCAGACATAGTCTTACACAAGCTCTCA
Found at i:50133787 original size:18 final size:19
Alignment explanation
Indices: 50133750--50133787 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50133740 TGAACACAAG
50133750 GACACGCCCATGTGCCTTA
1 GACACGCCCATGTGCCTTA
*
50133769 GACACGCCCGTGT-CCTTA
1 GACACGCCCATGTGCCTTA
50133787 G
1 G
50133788 GCCGTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.21
Consensus pattern (19 bp):
GACACGCCCATGTGCCTTA
Found at i:50135225 original size:42 final size:42
Alignment explanation
Indices: 50135179--50135263 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
50135169 GGGGCCCCGC
* * * *
50135179 ATCAATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAT
1 ATCAACGCCATATCCCAGACATCGTCTTACACGAAATCACAT
* *
50135221 ATCAACGCCATATCCCAGATATCGTCTTACATGAAATCACAT
1 ATCAACGCCATATCCCAGACATCGTCTTACACGAAATCACAT
50135263 A
1 A
50135264 CCGATGCTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (42 bp):
ATCAACGCCATATCCCAGACATCGTCTTACACGAAATCACAT
Found at i:50139368 original size:41 final size:41
Alignment explanation
Indices: 50139253--50139402 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
50139243 CGCTGACTCA
* * * *
50139253 AAAAGCCCTTTGAGACCAAACTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
50139294 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
50139334 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
50139375 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
50139403 TAAACCCCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 32 0.35
41 60 0.65
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:50147218 original size:68 final size:68
Alignment explanation
Indices: 50147109--50147255 Score: 258
Period size: 68 Copynumber: 2.2 Consensus size: 68
50147099 CCAAATATTG
* * * *
50147109 AAATCACTAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTTGCA
1 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCA
50147174 ACA
66 ACA
50147177 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCA
1 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCA
50147242 ACA
66 ACA
50147245 AAATCACAAAT
1 AAATCACAAAT
50147256 TCACTACAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 75 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (68 bp):
AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGCTTTAACCAAGTTCGCA
ACA
Found at i:50148224 original size:41 final size:40
Alignment explanation
Indices: 50148130--50148266 Score: 215
Period size: 39 Copynumber: 3.5 Consensus size: 40
50148120 CGGGACTTTA
* * *
50148130 AGCCCGAATATAATACCAGCACAAATGCCTTCGGGGC-CT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTCT
*
50148169 AGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTCT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC-TCT
50148210 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCT-T
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTCT
50148249 AGCCCGGATATAACACCA
1 AGCCCGGATATAACACCA
50148267 AATCATATAA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 52 0.57
40 1 0.01
41 38 0.42
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (40 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTCT
Found at i:50150275 original size:19 final size:19
Alignment explanation
Indices: 50150251--50150291 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
50150241 GTTATAATAT
*
50150251 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
50150270 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
50150289 TAA
1 TAA
50150292 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:50150700 original size:5 final size:6
Alignment explanation
Indices: 50150685--50150710 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
50150675 TTATCAACAA
50150685 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
50150711 TTTCTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:50153480 original size:68 final size:68
Alignment explanation
Indices: 50153371--50153517 Score: 276
Period size: 68 Copynumber: 2.2 Consensus size: 68
50153361 CCAAATATTG
* *
50153371 AAATCACTAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTTGCA
1 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
50153436 ACA
66 ACA
50153439 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
1 AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
50153504 ACA
66 ACA
50153507 AAATCACAAAT
1 AAATCACAAAT
50153518 TCACTACAAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (68 bp):
AAATCACAAATAAGATCATAAGAACTCGAAAAGCATCTCATTAACAAGTTTTAACCATGTTCGCA
ACA
Found at i:50154415 original size:40 final size:39
Alignment explanation
Indices: 50154365--50154526 Score: 130
Period size: 39 Copynumber: 4.1 Consensus size: 39
50154355 CAAATCCAAT
*
50154365 CACCACCACAAA-GCATGCGGGACTTTAAGCCCGAATATAA
1 CACCAGCACAAATGCATGCGGGAC-TT-AGCCCGAATATAA
* * * * *
50154405 TACCAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAA
1 CACCAGCACAAATGCATGCGGGACTTAGCCCGAATATAA
** * * *
50154444 CACCAGCAGGAATGCCTTCGGGGCTTAGCCC-AGATATAA
1 CACCAGCACAAATGCATGCGGGACTTAGCCCGA-ATATAA
* * ** * *
50154483 CACCAGCACGAATGCCTTTGGGTCTTAGCCCGGATATAA
1 CACCAGCACAAATGCATGCGGGACTTAGCCCGAATATAA
50154522 CACCA
1 CACCA
50154527 AATCATATAA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 85 0.81
40 12 0.11
41 8 0.08
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
CACCAGCACAAATGCATGCGGGACTTAGCCCGAATATAA
Found at i:50154436 original size:39 final size:39
Alignment explanation
Indices: 50154392--50154526 Score: 191
Period size: 39 Copynumber: 3.5 Consensus size: 39
50154382 CGGGACTTTA
* *
50154392 AGCCCGAATATAATACCAGCACAAATGCCTTCGGGGCTT
1 AGCCCGAATATAACACCAGCACGAATGCCTTCGGGGCTT
* *
50154431 AGCCCGGATATAACACCAGCAGGAATGCCTTCGGGGCTT
1 AGCCCGAATATAACACCAGCACGAATGCCTTCGGGGCTT
* *
50154470 AGCCC-AGATATAACACCAGCACGAATGCCTTTGGGTCTT
1 AGCCCGA-ATATAACACCAGCACGAATGCCTTCGGGGCTT
*
50154509 AGCCCGGATATAACACCA
1 AGCCCGAATATAACACCA
50154527 AATCATATAA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
AGCCCGAATATAACACCAGCACGAATGCCTTCGGGGCTT
Found at i:50156540 original size:19 final size:19
Alignment explanation
Indices: 50156516--50156556 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
50156506 GTTATAATAT
*
50156516 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
50156535 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
50156554 TAA
1 TAA
50156557 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:50157218 original size:25 final size:25
Alignment explanation
Indices: 50157161--50157212 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
50157151 TATTGACGTA
* * *
50157161 ATAATA-AATTATTTTATTTATATT
1 ATAATACAATTAATTTATTTAAATC
50157185 ATAATACAATTAATTTATTTAAATC
1 ATAATACAATTAATTTATTTAAATC
50157210 ATA
1 ATA
50157213 TAACAAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATACAATTAATTTATTTAAATC
Found at i:50166413 original size:38 final size:40
Alignment explanation
Indices: 50166339--50166423 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 40
50166329 AAATTATTCG
* *
50166339 TATTAAAAACACTACCATAAATATAATAAATGTTTTATTA
1 TATTAAAAACACTACAATAAAAATAATAAATGTTTTATTA
* * *
50166379 TATTAAAAACA-TA-AATAAAAATAATAATTTTTTTATTG
1 TATTAAAAACACTACAATAAAAATAATAAATGTTTTATTA
50166417 TATTAAA
1 TATTAAA
50166424 TATAATTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 27 0.68
39 2 0.05
40 11 0.28
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (40 bp):
TATTAAAAACACTACAATAAAAATAATAAATGTTTTATTA
Found at i:50172367 original size:46 final size:46
Alignment explanation
Indices: 50172297--50172846 Score: 863
Period size: 46 Copynumber: 12.0 Consensus size: 46
50172287 TTTGACATGA
* * * * *
50172297 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTC-GTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG-GT
*** *
50172343 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
50172389 TGCCATGGTATCTTTCAACCATGGTCTGT-CACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCT-TACACATTTCATATCAGGT
*
50172435 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
50172481 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
50172527 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
50172573 TGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAAGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
50172619 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
50172665 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
50172711 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
50172757 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
50172803 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
50172847 AGAGCACACT
Statistics
Matches: 472, Mismatches: 28, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
45 5 0.01
46 466 0.99
47 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:50175015 original size:18 final size:20
Alignment explanation
Indices: 50174988--50175036 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
50174978 TAATTAATAA
* *
50174988 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
50175009 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
50175029 T-AAATAAT
1 TAAAATAAT
50175037 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:50175025 original size:20 final size:21
Alignment explanation
Indices: 50174988--50175047 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
50174978 TAATTAATAA
*
50174988 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
50175009 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
50175029 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
50175048 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:50178956 original size:40 final size:40
Alignment explanation
Indices: 50178849--50178985 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
50178839 CGGTTATTTG
* * *
50178849 TGGCACTTAGTGTGCGATAC-AACATAGTTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTCGAA-ATAGCTTCGGCTATATA
50178889 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
* * * * * *
50178929 TGGCATTTAGTGTGTGATTTGAGATAGCTTTGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
** *
50178969 CAGTACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
50178986 GATATCGAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATA
Found at i:50179052 original size:28 final size:28
Alignment explanation
Indices: 50178973--50179042 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
50178963 TATGTACAGT
* * *
50178973 ACTTAGTGTGCGAGATATCGAATGTGGC
1 ACTTAGTGTGCGAGATATCGAGTATGAC
50179001 ACTTAGTGTGCGAGATATCGAGTATGAC
1 ACTTAGTGTGCGAGATATCGAGTATGAC
50179029 ACTTAGTGTGCGAG
1 ACTTAGTGTGCGAG
50179043 GCATTGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTGCGAGATATCGAGTATGAC
Found at i:50185760 original size:46 final size:46
Alignment explanation
Indices: 50185583--50185761 Score: 173
Period size: 46 Copynumber: 3.9 Consensus size: 46
50185573 TGTAACTCAC
* * *
50185583 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATG-TTCGCAT
* * * * **
50185629 ACATATCA-CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATA--AGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
* * * * *
50185676 CCATAAGTGGACTCAGACTCAACTCAACGAGTTTGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
* *
50185722 CCATAAGTGAACTCGGACTCAACTCAATAAGTTCGGATGT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGT
50185762 CCAAATATCC
Statistics
Matches: 106, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 72 0.68
47 32 0.30
48 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGTTCGCAT
Found at i:50192393 original size:28 final size:28
Alignment explanation
Indices: 50192336--50192513 Score: 281
Period size: 28 Copynumber: 6.5 Consensus size: 28
50192326 TAAATTGTGC
*
50192336 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50192363 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50192391 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50192419 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
50192446 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * *
50192474 AGCATTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
50192501 AGCACTGAGTGTG
1 AGCACTAAGTGTG
50192514 TAGACTTAAT
Statistics
Matches: 143, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 63 0.44
28 80 0.56
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:50192400 original size:55 final size:55
Alignment explanation
Indices: 50192336--50192513 Score: 286
Period size: 55 Copynumber: 3.2 Consensus size: 55
50192326 TAAATTGTGC
*
50192336 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
50192391 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * *
50192446 AGCACTAAGTGTGCGAGTTTGATTATGTAGCATTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
50192501 AGCACTGAGTGTG
1 AGCACTAAGTGTG
50192514 TAGACTTAAT
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
55 89 0.77
56 27 0.23
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:50192475 original size:83 final size:82
Alignment explanation
Indices: 50192336--50192513 Score: 293
Period size: 83 Copynumber: 2.2 Consensus size: 82
50192326 TAAATTGTGC
50192336 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
50192401 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* * *
50192419 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCATTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
50192484 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
50192501 AGCACTGAGTGTG
1 AGCACTAAGTGTG
50192514 TAGACTTAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 20 0.22
83 69 0.78
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:50198227 original size:24 final size:24
Alignment explanation
Indices: 50198198--50198259 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
50198188 CAACCGAATT
* * *
50198198 TGCACACATAGTGCTA-ATTATAC
1 TGCACACATAGTGCCATAGTAAAC
50198221 TCGCACACATAGTGCCATAGTAAAC
1 T-GCACACATAGTGCCATAGTAAAC
50198246 TGCACACATAGTGC
1 TGCACACATAGTGC
50198260 ATTGGATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.79
25 6 0.18
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (24 bp):
TGCACACATAGTGCCATAGTAAAC
Found at i:50203039 original size:46 final size:46
Alignment explanation
Indices: 50202989--50203117 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
50202979 TGTTTGGGCA
*
50202989 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
50203035 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
50203081 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50203118 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50206032 original size:15 final size:15
Alignment explanation
Indices: 50205995--50206065 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
50205985 ATATCTTGGG
* *
50205995 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
50206010 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
* *
50206025 ATTCTTTACTCTGGA
1 TTTCTTTATTCTGGA
*
50206040 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
50206055 TTTCTTTATTC
1 TTTCTTTATTC
50206066 GGTTTCCTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.09
15 37 0.82
16 4 0.09
ACGTcount: A:0.15, C:0.18, G:0.10, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:50208514 original size:46 final size:46
Alignment explanation
Indices: 50208464--50208592 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
50208454 TGTTTGGGCA
* *
50208464 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
50208510 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
50208556 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50208593 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50215823 original size:39 final size:39
Alignment explanation
Indices: 50215779--50215860 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
50215769 AATTATGTTA
*
50215779 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
*
50215818 CCAGCACGAAGCCTGCAGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
50215857 CCAG
1 CCAG
50215861 TGTCTTGCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
Found at i:50220830 original size:19 final size:19
Alignment explanation
Indices: 50220806--50220845 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
50220796 GTTCCTCACT
50220806 ATACATCAAATCATTCTGC
1 ATACATCAAATCATTCTGC
50220825 ATACATCAAATCATTCTGC
1 ATACATCAAATCATTCTGC
50220844 AT
1 AT
50220846 CTCAACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACATCAAATCATTCTGC
Found at i:50223486 original size:19 final size:17
Alignment explanation
Indices: 50223462--50223500 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50223452 AATCGGCTTT
50223462 TCTTTTCCCTTTGCTAAGC
1 TCTTTT-CCTTTGC-AAGC
*
50223481 TCTTTTGCTTTGCAAGC
1 TCTTTTCCTTTGCAAGC
50223498 TCT
1 TCT
50223501 GTCTACTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.10, C:0.28, G:0.13, T:0.49
Consensus pattern (17 bp):
TCTTTTCCTTTGCAAGC
Found at i:50226046 original size:24 final size:23
Alignment explanation
Indices: 50225968--50226048 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
50225958 AAGCTCCCCA
*
50225968 GAGCTGAAAGACAGTAAGCTCTATATT
1 GAGCTG-AA-ACAGTAAGCTCT-TA-C
* *
50225995 GAGCTGAAATAGTAAGCTCTAAC
1 GAGCTGAAACAGTAAGCTCTTAC
* *
50226018 AAGCTGAGAACAGTAAGCGCTTAC
1 GAGCTGA-AACAGTAAGCTCTTAC
50226042 GAGCTGA
1 GAGCTGA
50226049 TATATCGTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
23 6 0.13
24 20 0.44
25 11 0.24
26 2 0.04
27 6 0.13
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:50233816 original size:40 final size:40
Alignment explanation
Indices: 50233779--50233950 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
50233769 GCTACTCGTT
*
50233779 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
50233819 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
50233859 CAAATGCCTTCGGGA-ATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACA-TAACCCGGATTTAGTAACTCGCA
* * * * * * *
50233899 CCAATGTCTTCGGG-CTTAGCCCGGAATTAGTATCTCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
50233938 CAAATGCCTTCGG
1 CAAATGCCTTCGG
50233951 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 30 0.26
40 85 0.73
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:50233883 original size:80 final size:81
Alignment explanation
Indices: 50233779--50234003 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 81
50233769 GCTACTCGTT
*
50233779 CAAATGCCTTCGGGACA-TAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
50233843 GATTTAGTAACTCGCA
66 GAATTAGTAACTCGCA
* * *
50233859 CAAATGCCTTCGGGA-ATTAACCCGGATT-TAGTAACTCGCACCAATGTCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGACATTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
50233921 GGAATTAGTATCTCGGA
65 GGAATTAGTAACTCGCA
* * * * *
50233938 CAAATGCCTTC-GGATC-TTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CATTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
50234000 CGGA
64 CGGA
50234004 CATCATTCGA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 53 0.43
80 64 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACATTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
GAATTAGTAACTCGCA
Found at i:50233963 original size:119 final size:120
Alignment explanation
Indices: 50233781--50234003 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
50233771 TACTCGTTCA
*
50233781 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
50233846 TTAGTAAC-TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
* * * * **
50233901 AATGTCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGGACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
50233963 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGA
50234004 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.74
120 19 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
Found at i:50235195 original size:56 final size:56
Alignment explanation
Indices: 50235128--50235247 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
50235118 TATTAGTTTA
*
50235128 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTTATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
50235184 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
50235240 TTGCCCAT
1 TTGCCCAT
50235248 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:50237078 original size:40 final size:40
Alignment explanation
Indices: 50237023--50237177 Score: 190
Period size: 40 Copynumber: 3.9 Consensus size: 40
50237013 AGATATAGCT
* * *
50237023 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
50237063 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
50237103 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
50237142 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
50237178 CATCCAAATA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
39 32 0.32
40 64 0.65
41 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:50245296 original size:19 final size:21
Alignment explanation
Indices: 50245274--50245321 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
50245264 GAATTTTTAT
50245274 AAATATTT-TAATTTT-TTGA
1 AAATATTTATAATTTTGTTGA
*
50245293 AAATTATTTATATTTTTGTTGA
1 AAA-TATTTATAATTTTGTTGA
50245315 AAGATAT
1 AA-ATAT
50245322 CAACTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.12
20 5 0.21
21 6 0.25
22 9 0.38
23 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (21 bp):
AAATATTTATAATTTTGTTGA
Found at i:50245300 original size:20 final size:22
Alignment explanation
Indices: 50245277--50245316 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
50245267 TTTTTATAAA
50245277 TATTT-TAATTTT-TTGAAAAT
1 TATTTATAATTTTGTTGAAAAT
*
50245297 TATTTATATTTTTGTTGAAA
1 TATTTATAATTTTGTTGAAA
50245317 GATATCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTTATAATTTTGTTGAAAAT
Found at i:50251178 original size:19 final size:20
Alignment explanation
Indices: 50251133--50251170 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50251123 TTAAAATTAT
*
50251133 GTAAATTAATATTTTTTATA
1 GTAAATTAATATTTTTAATA
50251153 GT-AATTAATATTTTTAAT
1 GTAAATTAATATTTTTAAT
50251171 TTAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
GTAAATTAATATTTTTAATA
Found at i:50259466 original size:21 final size:22
Alignment explanation
Indices: 50259423--50259477 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
50259413 TGTATGTTGA
50259423 ATATA-TTAAAAATGCTTTAATT
1 ATATATTTAAAAAT-CTTTAATT
50259445 AT-TATTTAAAAAT-TTTATATT
1 ATATATTTAAAAATCTTTA-ATT
50259466 ATAATATTTAAA
1 AT-ATATTTAAA
50259478 TTGATAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.14
21 7 0.24
22 10 0.34
23 8 0.28
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATATTTAAAAATCTTTAATT
Found at i:50259473 original size:23 final size:23
Alignment explanation
Indices: 50259422--50259477 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
50259412 TTGTATGTTG
50259422 AATATATTAAAAATGCTTTAATTAT
1 AATAT-TTAAAAAT-CTTTAATTAT
50259447 --TATTTAAAAAT-TTTATATTAT
1 AATATTTAAAAATCTTTA-ATTAT
50259468 AATATTTAAA
1 AATATTTAAA
50259478 TTGATAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 8 0.29
23 11 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
AATATTTAAAAATCTTTAATTAT
Found at i:50263510 original size:11 final size:11
Alignment explanation
Indices: 50263494--50263526 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
50263484 CAGTTATAGG
50263494 AAAAAAAGAAA
1 AAAAAAAGAAA
50263505 AAAAAAAG-AA
1 AAAAAAAGAAA
*
50263515 AAGAAAAGAAA
1 AAAAAAAGAAA
50263526 A
1 A
50263527 GAGAAAGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:50263516 original size:16 final size:17
Alignment explanation
Indices: 50263497--50263532 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
50263487 TTATAGGAAA
50263497 AAAAGAAAA-AAAAAAG
1 AAAAGAAAAGAAAAAAG
*
50263513 AAAAGAAAAGAAAAGAG
1 AAAAGAAAAGAAAAAAG
50263530 AAA
1 AAA
50263533 GGGAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAG
Found at i:50266325 original size:18 final size:17
Alignment explanation
Indices: 50266304--50266337 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50266294 TGAGTTTGTC
*
50266304 TTTAAGTGACCAGTTCTT
1 TTTAAGTAACCA-TTCTT
50266322 TTTAAGTAACCATTCT
1 TTTAAGTAACCATTCT
50266338 AAAATGCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTAAGTAACCATTCTT
Found at i:50270100 original size:25 final size:25
Alignment explanation
Indices: 50270067--50270150 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
50270057 ATATATACAA
50270067 AATATATAAATATTTTTAAAAAATAT
1 AATA-ATAAATATTTTTAAAAAATAT
* *
50270093 AATAAT-AA-ATTTATAAAATATAT
1 AATAATAAATATTTTTAAAAAATAT
*
50270116 AAAAATAAATATTTTTAAAAAATAT
1 AATAATAAATATTTTTAAAAAATAT
50270141 AATAATAAAT
1 AATAATAAAT
50270151 TTAAATTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 18 0.36
24 4 0.08
25 24 0.48
26 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAATAAATATTTTTAAAAAATAT
Found at i:50270109 original size:23 final size:23
Alignment explanation
Indices: 50270055--50270153 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
50270045 AAAAATTTTA
* *
50270055 AAATATATACAAAATAT-ATAA-
1 AAATTTATAAAAAATATAATAAT
* *
50270076 ATATTTTTAAAAAATATAATAAT
1 AAATTTATAAAAAATATAATAAT
* *
50270099 AAATTTATAAAATATATAAAAAT
1 AAATTTATAAAAAATATAATAAT
*
50270122 AAATATTTTTAAAAAATATAATAAT
1 -AA-ATTTATAAAAAATATAATAAT
50270147 AAATTTA
1 AAATTTA
50270154 AATTTATATA
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 13 0.21
22 4 0.06
23 23 0.37
24 4 0.06
25 18 0.29
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTTATAAAAAATATAATAAT
Found at i:50270321 original size:21 final size:22
Alignment explanation
Indices: 50270282--50270323 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
50270272 TTTTGAGTAG
* *
50270282 AGAATTGAGGAAGAGAAGAGAA
1 AGAATAGAGGAAGAAAAGAGAA
50270304 AGAATAGA-GAAGAAAAGAGA
1 AGAATAGAGGAAGAAAAGAGA
50270324 GAGAGATCTG
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:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAATAGAGGAAGAAAAGAGAA
Found at i:50270455 original size:24 final size:25
Alignment explanation
Indices: 50270428--50270479 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
50270418 GCTATAAGCA
50270428 AAACACACCGTTT-AAGTAATCCCT
1 AAACACACCGTTTCAAGTAATCCCT
* * **
50270452 AAACTCCCCGTTTCATTTAATCCCT
1 AAACACACCGTTTCAAGTAATCCCT
50270477 AAA
1 AAA
50270480 ACTCCCCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.29
Consensus pattern (25 bp):
AAACACACCGTTTCAAGTAATCCCT
Found at i:50270478 original size:25 final size:26
Alignment explanation
Indices: 50270444--50270497 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
50270434 ACCGTTTAAG
50270444 TAATCCCT-AAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTCATT
50270469 TAATCCCTAAAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTCATT
50270495 TAA
1 TAA
50270498 ACTAGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.28, C:0.33, G:0.04, T:0.35
Consensus pattern (26 bp):
TAATCCCTAAAACTCCCCGTTTCATT
Found at i:50270515 original size:25 final size:24
Alignment explanation
Indices: 50270452--50270523 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
50270442 AGTAATCCCT
*
50270452 AAACTCCCCGTTTCATTTAATCCCTA
1 AAACTCCCCGTTTCATTTAA--ACTA
50270478 AAACTCCCCGTTTCATTTAAACTA
1 AAACTCCCCGTTTCATTTAAACTA
*
50270502 GAAAC-CCCCTGTTTTATTTAAA
1 -AAACTCCCC-GTTTCATTTAAA
50270524 AAAGTTGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 7 0.17
25 15 0.36
26 20 0.48
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (24 bp):
AAACTCCCCGTTTCATTTAAACTA
Found at i:50273867 original size:47 final size:47
Alignment explanation
Indices: 50273723--50274161 Score: 682
Period size: 47 Copynumber: 9.4 Consensus size: 47
50273713 ATTTTGTTAC
* *
50273723 GATGAATGTGAAAGTGTATGTATATGTGATAAGGTCGAATGACCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
50273772 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
50273821 GATGAATGTGAAAGTGTATGTATGTGATAAGGCC-----G--AATG-
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
50273860 G-TGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
50273906 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
50273955 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
50274002 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
50274049 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
* * * *
50274096 GATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
*
50274143 GATGGAA-GTGGAAGTGTAT
1 GAT-GAATGTGAAAGTGTAT
50274162 AACTGTGATA
Statistics
Matches: 370, Mismatches: 8, Indels: 26
0.92 0.02 0.06
Matches are distributed among these distances:
38 32 0.09
39 1 0.00
40 4 0.01
42 1 0.00
43 1 0.00
45 4 0.01
46 1 0.00
47 209 0.56
48 3 0.01
49 114 0.31
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:50273967 original size:134 final size:134
Alignment explanation
Indices: 50273725--50274144 Score: 673
Period size: 134 Copynumber: 3.1 Consensus size: 134
50273715 TTTGTTACGA
* *
50273725 TGAATGTGAAAGTGTATGTATATGTGATAAGGTCGAATGACCAATGTGATGAATGTGAAAGTGTA
1 TGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
50273790 TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
64 TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC
50273855 GAATGG
129 GAATGG
50273861 TGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 TGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
50273926 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGA
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCC--
50273991 ATGGCCAATGTG
129 ---G--AATG-G
50274003 ATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 -TGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
* * *
50274068 G--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCG
65 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCG
50274131 AATGG
130 AATGG
*
50274136 TCAATGTGA
1 TGAATGTGA
50274145 TGGAAGTGGA
Statistics
Matches: 269, Mismatches: 6, Indels: 22
0.91 0.02 0.07
Matches are distributed among these distances:
132 8 0.03
133 1 0.00
134 112 0.42
136 19 0.07
139 1 0.00
141 62 0.23
142 1 0.00
143 65 0.24
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (134 bp):
TGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGA
ATGG
Found at i:50275243 original size:9 final size:10
Alignment explanation
Indices: 50275215--50275242 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
50275205 TTTTATTTCA
50275215 AAAAAAAAAG
1 AAAAAAAAAG
50275225 AAAAAAAAAG
1 AAAAAAAAAG
50275235 AAAAAAAA
1 AAAAAAAA
50275243 GGTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:50279763 original size:21 final size:22
Alignment explanation
Indices: 50279724--50279765 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
50279714 TTTTGAGTAG
* *
50279724 AGAATTGAGGAAGAGAAGAGAA
1 AGAATAGAGGAAGAAAAGAGAA
50279746 AGAATAGA-GAAGAAAAGAGA
1 AGAATAGAGGAAGAAAAGAGA
50279766 GAGAGATCTG
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:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAATAGAGGAAGAAAAGAGAA
Found at i:50279897 original size:24 final size:25
Alignment explanation
Indices: 50279870--50279921 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
50279860 GCTATAAGAA
50279870 AAACGCACCG-TTTAAGTAATCCCT
1 AAACGCACCGTTTTAAGTAATCCCT
* * **
50279894 AAACTCCCCGTTTTATTTAATCCCT
1 AAACGCACCGTTTTAAGTAATCCCT
50279919 AAA
1 AAA
50279922 ACTCCCCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.31
Consensus pattern (25 bp):
AAACGCACCGTTTTAAGTAATCCCT
Found at i:50279930 original size:26 final size:26
Alignment explanation
Indices: 50279886--50279963 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
50279876 ACCGTTTAAG
50279886 TAATCCCT-AAACTCCCCGTTTTATT
1 TAATCCCTAAAACTCCCCGTTTTATT
*
50279911 TAATCCCTAAAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTTATT
* *
50279937 TAA--ACTAGAAC-CCCCTGTTTTATT
1 TAATCCCTAAAACTCCCC-GTTTTATT
50279961 TAA
1 TAA
50279964 AAGAGTTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.09
24 16 0.34
25 8 0.17
26 19 0.40
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.37
Consensus pattern (26 bp):
TAATCCCTAAAACTCCCCGTTTTATT
Found at i:50280444 original size:14 final size:14
Alignment explanation
Indices: 50280425--50280466 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
50280415 AGATTTTTAT
50280425 TTAATATTAATATA
1 TTAATATTAATATA
50280439 TTAATATTAA-ATGA
1 TTAATATTAATAT-A
*
50280453 TAAATATTAATATA
1 TTAATATTAATATA
50280467 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TTAATATTAATATA
Found at i:50281239 original size:18 final size:18
Alignment explanation
Indices: 50281206--50281253 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
50281196 AAAGTAAATG
* *
50281206 TATTTTTAAATATTTTT-
1 TATTTTTTAATTTTTTTC
*
50281223 AATTTTTTAATTTTTTTC
1 TATTTTTTAATTTTTTTC
*
50281241 TATTTTTGAATTT
1 TATTTTTTAATTT
50281254 AAATTTAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TATTTTTTAATTTTTTTC
Found at i:50282881 original size:46 final size:46
Alignment explanation
Indices: 50282814--50282991 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
50282804 TGTAACCCGC
* * *
50282814 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * *
50282860 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * **
50282906 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
50282953 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
50282992 CTCAACCATC
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.65
47 34 0.32
48 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:50282980 original size:93 final size:93
Alignment explanation
Indices: 50282821--50282992 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
50282811 CGCCCATAAG
*** *
50282821 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50282886 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
50282914 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50282979 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50282993 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:50283447 original size:30 final size:30
Alignment explanation
Indices: 50283413--50283472 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50283403 ATTTAATACG
50283413 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50283443 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50283473 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50290581 original size:46 final size:46
Alignment explanation
Indices: 50290411--50290583 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
50290401 AACCCGCCCC
* * * *
50290411 TAAGTGAACTTGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTACATCCA
* *
50290457 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* * * *
50290505 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
50290550 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50290584 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 4 0.04
46 57 0.55
47 28 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:50292453 original size:6 final size:6
Alignment explanation
Indices: 50292442--50292502 Score: 68
Period size: 6 Copynumber: 9.5 Consensus size: 6
50292432 CCTCTTTATG
*
50292442 TTTTTC TTTTTC TTTTTC TTTTTC TTTTCC TTTCCCTTC TCTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT---TTC T-TTTTC TTTTTC
*
50292494 TTTTCC TTT
1 TTTTTC TTT
50292503 CGCTTTTGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 39 0.81
7 4 0.08
9 3 0.06
10 2 0.04
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:50292514 original size:28 final size:28
Alignment explanation
Indices: 50292451--50292503 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
50292441 GTTTTTCTTT
50292451 TTCT-TTTTCTTTTTCTTTTCCTTTCCC
1 TTCTCTTTTCTTTTTCTTTTCCTTTCCC
50292478 TTCTCTTTTCTTTTTCTTTTCCTTTC
1 TTCTCTTTTCTTTTTCTTTTCCTTTC
50292504 GCTTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (28 bp):
TTCTCTTTTCTTTTTCTTTTCCTTTCCC
Found at i:50294726 original size:27 final size:27
Alignment explanation
Indices: 50294696--50294766 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
50294686 GTTTATAAAG
50294696 TTAGTTTGTAATTATTTTTATATAACT
1 TTAGTTTGTAATTATTTTTATATAACT
50294723 TTAGTTTGTAATTATTTTTATATAACT
1 TTAGTTTGTAATTATTTTTATATAACT
* *
50294750 TTATTTTGT-TTTATTTT
1 TTAGTTTGTAATTATTTT
50294767 ATTTTGATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 7 0.17
27 35 0.83
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (27 bp):
TTAGTTTGTAATTATTTTTATATAACT
Done.