Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 328 of 344
Found at i:106979494 original size:10 final size:10
Alignment explanation
Indices: 106979402--106979506 Score: 82
Period size: 10 Copynumber: 10.8 Consensus size: 10
106979392 AAAAATAAAG
106979402 TAATAAATAA
1 TAATAAATAA
*
106979412 TAA-AATAAAA
1 TAATAA-ATAA
*
106979422 TAATAAATAC
1 TAATAAATAA
106979432 TAATAAAATAA
1 TAAT-AAATAA
106979443 -AAT-AA-AA
1 TAATAAATAA
*
106979450 TAATAAATAC
1 TAATAAATAA
106979460 TAATAAAATAA
1 TAAT-AAATAA
106979471 -AATAAAATAA
1 TAAT-AAATAA
106979481 -AAT-AATAAA
1 TAATAAAT-AA
106979490 TAATAAATAA
1 TAATAAATAA
106979500 TAA-AAAT
1 TAATAAAT
106979507 TAAGAAAAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
7 2 0.03
8 8 0.10
9 10 0.13
10 44 0.56
11 15 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (10 bp):
TAATAAATAA
Found at i:106979506 original size:28 final size:30
Alignment explanation
Indices: 106979395--106979499 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 30
106979385 AATATCTAAA
*
106979395 AATAAAGTAATAAAT--AATAAAATAAAAT
1 AATAAACTAATAAATAAAATAAAATAAAAT
*
106979423 AATAAA-TACT-AATAAAATAAAATAAAAT
1 AATAAACTAATAAATAAAATAAAATAAAAT
106979451 AATAAATACTAATAAAATAAAATAAAATAAAAT
1 AAT-AA-ACTAAT-AAATAAAATAAAATAAAAT
106979484 AATAAA-TAATAAATAA
1 AATAAACTAATAAATAA
106979500 TAAAAATTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.04
27 3 0.04
28 22 0.32
29 8 0.12
30 5 0.07
31 4 0.06
32 2 0.03
33 21 0.31
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (30 bp):
AATAAACTAATAAATAAAATAAAATAAAAT
Found at i:106979506 original size:33 final size:34
Alignment explanation
Indices: 106979410--106979506 Score: 130
Period size: 33 Copynumber: 2.9 Consensus size: 34
106979400 AGTAATAAAT
*
106979410 AATAAAAT-A-AAATAATAAATACTAATAAAATAA
1 AATAAAATAATAAATAATAAATAAT-ATAAAATAA
* *
106979443 AATAAAATAATAAATACT-AATAAAATAAAATAA
1 AATAAAATAATAAATAATAAATAATATAAAATAA
106979476 AATAAAATAATAAATAATAAATAATA-AAAAT
1 AATAAAATAATAAATAATAAATAATATAAAAT
106979507 TAAGAAAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
33 39 0.70
34 11 0.20
35 6 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (34 bp):
AATAAAATAATAAATAATAAATAATATAAAATAA
Found at i:106979521 original size:7 final size:7
Alignment explanation
Indices: 106979406--106979526 Score: 68
Period size: 8 Copynumber: 16.0 Consensus size: 7
106979396 ATAAAGTAAT
106979406 AAATAATA
1 AAATAA-A
106979414 AAATAAA
1 AAATAAA
106979421 ATAATAAA
1 A-AATAAA
* *
106979429 TACTAATA
1 AAATAA-A
106979437 AAAT--A
1 AAATAAA
106979442 AAATAAA
1 AAATAAA
106979449 ATAATAAA
1 A-AATAAA
106979457 TACTAATAAA
1 -A--AATAAA
106979467 ATAA-AATA
1 A-AATAA-A
106979475 AAATAAA
1 AAATAAA
106979482 ATAATAAA
1 A-AATAAA
*
106979490 TAATAAA
1 AAATAAA
*
106979497 TAATAAA
1 AAATAAA
*
106979504 AATTAAGA
1 AAATAA-A
106979512 AAAGTAAA
1 AAA-TAAA
106979520 AAATAAA
1 AAATAAA
106979527 GGTTGGGTTA
Statistics
Matches: 93, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
5 5 0.05
7 35 0.38
8 41 0.44
9 5 0.05
10 7 0.08
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (7 bp):
AAATAAA
Found at i:106983118 original size:29 final size:29
Alignment explanation
Indices: 106983076--106983135 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
106983066 AATTTGTATC
106983076 ACTTCATCCCCTATTTATAGTACTAAGAA
1 ACTTCATCCCCTATTTATAGTACTAAGAA
106983105 ACTTCATCCCCTATTTATAGTACTAAGAA
1 ACTTCATCCCCTATTTATAGTACTAAGAA
106983134 AC
1 AC
106983136 CTAGTCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (29 bp):
ACTTCATCCCCTATTTATAGTACTAAGAA
Found at i:106983218 original size:20 final size:19
Alignment explanation
Indices: 106983159--106983218 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 19
106983149 AATTAAATTC
106983159 TAAAAGATAAATACAAATCAA
1 TAAAAGATAAATA-AAAT-AA
*
106983180 T-AAAGATAATTAAAGATAA
1 TAAAAGATAAATAAA-ATAA
106983199 TAAAAGATAAATGAAAATAA
1 TAAAAGATAAAT-AAAATAA
106983219 ATCTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.15
20 25 0.74
21 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (19 bp):
TAAAAGATAAATAAAATAA
Found at i:106983693 original size:21 final size:23
Alignment explanation
Indices: 106983664--106983710 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
106983654 TGAATATGAT
106983664 AAAACATTTTAATTAT-TATTTG
1 AAAACATTTTAATTATATATTTG
*
106983686 AAAA-ATTTTTATTATAATATTTG
1 AAAACATTTTAATTAT-ATATTTG
106983709 AA
1 AA
106983711 TTGATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 4 0.18
23 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
AAAACATTTTAATTATATATTTG
Found at i:106983809 original size:13 final size:14
Alignment explanation
Indices: 106983786--106983815 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
106983776 ACTACGATTA
106983786 AAAATATAATATTT
1 AAAATATAATATTT
106983800 AAAA-ATAATATTT
1 AAAATATAATATTT
106983813 AAA
1 AAA
106983816 TATTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATATAATATTT
Found at i:106987471 original size:132 final size:131
Alignment explanation
Indices: 106987232--106987753 Score: 469
Period size: 132 Copynumber: 4.0 Consensus size: 131
106987222 TGATTATACA
* * * *
106987232 TTTAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCGCAGAATAGTGCCCTAA
1 TTTAAAAATCCTTTAAAACGAAGGCAAAG-TTCGATATTTGGCAATTCGCAGAATCGTGCCCTAA
* * ** * *
106987296 CGTGTTGGATTGCAATTTCGCGTTTGCTT-GGAATAATCGAATATCCCTTCAAACTTTCACTCAT
65 CGTGTTGGGTTGCAATTTCTCGTTTG-TTCAAAACAATCGAATATCCCTTCAGA-TTTCACTCAT
*
106987360 GCCT
128 GTCT
* * * *
106987364 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGGAATCGTACCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAAC
* * * * * * *
106987429 GTGTTGGGTTGTAATTTCTTGTTTGTTCAAAATAATCAAATATCCCTTCTAGATTCCATTCAAGT
66 GTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC-AGATTTCACTCATGT
106987494 CT
130 CT
* * * * * * * * * *
106987496 TCTAAAAATCCTCTAAAACGAAGGCAATA-CTCGGTGTTTGACAATTCG-GGAACCATGCCCTAT
1 TTTAAAAATCCTTTAAAACGAAGGCAA-AGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAA
** * * * * *
106987559 CGTGTTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATATTCTTTTAGGTTTTCACTCATG
65 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA-GATTTCACTCATG
106987624 TCT
129 TCT
* * * * * *
106987627 TTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGCAATTC-AAGAATCGTGCCCTA
1 TTT-A-AAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTA
* * * * * *
106987691 TCGCGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAATTTCACTC
64 ACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAG-ATTTCACTC
106987754 GTATTTTCTA
Statistics
Matches: 314, Mismatches: 66, Indels: 19
0.79 0.17 0.05
Matches are distributed among these distances:
130 1 0.00
131 69 0.22
132 145 0.46
133 99 0.32
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (131 bp):
TTTAAAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAAC
GTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGATTTCACTCATGTC
T
Found at i:106987602 original size:131 final size:134
Alignment explanation
Indices: 106987422--106987741 Score: 351
Period size: 133 Copynumber: 2.4 Consensus size: 134
106987412 CGGAATCGTA
* * * * *
106987422 CCCTAACGTGTTGGGTTGTAATTTCTTGTTTGTTCAAAATAATCAAATATCCCTTCTA-GATTCC
1 CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCTAGGATTCC
* * * * **
106987486 ATTCAAGTCTTCT-A-AAAATCCTCTAAAACGAAGGCAATACTCGGTGTTTGACAATTCGGGAAC
66 ACTCAAGTCTTCTAAGAAAACCCTCTAAAACAAAGGCAATACTCGATGTTTGACAATTCAAGAAC
106987549 CATG
131 CATG
* * * * *
106987553 CCCTATCGTGTTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATAT-TCTTTTAGGTTTTC
1 CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCTAGGATTCC
* * * * ** * *
106987617 ACTCATGTCTTTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGCAATTCAAGAAT
66 ACTCAAGTCTTCTAAGAAAACCCTCTAAAACAAAGGCAATACTCGATGTTTGACAATTCAAGAAC
*
106987682 CGTG
131 CATG
* * * *
106987686 CCCTATCGCGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTC
1 CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTC
106987742 GGAATTTCAC
Statistics
Matches: 153, Mismatches: 32, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
130 5 0.03
131 58 0.38
132 1 0.01
133 85 0.56
134 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (134 bp):
CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCTAGGATTCC
ACTCAAGTCTTCTAAGAAAACCCTCTAAAACAAAGGCAATACTCGATGTTTGACAATTCAAGAAC
CATG
Found at i:106989300 original size:19 final size:19
Alignment explanation
Indices: 106989293--106989340 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
106989283 TCATCCCATG
106989293 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
106989312 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
106989331 CATTTGCATT
1 CATTTGCATT
106989341 AAATTTCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:106989304 original size:24 final size:24
Alignment explanation
Indices: 106989277--106989330 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
106989267 TTTCTTTCCT
*
106989277 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
106989301 TTGCATTGCATCATTTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
106989325 TTGCAT
1 TTGCAT
106989331 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:106991900 original size:4 final size:4
Alignment explanation
Indices: 106991893--106991937 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
106991883 AAAAAAAAAG
106991893 AGAA AGAA AGAA AGAA AGAA AG-A AGAA A-AA A-AA AG-A AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
106991937 A
1 A
106991938 AGGAGAGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 12 0.32
4 26 0.68
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:106993077 original size:88 final size:88
Alignment explanation
Indices: 106992928--106994042 Score: 1035
Period size: 88 Copynumber: 12.7 Consensus size: 88
106992918 GCGAATCTTA
* * *** ** * * *
106992928 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATTAAATATAGCAGATTTGGCATCTCTGT-GT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAG-
* * * **
106992992 TGACAGAGAGTAGATTAAAGATAG
65 CGGCAGAGAGCAGATCGAAGATAG
* * * * * **
106993016 CAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCAAAGATAGCGGATTTGACGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
106993081 GGCAGAGAGCAGATCGAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * ** *
106993104 CAGATTTGGCGTCTTTGTATCGGCGGAGAGCAGATCGAAGATAGTA-ATTTTTCGTCTATATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* *
106993168 GGCGGAGAGCAGATCGAAGATAA
66 GGCAGAGAGCAGATCGAAGATAG
* * *
106993191 CGGATTTGGCATCTCTGTAGCTT--CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
1 CAGATTTGGCGTCTCTGTA--TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATA
* *
106993254 GCGGCGGAGAGCAGATCGAAGATAA
64 GCGGCAGAGAGCAGATCGAAGATAG
* * ** * *
106993279 TAGATTTGGTGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* * *
106993344 GGC-GAAGAACAGATCAAAAATAG
66 GGCAG-AGAGCAGATCGAAGATAG
* ** * * *
106993367 CAGATTTAGCGTCTCTGTAGCGGCGGAGAGCAAATTGAAGATAACAGATTTGGCGTCTCTATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
*
106993432 GGCGGAGAGCAGATCGAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * *
106993455 CAGATTTGGCGTTTCTGTATTGTCAGA-AGGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAG
1 CAGATTTGGCGTCTCTGTATTGGCGGAGA-GCAGATCGAAGATAGCAGATTTGGCGTCTCTATAG
** * * *
106993519 CGGTGGAAAGCAGATAGAAGATAA
65 CGGCAGAGAGCAGATCGAAGATAG
* ** * * ** * *
106993543 CAAATTCAGCGTCTTTATAGCGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
*
106993608 GGCAGAGAGCAGATCGAAGATAA
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * **
106993631 CAGATTTGCCATCTCTGTGTTGGCGGAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* * *
106993696 GGCGGAGAGTAGATCAAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * * *
106993719 TAGATTTGGCGTCTCTGTATTGTCAGAG-GACAGATCAAAAATAGCATATTTGGCGTCTCTATAT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAG-CAGATCGAAGATAGCAGATTTGGCGTCTCTATAG
* * * *
106993783 TGGCTGAGAGCAAATCGAGGATAG
65 CGGCAGAGAGCAGATCGAAGATAG
* * * **
106993807 CAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* *
106993872 GTCAGAGGGCAGATCGAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * * *
106993895 CAGATTTGGCGTCTCTGTATTGTC-AAAAGGCAAATTGAAGATAGCAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGA-GCAGATCGAAGATAGCAGATTTGGCGTCTCTATAG
* * *
106993959 TGTCAGAG-GATAGATCGAAGATAG
65 CGGCAGAGAG-CAGATCGAAGATAG
* * * * * *
106993983 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT-GACAGATTTGGCATCTCT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCT
106994043 GTATTACAGT
Statistics
Matches: 854, Mismatches: 157, Indels: 32
0.82 0.15 0.03
Matches are distributed among these distances:
87 78 0.09
88 770 0.90
89 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (88 bp):
CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
GGCAGAGAGCAGATCGAAGATAG
Found at i:106994046 original size:132 final size:132
Alignment explanation
Indices: 106992928--106994047 Score: 1074
Period size: 132 Copynumber: 8.5 Consensus size: 132
106992918 GCGAATCTTA
* ** * * * *
106992928 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATTAAATATAGCAGATTTGGCATCTCTGTGTT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * * ** ** * *
106992993 GACAGAGAGTAGATTAAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCAAAGAT
66 GGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
106993058 AG
131 AG
* * * * * *
106993060 CGGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATC
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* ** * *
106993125 GGCGGAGAGCAGATCGAAGATAGTA-ATTTTTCGTCTATATAGCGGCGGAGAGCAGATCGAAGAT
66 GGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
*
106993189 AA
131 AG
* * * * * *
106993191 CGGATTTGGCATCTCTGTAGCTT--CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
1 CAGATTTGGCGTCTCTGT-G-TTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTA
** ** * *
106993254 GCGGCGGAGAGCAGATCGAAGATAATAGATTTGGTGTCTCTGTAGCGGCGAAGAGCAGATCGAAG
64 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
106993319 ATAG
129 ATAG
* * * * * *
106993323 CAGATTTGGCATCTCTATAG-CGGC-GAAGAACAGATCAAAAATAGCAGATTTAGCGTCTCTGTA
1 CAGATTTGGCGTCTCTGT-GTTGGCAG-AGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTA
** * * * *
106993386 GCGGCGGAGAGCAAATTGAAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAG
64 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
106993451 ATAG
129 ATAG
* * * * *
106993455 CAGATTTGGCGTTTCTGTATTGTCAGA-AGGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAG
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGA-GCAGATCAAAGATAGCAGATTTGGCGTCTCTGTAT
* * * * * * ** * * * *
106993519 CGGTGGAAAGCAGATAGAAGATAACAAATTCAGCGTCTTTATAGCGGCAGAGAGCAGATCAAAGA
65 TGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
106993584 TAG
130 TAG
* * * * * * *
106993587 CAGATTTGGCGTCTCTATAG-CGGCAGAGAGCAGATCGAAGATAACAGATTTGCCATCTCTGTGT
1 CAGATTTGGCGTCTCTGT-GTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTAT
* ** * *
106993651 TGGCGGAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGTAGATCAAAGA
65 TGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
106993716 TAG
130 TAG
* * * * * *
106993719 TAGATTTGGCGTCTCTGTATTGTCAGAG-GACAGATCAAAAATAGCATATTTGGCGTCTCTATAT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAG-CAGATCAAAGATAGCAGATTTGGCGTCTCTGTAT
* * * ** *
106993783 TGGCTGAGAGCAAATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCGAAGA
65 TGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
106993848 TAG
130 TAG
* * * * *
106993851 CAGATTTGGTGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * * * * ** * * *
106993916 GTC-AAAAGGCAAATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAG-GATAGATCGAAG
66 GGCGGAGA-GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAG-CAGATCGAAG
106993979 ATAG
129 ATAG
* * *
106993983 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT-GACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAG-CAGATTTGGCGTCTCTGTAT
106994047 T
65 T
106994048 ACAGTGGAGC
Statistics
Matches: 827, Mismatches: 144, Indels: 34
0.82 0.14 0.03
Matches are distributed among these distances:
131 116 0.14
132 706 0.85
133 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (132 bp):
CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
GGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
AG
Found at i:106994058 original size:44 final size:44
Alignment explanation
Indices: 106992928--106994067 Score: 859
Period size: 44 Copynumber: 25.9 Consensus size: 44
106992918 GCGAATCTTA
* * ** * ** *
106992928 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATTAAATATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* * * * * **
106992972 CAGATTTGGCATCTCTGTGTTGACAGAGAGTAGATTAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* *
106993016 CAGATTTGGCGTCTCTGTATTGGC-GGAAAGCAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * *
106993060 CGGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* *
106993104 CAGATTTGGCGTCTTTGTATCGGC-GGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* ** * * ** *
106993148 TA-ATTTTTCGTCTATATAGCGGC-GGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * *
106993191 CGGATTTGGCATCTCTGTAGCTT--C-GGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTA--TTGGCAGG-GAGCAGATCGAAGATAG
* ** *
106993235 CAGATTTGGCGTCTCTATAGCGGC-GGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * ** *
106993279 TAGATTTGGTGTCTCTGTAGCGGC-GAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* * ** * * * *
106993323 CAGATTTGGCATCTCTATAGCGGC-GAAGAACAGATCAAAAATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* ** * * *
106993367 CAGATTTAGCGTCTCTGTAGCGGC-GGAGAGCAAATTGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* **
106993411 CAGATTTGGCGTCTCTATAGCGGC-GGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * * * *
106993455 CAGATTTGGCGTTTCTGTATTGTCA-GAAGGCAGATCAAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGGGA-GCAGATCGAAGATAG
** * * * *
106993499 CAGATTTGGCGTCTCTGTAGCGG-TGGAAAGCAGATAGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* ** * * ** * *
106993543 CAAATTCAGCGTCTTTATAGCGGCAGAGAGCAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* ** * *
106993587 CAGATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* * * *
106993631 CAGATTTGCCATCTCTGTGTTGGC-GGAGAGCAGATCGAGGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* *
106993675 CAGATTTGGCGTCTCTGTATTGGC-GGAGAGTAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * * *
106993719 TAGATTTGGCGTCTCTGTATTGTCAGAGGA-CAGATCAAAAATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* * * * * *
106993763 CATATTTGGCGTCTCTATATTGGCTGAGAGCAAATCGAGGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
*
106993807 CAGATTTGGCGTCTCTGTATTGGC-GGAAAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* *
106993851 CAGATTTGGTGTCTCTGTATTGTCAGAGG-GCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* ** * *
106993895 CAGATTTGGCGTCTCTGTATTGTCA-AAAGGCAAATTGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGA-GCAGATCGAAGATAG
* *
106993939 CAGATTTGGCGTCTCTGTATTGTCAGAGGA-TAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* * * * *
106993983 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT-G
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* * *
106994026 ACAGATTTGGCATCTCTGTATT-ACAGTGGAGCAAATCGAAGA
1 -CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGA
106994068 CGACGAATCT
Statistics
Matches: 909, Mismatches: 158, Indels: 58
0.81 0.14 0.05
Matches are distributed among these distances:
43 49 0.05
44 849 0.93
45 8 0.01
46 3 0.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
Found at i:106997462 original size:131 final size:131
Alignment explanation
Indices: 106997092--106997601 Score: 504
Period size: 132 Copynumber: 3.9 Consensus size: 131
106997082 TGATTATACA
* * * * * * *
106997092 TTTAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGCAGAATAGTGCCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCG-GGAATCGTGCCCTAAC
* * ** * *
106997157 GTGTTGGGTTGCAATTTCGCGTTTGCTCGGAATAATCGAATATCCCTTC-AAACTTTCACTCATG
65 GTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTAGA-TTTCACTCATG
*
106997221 CCT
129 TCT
* * * *
106997224 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTTGATATTTGGCAATTCGCGGAATCGTACCCTAA
1 TTTAAAAATCCTTTAAAACGAAGGCAATA-TTCGATGTTTGGCAATTCG-GGAATCGTGCCCTAA
* * * * * *
106997288 CGTGTTGGGTTGCAATTTCTCATTTGTTCAAAATAATCAAATATCCCTTCTAGATTCCATTCAGG
64 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTAGATTTCACTCATG
106997353 TCT
129 TCT
* * * * * * *
106997356 TCTAAAAATCCTCTAAAACGAAGGCAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCG
1 TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAACG
** * * * *
106997421 TGTTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATAT-TCTTTTAGGTTTTCACTCATGT
66 TGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTA-GATTTCACTCATGT
106997485 CT
130 CT
* * * * ** *
106997487 TTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGCAATTCAAGAATCGTGCCCTAT
1 TTT-A-AAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAA
* * * *
106997552 CGCGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTC
64 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC
106997602 GGAATTTCAC
Statistics
Matches: 312, Mismatches: 59, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
130 5 0.02
131 65 0.21
132 149 0.48
133 89 0.29
134 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAACG
TGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTAGATTTCACTCATGTC
T
Found at i:107002768 original size:29 final size:29
Alignment explanation
Indices: 107002706--107002762 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
107002696 AAAAAACTTT
* *
107002706 AAGAATTGAGAATTTTGAATAAAAAAATC
1 AAGAATTGACAATTTAGAATAAAAAAATC
107002735 AAGAATTGACAATTTAGAATAAAAAAAT
1 AAGAATTGACAATTTAGAATAAAAAAAT
107002763 TGAGAACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (29 bp):
AAGAATTGACAATTTAGAATAAAAAAATC
Found at i:107004936 original size:22 final size:21
Alignment explanation
Indices: 107004909--107004953 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
107004899 TTTATATGTT
107004909 TTTATTTTTAAAAATTTAAGAA
1 TTTATTTTTAAAAATTTAA-AA
* *
107004931 TTTATTTTTTAAATTTTAAAA
1 TTTATTTTTAAAAATTTAAAA
107004952 TT
1 TT
107004954 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTATTTTTAAAAATTTAAAA
Found at i:107004952 original size:29 final size:26
Alignment explanation
Indices: 107004877--107004953 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 26
107004867 GTCTTTCTAG
107004877 TTTTTGTAAA-TTTAAAATTTAATTTA
1 TTTTT-TAAATTTTAAAATTTAATTTA
* *
107004903 TATGTTTTTATTTTTAAAAATTTAAGAATTTA
1 T-T-TTTTAAATTTT-AAAATTT---AATTTA
107004935 TTTTTTAAATTTTAAAATT
1 TTTTTTAAATTTTAAAATT
107004954 CAAATTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 6 0.15
29 13 0.32
30 9 0.22
31 1 0.03
32 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTTAAATTTTAAAATTTAATTTA
Found at i:107006076 original size:21 final size:21
Alignment explanation
Indices: 107006052--107006092 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
107006042 CGATTAATTC
*
107006052 AGTTTTAATTAAATTTTTCTT
1 AGTTTTAATTAAAATTTTCTT
107006073 AGTTTTAATTAAAATTTTCT
1 AGTTTTAATTAAAATTTTCT
107006093 AATTGTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
AGTTTTAATTAAAATTTTCTT
Found at i:107007831 original size:19 final size:19
Alignment explanation
Indices: 107007807--107007847 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
107007797 ATAGAGGATG
107007807 AGGCTAGGTTGTAGAGGCT
1 AGGCTAGGTTGTAGAGGCT
107007826 AGGCTAGGTTGTAGAGGCT
1 AGGCTAGGTTGTAGAGGCT
107007845 AGG
1 AGG
107007848 TTGTTGAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.44, T:0.24
Consensus pattern (19 bp):
AGGCTAGGTTGTAGAGGCT
Found at i:107008844 original size:14 final size:15
Alignment explanation
Indices: 107008815--107008847 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
107008805 TAGCTTGCTC
*
107008815 ATATTAATTTTTTTT
1 ATATTAATTATTTTT
107008830 ATATT-ATTATTTTT
1 ATATTAATTATTTTT
107008844 ATAT
1 ATAT
107008848 AAAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTAATTATTTTT
Found at i:107016219 original size:28 final size:28
Alignment explanation
Indices: 107016179--107016240 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
107016169 AAAAAAGAAG
*
107016179 CATTTCTACTATGATAGAAATGTCTGGC
1 CATTTTTACTATGATAGAAATGTCTGGC
107016207 CATTTTTACTATGATAGAAATGTCTGGC
1 CATTTTTACTATGATAGAAATGTCTGGC
107016235 CATTTT
1 CATTTT
107016241 GAAAAGCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (28 bp):
CATTTTTACTATGATAGAAATGTCTGGC
Found at i:107018747 original size:25 final size:25
Alignment explanation
Indices: 107018718--107018767 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
107018708 TAAAATCGAA
*
107018718 GAGTTGTGAAAATTTTATGGTTCTT
1 GAGTTATGAAAATTTTATGGTTCTT
107018743 GAGTTATGAAAATTTTATGGTTCTT
1 GAGTTATGAAAATTTTATGGTTCTT
107018768 ACATATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (25 bp):
GAGTTATGAAAATTTTATGGTTCTT
Found at i:107019844 original size:18 final size:18
Alignment explanation
Indices: 107019801--107019844 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
107019791 GATAAAAATG
* *
107019801 ATTATTTTATAAAACAAA
1 ATTATTTTAAAAAAAAAA
*
107019819 CTTAATTTTAAAAAAAAAA
1 ATT-ATTTTAAAAAAAAAA
107019838 ATTATTT
1 ATTATTT
107019845 CATTAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATTTTAAAAAAAAAA
Found at i:107020774 original size:15 final size:15
Alignment explanation
Indices: 107020754--107020785 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
107020744 TATATAGACT
107020754 TAAATAACACTAAGA
1 TAAATAACACTAAGA
107020769 TAAATAACACTAAGA
1 TAAATAACACTAAGA
107020784 TA
1 TA
107020786 GATGCAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (15 bp):
TAAATAACACTAAGA
Found at i:107020836 original size:30 final size:30
Alignment explanation
Indices: 107020802--107020864 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
107020792 ACTTAACAAG
107020802 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
107020832 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
107020862 CAA
1 CAA
107020865 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:107022866 original size:4 final size:4
Alignment explanation
Indices: 107022857--107022891 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
107022847 GATCGAGCAA
107022857 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
107022892 ATTACAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:107029242 original size:22 final size:22
Alignment explanation
Indices: 107029216--107029260 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
107029206 CAGTTGAGTC
107029216 TTAGTTCAATTGACATGAATAT
1 TTAGTTCAATTGACATGAATAT
*
107029238 TTAGTTTAATTGACATGAATAT
1 TTAGTTCAATTGACATGAATAT
107029260 T
1 T
107029261 GTTATCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (22 bp):
TTAGTTCAATTGACATGAATAT
Found at i:107031088 original size:16 final size:16
Alignment explanation
Indices: 107031069--107031099 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107031059 TATTTTAGAG
107031069 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
107031085 CATATATATTTGAAA
1 CATATAAATTTGAAA
107031100 ACTCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:107031296 original size:11 final size:10
Alignment explanation
Indices: 107031192--107031305 Score: 59
Period size: 10 Copynumber: 10.8 Consensus size: 10
107031182 AAAATTATTA
*
107031192 TTTTAGAATT
1 TTTTATAATT
107031202 TTTT-TAACTT
1 TTTTATAA-TT
107031212 TTTTATATATT
1 TTTTATA-ATT
* * *
107031223 CTTTAGAAAT
1 TTTTATAATT
*
107031233 TTTTAGAATTT
1 TTTTATAA-TT
* *
107031244 TTATTTTAAAT
1 TT-TTATAATT
*
107031255 TTTGATAATT
1 TTTTATAATT
*
107031265 TTTTAAAAATAT
1 TTTT-ATAAT-T
* *
107031277 ATATATAATTT
1 TTTTATAA-TT
107031288 TTTTATAATT
1 TTTTATAATT
107031298 TTTTATAA
1 TTTTATAA
107031306 ATATTTGGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
9 2 0.03
10 37 0.48
11 29 0.38
12 9 0.12
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:107033963 original size:12 final size:12
Alignment explanation
Indices: 107033946--107033983 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
107033936 CGGCCCGCCC
107033946 ATATTAATTTTT
1 ATATTAATTTTT
107033958 ATATT-ATTTTT
1 ATATTAATTTTT
*
107033969 ATA-TAATTTTA
1 ATATTAATTTTT
107033980 ATAT
1 ATAT
107033984 ATATATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:107034136 original size:30 final size:30
Alignment explanation
Indices: 107034100--107034157 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
107034090 CAATTTAACA
*
107034100 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
107034130 AGCAAATGTCTTTAAAATAATAAAAAAA
1 AGCAAATGCCTCTAAAATAATAAAAAAA
107034158 ATTAACAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:107040438 original size:11 final size:11
Alignment explanation
Indices: 107040424--107040459 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
107040414 AAAAAAAAAA
107040424 GAAGAGAGAGG
1 GAAGAGAGAGG
*
107040435 GAAGAGAGAAG
1 GAAGAGAGAGG
107040446 GAAGAGAGAAGG
1 GAAGAGAG-AGG
107040458 GA
1 GA
107040460 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:107040588 original size:17 final size:17
Alignment explanation
Indices: 107040566--107040604 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
107040556 AGGTAAAAAA
* * *
107040566 TTTATTTTTTGTTTTTT
1 TTTATTTGTTGTATATT
107040583 TTTATTTGTTGTATATT
1 TTTATTTGTTGTATATT
107040600 TTTAT
1 TTTAT
107040605 GTTAAATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTATTTGTTGTATATT
Found at i:107041582 original size:132 final size:132
Alignment explanation
Indices: 107041353--107042159 Score: 1301
Period size: 132 Copynumber: 6.1 Consensus size: 132
107041343 AAGATCTGTA
* * * * **
107041353 ATCTTCAATCTACTTCATGCCAATACATG-AGACAAGATCTACTTTCTTCGATCTACTTTACCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * *
107041417 CAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
107041482 CT
131 CT
107041484 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * *
107041549 CAATATGAGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
107041614 TT
131 CT
* *
107041616 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAGTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
107041681 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
107041746 TT
131 CT
*
107041748 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
107041813 CAATATGGGAAAACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
107041878 CT
131 CT
*
107041880 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * *
107041945 CAATATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
107042010 CT
131 CT
107042012 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * *
107042077 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAG
66 CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
107042142 CT
131 CT
*
107042144 ATCTTTGATCTACTTC
1 ATCTTCGATCTACTTC
107042160 TTGCCCCGGG
Statistics
Matches: 636, Mismatches: 39, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
131 27 0.04
132 609 0.96
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
CAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
CT
Found at i:107042514 original size:95 final size:95
Alignment explanation
Indices: 107042272--107042752 Score: 838
Period size: 95 Copynumber: 5.0 Consensus size: 95
107042262 AAGATCTGCA
107042272 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CAT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAC-T
**
107042336 GTAGTCACATAGAGGTAAAATCTGCCATCTTTG
65 GTAGT--CAGGGAGGTAAAATCTGCCATCTTTG
107042369 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
107042434 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
107042464 ATCTTCAATCTATTCCACTGCCAGATGCAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
107042529 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* *
107042559 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCCTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
107042624 TAGTCAGGGAGGTAAAATCTGCCATATTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
107042654 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
107042719 TTGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
107042749 ATCT
1 ATCT
107042753 GCTTCGCTGC
Statistics
Matches: 368, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
95 300 0.82
97 67 0.18
98 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:107042834 original size:41 final size:41
Alignment explanation
Indices: 107042789--107043006 Score: 97
Period size: 41 Copynumber: 5.1 Consensus size: 41
107042779 AGATCTGATA
107042789 TCTTCAACCAGCTCTACTACAAATGAGAGAGGCAAGGTTTG
1 TCTTCAACCAGCTCTACTACAAATGAGAGAGGCAAGGTTTG
* * * * * * * *
107042830 TCTTCGATCTGCT-TCGCTGTC-AGTGCAG-GAAGGCAAGATCTGCTA
1 TCTTCAACCAGCTCT-ACT-ACAAATG-AGAG-AGGCAAGGT-T--TG
* *
107042875 TCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
1 TCTTCAACCAGCTCTACTACAAATGAGAGAGGCAAGGTTTG
* * * * * * *
107042916 TCTTCGATCTGCT-TCGCTGTC-AATGCAG-GAAGGCAAGATCTGCTA
1 TCTTCAACCAGCTCT-ACT-ACAAATG-AGAG-AGGCAAGGT-T--TG
* *
107042961 TCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
1 TCTTCAACCAGCTCTACTACAAATGAGAGAGGCAAGGTTTG
107043002 TCTTC
1 TCTTC
107043007 GATCTGCTTC
Statistics
Matches: 121, Mismatches: 36, Indels: 40
0.61 0.18 0.20
Matches are distributed among these distances:
40 2 0.02
41 39 0.32
42 21 0.17
43 4 0.03
44 20 0.17
45 33 0.27
46 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (41 bp):
TCTTCAACCAGCTCTACTACAAATGAGAGAGGCAAGGTTTG
Found at i:107042869 original size:86 final size:86
Alignment explanation
Indices: 107042743--107043092 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
107042733 AAATCTGCCA
* * * *
107042743 TCTTTGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
*
107042808 CAAATGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
107042830 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
107042895 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
107042916 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
107042981 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
107043002 TCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
107043067 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
107043088 TCTTC
1 TCTTC
107043093 AATTTTTACT
Statistics
Matches: 246, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
86 227 0.92
87 19 0.08
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:107042952 original size:42 final size:42
Alignment explanation
Indices: 107042818--107043038 Score: 107
Period size: 42 Copynumber: 5.2 Consensus size: 42
107042808 CAAATGAGAG
* *
107042818 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
* * * * * * *
107042860 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-ACTGTCAATGCAG-GA
* *
107042903 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
* * * * * * *
107042946 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-ACTGTCAATGCAG-GA
*
107042989 GTGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
107043032 AGGCAAG
1 AGGCAAG
107043039 ATCTGATAAC
Statistics
Matches: 123, Mismatches: 36, Indels: 40
0.62 0.18 0.20
Matches are distributed among these distances:
41 25 0.20
42 33 0.27
43 16 0.13
44 25 0.20
45 24 0.20
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
Found at i:107047232 original size:19 final size:20
Alignment explanation
Indices: 107047208--107047251 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
107047198 CGTGAAAGTC
* *
107047208 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
107047227 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
107047247 -AATGC
1 TAATGC
107047252 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:107050220 original size:11 final size:11
Alignment explanation
Indices: 107050206--107050241 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
107050196 AAAAAAAAAA
107050206 GAAGAGAGAGG
1 GAAGAGAGAGG
*
107050217 GAAGAGAGAAG
1 GAAGAGAGAGG
107050228 GAAGAGAGAAGG
1 GAAGAGAG-AGG
107050240 GA
1 GA
107050242 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:107050370 original size:17 final size:17
Alignment explanation
Indices: 107050348--107050386 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
107050338 AGGTAAAAAA
* * *
107050348 TTTATTTTTTGTTTTTT
1 TTTATTTGTTGTATATT
107050365 TTTATTTGTTGTATATT
1 TTTATTTGTTGTATATT
107050382 TTTAT
1 TTTAT
107050387 GTTAAATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTATTTGTTGTATATT
Found at i:107053096 original size:33 final size:33
Alignment explanation
Indices: 107053059--107053162 Score: 163
Period size: 33 Copynumber: 3.2 Consensus size: 33
107053049 CTTCTTCATC
* * *
107053059 AGAGTCTCTTTCTTCCACTGGATCCTCCCTACT
1 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
107053092 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
1 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
* *
107053125 AGAGTTTCCTTCTTTCACTGAATCCTCTCTACT
1 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
107053158 AGAGT
1 AGAGT
107053163 TTCCTTCTAC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (33 bp):
AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
Found at i:107055002 original size:26 final size:26
Alignment explanation
Indices: 107054966--107055019 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
107054956 GATTTCATCT
*
107054966 ATGTTTACTAGATTAATGACTAATTG
1 ATGTTCACTAGATTAATGACTAATTG
*
107054992 ATGTTCACTAGATTGATGACTAATTG
1 ATGTTCACTAGATTAATGACTAATTG
107055018 AT
1 AT
107055020 TAAAACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (26 bp):
ATGTTCACTAGATTAATGACTAATTG
Found at i:107057207 original size:35 final size:35
Alignment explanation
Indices: 107057168--107057238 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
107057158 CATCGTACCC
107057168 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
*
107057203 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
107057238 A
1 A
107057239 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.35, G:0.25, T:0.13
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
Found at i:107063436 original size:37 final size:37
Alignment explanation
Indices: 107063392--107063558 Score: 298
Period size: 37 Copynumber: 4.5 Consensus size: 37
107063382 CACTTGTCCC
107063392 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
107063429 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
107063466 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* *
107063503 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
107063540 TGATCAGATAAGTATAGCC
1 TGATCAGATAAGTGTAGCC
107063559 GAAGCTATTA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 125 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:107063600 original size:52 final size:52
Alignment explanation
Indices: 107063532--107063735 Score: 345
Period size: 52 Copynumber: 3.9 Consensus size: 52
107063522 ACTTATCACT
*
107063532 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
107063584 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
107063636 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATTACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
* ** **
107063688 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTT
107063736 GTCACTTGAT
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 146 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:107066931 original size:49 final size:50
Alignment explanation
Indices: 107066876--107067079 Score: 232
Period size: 49 Copynumber: 4.0 Consensus size: 50
107066866 TTCGTTTTCT
*
107066876 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
107066925 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
107066974 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * * *
107067032 CGATGCCATAGCCTAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
107067080 GTTCACATGT
Statistics
Matches: 135, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
49 74 0.55
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 38 0.28
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:107067050 original size:58 final size:59
Alignment explanation
Indices: 107066960--107067078 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
107066950 TACACGAAAT
107066960 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
*
107067018 CACATATCACTTACCGATGCCATAGCCTAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
107067077 CA
1 CA
107067079 TGTTCACATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 53 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:107068380 original size:37 final size:37
Alignment explanation
Indices: 107068336--107068502 Score: 298
Period size: 37 Copynumber: 4.5 Consensus size: 37
107068326 CACTTGTCCC
107068336 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
107068373 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
107068410 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* *
107068447 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
107068484 TGATCAGATAAGTATAGCC
1 TGATCAGATAAGTGTAGCC
107068503 GAAGCTATTA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 125 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:107068544 original size:52 final size:52
Alignment explanation
Indices: 107068476--107068679 Score: 345
Period size: 52 Copynumber: 3.9 Consensus size: 52
107068466 ACTTATCACT
*
107068476 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
107068528 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
107068580 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATTACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
* ** **
107068632 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTT
107068680 GTCACTTGAT
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 146 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:107071439 original size:19 final size:20
Alignment explanation
Indices: 107071415--107071454 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
107071405 AGATAAATTT
*
107071415 TCATAAAATTT-GAATTTCA
1 TCATAAAATTTAAAATTTCA
*
107071434 TCATAATATTTAAAATTTCA
1 TCATAAAATTTAAAATTTCA
107071454 T
1 T
107071455 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (20 bp):
TCATAAAATTTAAAATTTCA
Found at i:107079171 original size:19 final size:20
Alignment explanation
Indices: 107079129--107079178 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
107079119 ATTACAAAAT
*
107079129 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAAATTTTAAA
*
107079149 AATTTAAAATAAATTTT-AA
1 AATTCAAAATAAATTTTAAA
107079168 AATTCAAAATA
1 AATTCAAAATA
107079179 TCAAACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAAATTTTAAA
Found at i:107085224 original size:52 final size:51
Alignment explanation
Indices: 107085096--107085298 Score: 175
Period size: 52 Copynumber: 4.0 Consensus size: 51
107085086 TGACAGAAAA
* * * **
107085096 GATGTGATATATGTTTCCGTATAAGACCATAGCCGAGCTATGGCATCGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
* * * *
107085148 AATGTGATTTGCGTTCCCGCATAAGACCATAGCTGGGCTAT-GCATCGGTGT
1 GATGTGATATGTGTT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
** *
107085199 GATGTGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATC-G-GT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
* * * * *
107085250 -A--TGATATGTGATCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGT
1 GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
107085298 G
1 G
107085299 TGATGTGTGA
Statistics
Matches: 120, Mismatches: 24, Indels: 17
0.75 0.15 0.11
Matches are distributed among these distances:
46 25 0.21
47 6 0.05
48 6 0.05
50 1 0.01
51 19 0.16
52 56 0.47
53 7 0.06
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
Found at i:107086513 original size:26 final size:27
Alignment explanation
Indices: 107086455--107086526 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
107086445 CAAGTAAGAC
*
107086455 TAAAAT-ATATATAATAATATAAAAAG
1 TAAAATAAAATATAATAATATAAAAAG
* *
107086481 T-AGATAAAATATAATGATATAAAAA-
1 TAAAATAAAATATAATAATATAAAAAG
107086506 TAAAATAAGAATA-AAGTAATA
1 TAAAATAA-AATATAA-TAATA
107086527 GGTAATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 4 0.11
26 25 0.68
27 8 0.22
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (27 bp):
TAAAATAAAATATAATAATATAAAAAG
Found at i:107087831 original size:13 final size:13
Alignment explanation
Indices: 107087815--107087840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107087805 TTTATTTGGT
107087815 TTATTGGGTTTTG
1 TTATTGGGTTTTG
107087828 TTATTGGGTTTTG
1 TTATTGGGTTTTG
107087841 GGGGTGGCCC
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:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:107106118 original size:33 final size:32
Alignment explanation
Indices: 107106061--107106125 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
107106051 CAACAACCAT
* * *
107106061 CAACCAAAAAAATAATAGCCCATCAAACATCAA
1 CAACCAAAAAAATAACAACACATCAAAC-TCAA
*
107106094 CAACCAAAAAAGTAACAACACATCAAACTCAA
1 CAACCAAAAAAATAACAACACATCAAACTCAA
107106126 ACTCCACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.58, C:0.28, G:0.03, T:0.11
Consensus pattern (32 bp):
CAACCAAAAAAATAACAACACATCAAACTCAA
Found at i:107112103 original size:19 final size:18
Alignment explanation
Indices: 107112068--107112103 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
107112058 GAAGCAAGCA
*
107112068 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
107112086 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
107112104 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:107121032 original size:14 final size:13
Alignment explanation
Indices: 107121011--107121039 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
107121001 TAAATACTAT
107121011 AATTTTTTTTCAA
1 AATTTTTTTTCAA
107121024 AATTTTTTTTCAA
1 AATTTTTTTTCAA
107121037 AAT
1 AAT
107121040 CACTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTTTTTTTCAA
Found at i:107123315 original size:19 final size:19
Alignment explanation
Indices: 107123291--107123330 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
107123281 GATATTGATT
107123291 GAATTTATTTCCAATTTTC
1 GAATTTATTTCCAATTTTC
107123310 GAATTTATTTCCAATTTTC
1 GAATTTATTTCCAATTTTC
107123329 GA
1 GA
107123331 CATTCATTTA
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:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (19 bp):
GAATTTATTTCCAATTTTC
Found at i:107129563 original size:48 final size:48
Alignment explanation
Indices: 107129451--107129583 Score: 178
Period size: 48 Copynumber: 2.8 Consensus size: 48
107129441 TTCAGGTGCG
* *
107129451 AGTTCCCTTGAGTTGGCTTTGGGCCATGGTATAGGTA-TTCCGAGCGA
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTCCGAGCGA
** * **
107129498 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTTGGTGTTA
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTCCGAGCGA
* *
107129546 GGTTACCTTGAGTTGGCTTCGTGCCATGGTATAGGTAC
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTAC
107129584 CTATCGTATG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
47 35 0.46
48 41 0.54
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.35
Consensus pattern (48 bp):
AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTCCGAGCGA
Found at i:107131997 original size:885 final size:885
Alignment explanation
Indices: 107130288--107132064 Score: 3554
Period size: 885 Copynumber: 2.0 Consensus size: 885
107130278 GATGCTAGAA
107130288 ATGGTTTTTAATGAGCATGAATGAAGTTGTTGGATTGTCTAATTTATGCTTTGAATTGTGTCATG
1 ATGGTTTTTAATGAGCATGAATGAAGTTGTTGGATTGTCTAATTTATGCTTTGAATTGTGTCATG
107130353 GTAATAGCTATTGGAAGTAGGCATGTTTGTGTGGAATTGAGGGTAGCAAATGGCTTAGAAAATAG
66 GTAATAGCTATTGGAAGTAGGCATGTTTGTGTGGAATTGAGGGTAGCAAATGGCTTAGAAAATAG
107130418 CTTAAATATTGTCCACATGGGTTGACACACGGGCGTGTGTCTAGGTCATGTGTGACACATGACCT
131 CTTAAATATTGTCCACATGGGTTGACACACGGGCGTGTGTCTAGGTCATGTGTGACACATGACCT
107130483 GTGCCATGGGCATGTGATCCGGCCGTGTATTCCCTGCATTTTGTATTTTTAGGTTCGAATTGGCT
196 GTGCCATGGGCATGTGATCCGGCCGTGTATTCCCTGCATTTTGTATTTTTAGGTTCGAATTGGCT
107130548 ACACGGACTGAGACACGGCCGTGTGTCTTGGCCGTGTGGGAGACACGGCTTAGGGACATGGGCGT
261 ACACGGACTGAGACACGGCCGTGTGTCTTGGCCGTGTGGGAGACACGGCTTAGGGACATGGGCGT
107130613 GTACCTTGGCCGTGTGAAGTCTGCACCTTAATTTTGGAATTTAATTCGCCAAACGAGCTGGACAC
326 GTACCTTGGCCGTGTGAAGTCTGCACCTTAATTTTGGAATTTAATTCGCCAAACGAGCTGGACAC
107130678 ACGGGCGTGTGGTTCGGCCATGTGATACGAGTTAGTATGTATTCCCTATTTCCACATGGCTTGGA
391 ACGGGCGTGTGGTTCGGCCATGTGATACGAGTTAGTATGTATTCCCTATTTCCACATGGCTTGGA
107130743 CACGGGCGTGTCTGATGGCCGTGTGAGCCACACGGGTTAGACACGGGCGTGTGGTATGGCCGTGT
456 CACGGGCGTGTCTGATGGCCGTGTGAGCCACACGGGTTAGACACGGGCGTGTGGTATGGCCGTGT
107130808 TAGATAAGTCAGTAAGCACACTTGTTTGGGTATAGGGTTGGGACACGGCCATGTGATCCCAACAC
521 TAGATAAGTCAGTAAGCACACTTGTTTGGGTATAGGGTTGGGACACGGCCATGTGATCCCAACAC
107130873 AGTCAGGGGACACGGGCATGTCAATTGGCCGTGTGAGTGACACGGCCTGGGCATACGGGCGTGTG
586 AGTCAGGGGACACGGGCATGTCAATTGGCCGTGTGAGTGACACGGCCTGGGCATACGGGCGTGTG
107130938 ACCCTTGCAGTGAAGAAAATTTTCAAATTTTTGTAAACCCTTTTAAATCATGTTTTAAGGTCTCT
651 ACCCTTGCAGTGAAGAAAATTTTCAAATTTTTGTAAACCCTTTTAAATCATGTTTTAAGGTCTCT
107131003 TAGAGCCTTATAAGGGACAATGTTGAATGATTGATAAAAGTTTTAAATTGTATGCAAGTTTATGT
716 TAGAGCCTTATAAGGGACAATGTTGAATGATTGATAAAAGTTTTAAATTGTATGCAAGTTTATGT
107131068 TTGGAAATATGTTCGATTGTTATGGTGTAAGTCTAGTGTTGCCTCATACCCTGTTCTGACGTTGA
781 TTGGAAATATGTTCGATTGTTATGGTGTAAGTCTAGTGTTGCCTCATACCCTGTTCTGACGTTGA
107131133 ATATGGGTAAGGGGGTGTTACATTTATTTGTATTAGAGCT
846 ATATGGGTAAGGGGGTGTTACATTTATTTGTATTAGAGCT
107131173 ATGGTTTTTAATGAGCATGAATGAAGTTGTTGGATTGTCTAATTTATGCTTTGAATTGTGTCATG
1 ATGGTTTTTAATGAGCATGAATGAAGTTGTTGGATTGTCTAATTTATGCTTTGAATTGTGTCATG
107131238 GTAATAGCTATTGGAAGTAGGCATGTTTGTGTGGAATTGAGGGTAGCAAATGGCTTAGAAAATAG
66 GTAATAGCTATTGGAAGTAGGCATGTTTGTGTGGAATTGAGGGTAGCAAATGGCTTAGAAAATAG
107131303 CTTAAATATTGTCCACATGGGTTGACACACGGGCGTGTGTCTAGGTCATGTGTGACACATGACCT
131 CTTAAATATTGTCCACATGGGTTGACACACGGGCGTGTGTCTAGGTCATGTGTGACACATGACCT
107131368 GTGCCATGGGCATGTGATCCGGCCGTGTATTCCCTGCATTTTGTATTTTTAGGTTCGAATTGGCT
196 GTGCCATGGGCATGTGATCCGGCCGTGTATTCCCTGCATTTTGTATTTTTAGGTTCGAATTGGCT
107131433 ACACGGACTGAGACACGGCCGTGTGTCTTGGCCGTGTGGGAGACACGGCTTAGGGACATGGGCGT
261 ACACGGACTGAGACACGGCCGTGTGTCTTGGCCGTGTGGGAGACACGGCTTAGGGACATGGGCGT
107131498 GTACCTTGGCCGTGTGAAGTCTGCACCTTAATTTTGGAATTTAATTCGCCAAACGAGCTGGACAC
326 GTACCTTGGCCGTGTGAAGTCTGCACCTTAATTTTGGAATTTAATTCGCCAAACGAGCTGGACAC
107131563 ACGGGCGTGTGGTTCGGCCATGTGATACGAGTTAGTATGTATTCCCTATTTCCACATGGCTTGGA
391 ACGGGCGTGTGGTTCGGCCATGTGATACGAGTTAGTATGTATTCCCTATTTCCACATGGCTTGGA
107131628 CACGGGCGTGTCTGATGGCCGTGTGAGCCACACGGGTTAGACACGGGCGTGTGGTATGGCCGTGT
456 CACGGGCGTGTCTGATGGCCGTGTGAGCCACACGGGTTAGACACGGGCGTGTGGTATGGCCGTGT
107131693 TAGATAAGTCAGTAAGCACACTTGTTTGGGTATAGGGTTGGGACACGGCCATGTGATCCCAACAC
521 TAGATAAGTCAGTAAGCACACTTGTTTGGGTATAGGGTTGGGACACGGCCATGTGATCCCAACAC
107131758 AGTCAGGGGACACGGGCATGTCAATTGGCCGTGTGAGTGACACGGCCTGGGCATACGGGCGTGTG
586 AGTCAGGGGACACGGGCATGTCAATTGGCCGTGTGAGTGACACGGCCTGGGCATACGGGCGTGTG
107131823 ACCCTTGCAGTGAAGAAAATTTTCAAATTTTTGTAAACCCTTTTAAATCATGTTTTAAGGTCTCT
651 ACCCTTGCAGTGAAGAAAATTTTCAAATTTTTGTAAACCCTTTTAAATCATGTTTTAAGGTCTCT
107131888 TAGAGCCTTATAAGGGACAATGTTGAATGATTGATAAAAGTTTTAAATTGTATGCAAGTTTATGT
716 TAGAGCCTTATAAGGGACAATGTTGAATGATTGATAAAAGTTTTAAATTGTATGCAAGTTTATGT
107131953 TTGGAAATATGTTCGATTGTTATGGTGTAAGTCTAGTGTTGCCTCATACCCTGTTCTGACGTTGA
781 TTGGAAATATGTTCGATTGTTATGGTGTAAGTCTAGTGTTGCCTCATACCCTGTTCTGACGTTGA
107132018 ATATGGGTAAGGGGGTGTTACATTTATTTGTATTAGAGCT
846 ATATGGGTAAGGGGGTGTTACATTTATTTGTATTAGAGCT
107132058 ATGGTTT
1 ATGGTTT
107132065 AGTCGATTCT
Statistics
Matches: 892, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
885 892 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (885 bp):
ATGGTTTTTAATGAGCATGAATGAAGTTGTTGGATTGTCTAATTTATGCTTTGAATTGTGTCATG
GTAATAGCTATTGGAAGTAGGCATGTTTGTGTGGAATTGAGGGTAGCAAATGGCTTAGAAAATAG
CTTAAATATTGTCCACATGGGTTGACACACGGGCGTGTGTCTAGGTCATGTGTGACACATGACCT
GTGCCATGGGCATGTGATCCGGCCGTGTATTCCCTGCATTTTGTATTTTTAGGTTCGAATTGGCT
ACACGGACTGAGACACGGCCGTGTGTCTTGGCCGTGTGGGAGACACGGCTTAGGGACATGGGCGT
GTACCTTGGCCGTGTGAAGTCTGCACCTTAATTTTGGAATTTAATTCGCCAAACGAGCTGGACAC
ACGGGCGTGTGGTTCGGCCATGTGATACGAGTTAGTATGTATTCCCTATTTCCACATGGCTTGGA
CACGGGCGTGTCTGATGGCCGTGTGAGCCACACGGGTTAGACACGGGCGTGTGGTATGGCCGTGT
TAGATAAGTCAGTAAGCACACTTGTTTGGGTATAGGGTTGGGACACGGCCATGTGATCCCAACAC
AGTCAGGGGACACGGGCATGTCAATTGGCCGTGTGAGTGACACGGCCTGGGCATACGGGCGTGTG
ACCCTTGCAGTGAAGAAAATTTTCAAATTTTTGTAAACCCTTTTAAATCATGTTTTAAGGTCTCT
TAGAGCCTTATAAGGGACAATGTTGAATGATTGATAAAAGTTTTAAATTGTATGCAAGTTTATGT
TTGGAAATATGTTCGATTGTTATGGTGTAAGTCTAGTGTTGCCTCATACCCTGTTCTGACGTTGA
ATATGGGTAAGGGGGTGTTACATTTATTTGTATTAGAGCT
Found at i:107135377 original size:50 final size:50
Alignment explanation
Indices: 107135227--107135413 Score: 223
Period size: 50 Copynumber: 3.7 Consensus size: 50
107135217 CTGGTACGCA
* * * ** * *
107135227 TAGTAGCTTGCACTTAGTACTACACATGCGA-CCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
* * *
107135276 TAGTAGCCTGCACTTAGTACTACACAACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACT-----ACACACGCGATCTAACCATCTGATACACG
107135331 TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
*
107135381 TAGTAGCCTGCACTTAGTACTACACACGTGATC
1 TAGTAGCCTGCACTTAGTACTACACACGCGATC
107135414 GAAGTTATCG
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
49 20 0.17
50 58 0.49
54 8 0.07
55 33 0.28
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
Found at i:107140442 original size:40 final size:41
Alignment explanation
Indices: 107140332--107140447 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 41
107140322 TGAGTTACCA
* * * *
107140332 TAGTGAATCAGGAACAAATCCAATCCAC-TTAATATATTTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTATTTC
*
107140372 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTTT-
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTATTTC
107140412 TAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 TAGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
107140448 CTCGAGAAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 53 0.77
41 16 0.23
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (41 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTATTTC
Found at i:107141462 original size:14 final size:14
Alignment explanation
Indices: 107141445--107141477 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
107141435 ACAATTGTCA
107141445 TAATTTAATTTATT
1 TAATTTAATTTATT
*
107141459 TAATTTACTTTATT
1 TAATTTAATTTATT
107141473 TAATT
1 TAATT
107141478 AATATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TAATTTAATTTATT
Found at i:107147880 original size:20 final size:22
Alignment explanation
Indices: 107147850--107147897 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
107147840 GAATATGCTG
*
107147850 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
107147872 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
107147893 TAAAT
1 TAAAT
107147898 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:107148710 original size:65 final size:66
Alignment explanation
Indices: 107148599--107148726 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 66
107148589 GAAAAGGAAA
* * * * *
107148599 GGTATACTTTGTGTATACCATATGAAAAGGCTATGTACACTATGTGTCTA-CACTTGGAAAGGTT
1 GGTATACTTTGTGTATACCATATAAAAAGGCAAGGTACACTATGTGTATACCACTTGAAAAGGTT
107148663 G
66 G
* *
107148664 GGTATACTTTGTGTATACCATATAAAAAGG-AAGGGTATACTTTGTGTATACCACTTGAAAAGG
1 GGTATACTTTGTGTATACCATATAAAAAGGCAA-GGTACACTATGTGTATACCACTTGAAAAGG
107148727 AAAGGTACAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 1 0.02
65 42 0.78
66 11 0.20
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (66 bp):
GGTATACTTTGTGTATACCATATAAAAAGGCAAGGTACACTATGTGTATACCACTTGAAAAGGTT
G
Found at i:107148771 original size:98 final size:98
Alignment explanation
Indices: 107148585--107148775 Score: 267
Period size: 98 Copynumber: 1.9 Consensus size: 98
107148575 CGGCTATCGA
* ** *
107148585 ATATGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGCTATGTACACTATGTGTCTAC
1 ATATAAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACTATGTGTCTAC
* * *
107148650 ACTTGGAAAGGTTGGGTATACTTTGTGTATACC
66 ACTTGAAAAGGTTAGGTACACTTTGTGTATACC
* *
107148683 ATATAAAAAGGAAGGGTATACTTTGTGTATACCACT-TGAAAAGGAAAGGTACACTATGTGTGTA
1 ATATAAAAAGGAAAGGTATACTTTGTGTATACCA-TATGAAAAGGAAAGGTACACTATGTGTCTA
* *
107148747 CACTTGAAAAGGTTATGTGCACTTTGTGT
65 CACTTGAAAAGGTTAGGTACACTTTGTGT
107148776 GTACAAATTG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 80 0.99
99 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (98 bp):
ATATAAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACTATGTGTCTAC
ACTTGAAAAGGTTAGGTACACTTTGTGTATACC
Found at i:107148797 original size:33 final size:32
Alignment explanation
Indices: 107148588--107148833 Score: 158
Period size: 33 Copynumber: 7.5 Consensus size: 32
107148578 CTATCGAATA
* * * *
107148588 TGAAAAGGAAAGGTATACTTTGTGTATAC-CAT
1 TGAAAAGGATATGTACACTTTGTGTGTACAC-T
* * *
107148620 ATGAAAAGGCTATGTACACTATGTGTCTACACT
1 -TGAAAAGGATATGTACACTTTGTGTGTACACT
* * ** * *
107148653 TGGAAAGGTTGGGTATACTTTGTGTATAC-CAT
1 TGAAAAGGATATGTACACTTTGTGTGTACAC-T
* * * *
107148685 ATAAAAAGGA-AGGGTATACTTTGTGTATACCACT
1 -TGAAAAGGATA-TGTACACTTTGTGTGTA-CACT
* * *
107148719 TGAAAAGGAAAGGTACACTATGTGTGTACACT
1 TGAAAAGGATATGTACACTTTGTGTGTACACT
* * *
107148751 TGAAAAGGTTATGTGCACTTTGTGTGTACAAAT
1 TGAAAAGGATATGTACACTTTGTGTGTAC-ACT
* *
107148784 TGAAAAGGGTATGTACACTTCGTGTGTACTACT
1 TGAAAAGGATATGTACACTTTGTGTGTAC-ACT
107148817 TGAAAAAGGA-ATGTACA
1 TG-AAAAGGATATGTACA
107148834 TCTCGGGTGT
Statistics
Matches: 171, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
31 1 0.01
32 51 0.30
33 108 0.63
34 10 0.06
35 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (32 bp):
TGAAAAGGATATGTACACTTTGTGTGTACACT
Found at i:107148833 original size:98 final size:98
Alignment explanation
Indices: 107148584--107148833 Score: 238
Period size: 98 Copynumber: 2.6 Consensus size: 98
107148574 TCGGCTATCG
* * * * **
107148584 AATATGAAAAGGAAAGGTATACTTTGTGTATACCA-TATGAAAAGGCTATGTACACTATGTGTCT
1 AATATAAAAAGGAAGGGTACACTTCGTGTATACCACT-TGAAAAGGAAATGTACACTATGTGTCT
* * *
107148648 ACACTTGGAAAGGTTGGGTATACTTTGTGTATAC
65 ACACTTGAAAAGGTTAGGTACACTTTGTGTATAC
* * * * *
107148682 CATATAAAAAGGAAGGGTATACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATGTGTGTA
1 AATATAAAAAGGAAGGGTACACTTCGTGTATACCACTTGAAAAGGAAATGTACACTATGTGTCTA
* * *
107148747 CACTTGAAAAGGTTATGTGCACTTTGTGTGTAC
66 CACTTGAAAAGGTTAGGTACACTTTGTGTATAC
* * * * *
107148780 AA-ATTGAAAAGGGTA-TGTACACTTCGTGTGTACTACTTGAAAAAGG-AATGTACA
1 AATA-T-AAAAAGGAAGGGTACACTTCGTGTATACCACTTG-AAAAGGAAATGTACA
107148834 TCTCGGGTGT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
97 1 0.01
98 111 0.88
99 14 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (98 bp):
AATATAAAAAGGAAGGGTACACTTCGTGTATACCACTTGAAAAGGAAATGTACACTATGTGTCTA
CACTTGAAAAGGTTAGGTACACTTTGTGTATAC
Found at i:107148844 original size:33 final size:33
Alignment explanation
Indices: 107148774--107148855 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
107148764 TGCACTTTGT
* * *
107148774 GTGTACAAATTGAAAAGGGTATGTACACTTCGT
1 GTGTACAAATTGAAAAAGGAATGTACACTTCGG
* *
107148807 GTGTACTACTTGAAAAAGGAATGTACA-TCTCGG
1 GTGTACAAATTGAAAAAGGAATGTACACT-TCGG
107148840 GTGTAC-AATTAGAAAA
1 GTGTACAAATT-GAAAA
107148856 GAAAAGGTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 4 0.10
33 37 0.90
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (33 bp):
GTGTACAAATTGAAAAAGGAATGTACACTTCGG
Found at i:107151343 original size:6 final size:6
Alignment explanation
Indices: 107151326--107151403 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
107151316 CCTTTTGGAC
* * * * * * * *
107151326 CTCCTC CTCCTT CTCCTT CTACTT CTTCTT CTTCTC CTTCTT CTTCTC
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* *
107151374 CTGCTT CTCATT CTCCTT CTCCTT CTCCTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
107151404 ATTATTATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.03, C:0.45, G:0.01, T:0.51
Consensus pattern (6 bp):
CTCCTT
Found at i:107151353 original size:9 final size:9
Alignment explanation
Indices: 107151335--107151399 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
107151325 CCTCCTCCTC
*
107151335 CTTCTCCTT
1 CTTCTTCTT
*
107151344 CTACTTCTT
1 CTTCTTCTT
*
107151353 CTTCTTCTC
1 CTTCTTCTT
107151362 CTTCTTCTT
1 CTTCTTCTT
* *
107151371 CTCCTGCTT
1 CTTCTTCTT
*
107151380 C-TCATTCTC
1 CTTC-TTCTT
*
107151389 CTTCTCCTT
1 CTTCTTCTT
107151398 CT
1 CT
107151400 CCTTATTATT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
8 1 0.02
9 39 0.93
10 2 0.05
ACGTcount: A:0.03, C:0.42, G:0.02, T:0.54
Consensus pattern (9 bp):
CTTCTTCTT
Found at i:107151360 original size:21 final size:21
Alignment explanation
Indices: 107151329--107151399 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
107151319 TTTGGACCTC
*
107151329 CTCCTCCTTCTCCTTCTACTT
1 CTCCTTCTTCTCCTTCTACTT
* *
107151350 CTTCTTCTTCTCCTTCTTCTT
1 CTCCTTCTTCTCCTTCTACTT
* * *
107151371 CTCCTGCTTCTCATTCTCCTT
1 CTCCTTCTTCTCCTTCTACTT
107151392 CTCCTTCT
1 CTCCTTCT
107151400 CCTTATTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.03, C:0.44, G:0.01, T:0.52
Consensus pattern (21 bp):
CTCCTTCTTCTCCTTCTACTT
Found at i:107151380 original size:15 final size:15
Alignment explanation
Indices: 107151326--107151402 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
107151316 CCTTTTGGAC
* *
107151326 CTCCTCCTCCTTCTC
1 CTCCTCCTTCTTCTT
* *
107151341 CTTCTACTTCTTCTT
1 CTCCTCCTTCTTCTT
*
107151356 CTTCTCCTTCTTCTT
1 CTCCTCCTTCTTCTT
* *
107151371 CTCCTGCTTC-TCAT
1 CTCCTCCTTCTTCTT
*
107151385 -T-CTCCTTCTCCTT
1 CTCCTCCTTCTTCTT
107151398 CTCCT
1 CTCCT
107151403 TATTATTATT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
12 6 0.12
13 3 0.06
14 4 0.08
15 35 0.73
ACGTcount: A:0.03, C:0.45, G:0.01, T:0.51
Consensus pattern (15 bp):
CTCCTCCTTCTTCTT
Found at i:107151400 original size:27 final size:27
Alignment explanation
Indices: 107151332--107151402 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
107151322 GGACCTCCTC
* *
107151332 CTCCTTCTCCTTCTACTTCTTCTTCTT
1 CTCCTTCTCCTTCTCCTGCTTCTTCTT
*
107151359 CTCCTTCTTCTTCTCCTGCTTC-TCATT
1 CTCCTTCTCCTTCTCCTGCTTCTTC-TT
107151386 CTCCTTCTCCTTCTCCT
1 CTCCTTCTCCTTCTCCT
107151403 TATTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.03, C:0.44, G:0.01, T:0.52
Consensus pattern (27 bp):
CTCCTTCTCCTTCTCCTGCTTCTTCTT
Found at i:107151499 original size:6 final size:6
Alignment explanation
Indices: 107151481--107151572 Score: 94
Period size: 6 Copynumber: 15.3 Consensus size: 6
107151471 TTTGGACCTC
* * * * * * *
107151481 CTCCTC CTCCTT CTGCTT CTGCTT CTACTT CTCTTT CTGCTT CTTCTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* * *
107151529 CTCCTT CTCATT CTCCTT CTCCTT CTCATT CTCCTC CTCCTT CT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CT
107151573 TTATTATTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.03, C:0.43, G:0.03, T:0.50
Consensus pattern (6 bp):
CTCCTT
Found at i:107151579 original size:3 final size:3
Alignment explanation
Indices: 107151573--107151621 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
107151563 TCCTCCTTCT
107151573 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
107151621 T
1 T
107151622 ACCTAAAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:107152551 original size:16 final size:16
Alignment explanation
Indices: 107152530--107152567 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
107152520 AAAATATGCG
*
107152530 TTATATA-TATAATCAA
1 TTATATACT-TAATAAA
107152546 TTATATACTTAATAAA
1 TTATATACTTAATAAA
107152562 TTATAT
1 TTATAT
107152568 CTAATGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATATACTTAATAAA
Found at i:107153753 original size:31 final size:30
Alignment explanation
Indices: 107153682--107153754 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
107153672 AATTATACAT
* *
107153682 AAACTTTAATTTGGTGCAATTATACACGTG
1 AAACTTTAATTTGGTGCAAATATACACCTG
* * * *
107153712 ATACTCTAATTGTGGTTCAAATATATACCTG
1 AAACTTTAATT-TGGTGCAAATATACACCTG
107153743 AAACTTTAATTT
1 AAACTTTAATTT
107153755 TGATTTAATC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (30 bp):
AAACTTTAATTTGGTGCAAATATACACCTG
Found at i:107153938 original size:29 final size:30
Alignment explanation
Indices: 107153896--107153954 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
107153886 GAATTGGATC
*
107153896 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
* *
107153926 AAATC-AAAGTTCATGTATACAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
107153955 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:107153973 original size:31 final size:29
Alignment explanation
Indices: 107153906--107153975 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
107153896 AAATCAAAAT
*
107153906 TTCATGTATAAAATTACACAAAATCAAAG
1 TTCATGTATAAAATTACACAAAACCAAAG
* *
107153935 TTCATGTATACAATTGCACATTAAACCATAA-
1 TTCATGTATAAAATTACACA--AAACCA-AAG
107153966 TTCATGTATA
1 TTCATGTATA
107153976 GTTTTGGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.51
31 15 0.43
32 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (29 bp):
TTCATGTATAAAATTACACAAAACCAAAG
Found at i:107158357 original size:48 final size:49
Alignment explanation
Indices: 107158264--107158357 Score: 129
Period size: 48 Copynumber: 1.9 Consensus size: 49
107158254 GATACCTGGG
*
107158264 AATCTCGCACAATAAGTGCCATTATAAATATAGCTGACGCTATCTCAATA
1 AATCTCGCACAATAAGTGCCA-TATAAATATAGCTGAAGCTATCTCAATA
* *
107158314 AATCTCGCACCCA-AAGTGCCA-ATATATATAGCTGAAGCTATCTC
1 AATCTCGCA-CAATAAGTGCCATATAAATATAGCTGAAGCTATCTC
107158358 GACAATGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
48 21 0.52
50 17 0.43
51 2 0.05
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (49 bp):
AATCTCGCACAATAAGTGCCATATAAATATAGCTGAAGCTATCTCAATA
Found at i:107159978 original size:28 final size:28
Alignment explanation
Indices: 107159938--107159993 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
107159928 CAAAAAGGAG
*
107159938 GATTATTCAAAGCGATTTCAATGGACAA
1 GATTATTCAAAGCGATTTCAATAGACAA
107159966 GATTATTCAAAGCGATTTCAATAGACAA
1 GATTATTCAAAGCGATTTCAATAGACAA
107159994 TGGGGATGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (28 bp):
GATTATTCAAAGCGATTTCAATAGACAA
Found at i:107164083 original size:3 final size:3
Alignment explanation
Indices: 107164075--107164103 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
107164065 ACAAAAACAA
107164075 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
107164104 CATGAACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:107164631 original size:3 final size:3
Alignment explanation
Indices: 107164623--107164651 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
107164613 TACAAGAATG
107164623 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
107164652 CGTGTCACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:107165736 original size:18 final size:18
Alignment explanation
Indices: 107165699--107165741 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
107165689 AAAAGCATCA
* *
107165699 TTCAATCCAAACAATGAT
1 TTCAAACCAAACAATAAT
*
107165717 TTCAAACCAAACATTAAT
1 TTCAAACCAAACAATAAT
*
107165735 TTTAAAC
1 TTCAAAC
107165742 TAGGATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (18 bp):
TTCAAACCAAACAATAAT
Found at i:107166513 original size:3 final size:3
Alignment explanation
Indices: 107166505--107166556 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
107166495 GTTGTGTATA
* * *
107166505 TAT TAT TAT TACT AAT TAT TAT TAT T-T CTAG TAT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
107166551 TAT TAT
1 TAT TAT
107166557 GTTAGTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 37 0.93
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:107166526 original size:16 final size:15
Alignment explanation
Indices: 107166505--107166544 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
107166495 GTTGTGTATA
*
107166505 TATTATTATTACTAAT
1 TATTATTATTACT-AG
*
107166521 TATTATTATTTCTAG
1 TATTATTATTACTAG
107166536 TATTATTAT
1 TATTATTAT
107166545 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:107166709 original size:23 final size:26
Alignment explanation
Indices: 107166683--107166738 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 26
107166673 TTTTTTTGTA
107166683 TATATTATTCAT-ACTA-T-CA-TTAT
1 TATATTATT-ATCACTATTACATTTAT
107166706 TATATTATTATCACTATTACATTTAT
1 TATATTATTATCACTATTACATTTAT
107166732 TATATTA
1 TATATTA
107166739 GTATTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 2 0.07
23 13 0.45
24 1 0.03
25 2 0.07
26 11 0.38
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (26 bp):
TATATTATTATCACTATTACATTTAT
Found at i:107168172 original size:31 final size:31
Alignment explanation
Indices: 107168133--107168199 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
107168123 TGGAAGTATG
107168133 ACTA-CTTATCAAGAGTGGTATGGTTCAAAA
1 ACTACCTTATCAAGAGTGGTATGGTTCAAAA
107168163 ACTACCTTATCAAGAGTGGTATGGTTCAAAA
1 ACTACCTTATCAAGAGTGGTATGGTTCAAAA
107168194 ACTACC
1 ACTACC
107168200 CCCATCGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTACCTTATCAAGAGTGGTATGGTTCAAAA
Found at i:107171268 original size:26 final size:25
Alignment explanation
Indices: 107171238--107171314 Score: 127
Period size: 25 Copynumber: 3.0 Consensus size: 25
107171228 AGCCCTCCCC
107171238 AAAAAAAAACCTAACCCAAAAAAAA
1 AAAAAAAAACCTAACCCAAAAAAAA
* *
107171263 AGAAAAAAACATAACCCAAAAAAAA
1 AAAAAAAAACCTAACCCAAAAAAAA
107171288 AAAGAAAAAACCTAACCCAAAAAAAA
1 AAA-AAAAAACCTAACCCAAAAAAAA
107171314 A
1 A
107171315 CCTAACCCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 25 0.53
26 22 0.47
ACGTcount: A:0.75, C:0.18, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAAAAAACCTAACCCAAAAAAAA
Found at i:107171288 original size:18 final size:17
Alignment explanation
Indices: 107171287--107171334 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 17
107171277 CCCAAAAAAA
107171287 AAAAGAAAAAACCTAACCC
1 AAAA-AAAA-ACCTAACCC
107171306 AAAAAAAAACCTAACCCC
1 AAAAAAAAACCTAA-CCC
107171324 AAAAAAAAACC
1 AAAAAAAAACC
107171335 AAGAAACCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.21
18 18 0.64
19 4 0.14
ACGTcount: A:0.67, C:0.27, G:0.02, T:0.04
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:107171314 original size:17 final size:18
Alignment explanation
Indices: 107171292--107171334 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
107171282 AAAAAAAAAG
107171292 AAAAAACCTAA-CCCAAA
1 AAAAAACCTAACCCCAAA
107171309 AAAAAACCTAACCCCAAA
1 AAAAAACCTAACCCCAAA
107171327 AAAAAACC
1 AAAAAACC
107171335 AAGAAACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.65, C:0.30, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAACCTAACCCCAAA
Found at i:107172157 original size:3 final size:3
Alignment explanation
Indices: 107172115--107172143 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
107172105 TTATTGTAGA
107172115 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
107172144 CATACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:107173801 original size:24 final size:24
Alignment explanation
Indices: 107173749--107173918 Score: 209
Period size: 25 Copynumber: 7.0 Consensus size: 24
107173739 GCTTTATCAT
* *
107173749 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTC
* * *
107173774 ATAATTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTC
107173798 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
107173823 ATAATTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
107173848 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
107173873 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
107173896 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
107173919 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
23 20 0.16
24 33 0.26
25 75 0.59
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:107173990 original size:9 final size:9
Alignment explanation
Indices: 107173976--107174032 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
107173966 ATCTCATGTG
107173976 CATATCATA
1 CATATCATA
*
107173985 CATATCATGTG
1 CATATCA--TA
107173996 CATATCATA
1 CATATCATA
* *
107174005 CATGTCATGTG
1 CATATCA--TA
107174016 CATATCATA
1 CATATCATA
107174025 CATATCAT
1 CATATCAT
107174033 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:107173992 original size:20 final size:20
Alignment explanation
Indices: 107173964--107174034 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
107173954 GCATTTACAA
*
107173964 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
107173984 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
107174004 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
107174024 ACATATCATGT
1 ACATATCATGT
107174035 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:107173999 original size:11 final size:11
Alignment explanation
Indices: 107173969--107174023 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
107173959 TACAAACATC
107173969 TCATGTGCATA
1 TCATGTGCATA
*
107173980 TCA--TACATA
1 TCATGTGCATA
107173989 TCATGTGCATA
1 TCATGTGCATA
* *
107174000 TCA--TACATG
1 TCATGTGCATA
107174009 TCATGTGCATA
1 TCATGTGCATA
107174020 TCAT
1 TCAT
107174024 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:107174099 original size:25 final size:25
Alignment explanation
Indices: 107174071--107174118 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
107174061 ATATATAAAC
* * *
107174071 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
107174096 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
107174119 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:107175340 original size:27 final size:27
Alignment explanation
Indices: 107175278--107175355 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
107175268 GGGCATATTC
*
107175278 GTCATTTTACCATACATGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
107175305 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
107175332 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
107175356 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 39 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:107175426 original size:27 final size:27
Alignment explanation
Indices: 107175396--107175583 Score: 119
Period size: 27 Copynumber: 6.9 Consensus size: 27
107175386 GTAAATCTAC
*
107175396 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTAT
* * * *
107175423 AAACCAATGGTATTTCTA-CAATTTTTAG
1 AAACTAAGGGTATTTC-AGTAA-TTTTAT
* * * *
107175451 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAACT-AAGGGTATTTCAGTAATTTTAT
* * * *
107175479 ACA-TCAGGGGTATTTTAGTAATTTTAC
1 AAACT-AAGGGTATTTCAGTAATTTTAT
* * * *
107175506 AAATTGAGGGTATTTCAGTAATTTCAC
1 AAACTAAGGGTATTTCAGTAATTTTAT
* ** *
107175533 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCAGTAATTTTAT
* *
107175560 AAACTAAGGATATTTTAGTAATTT
1 AAACTAAGGGTATTTCAGTAATTT
107175584 GTAAATCGAG
Statistics
Matches: 122, Mismatches: 34, Indels: 10
0.73 0.20 0.06
Matches are distributed among these distances:
27 96 0.79
28 14 0.11
29 12 0.10
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTAT
Found at i:107175617 original size:27 final size:27
Alignment explanation
Indices: 107175577--107175786 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
107175567 GGATATTTTA
**
107175577 GTAATT-TGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
107175603 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
107175630 GTAGTTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
107175657 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
107175684 GTAATTCTATAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
107175711 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* * *
107175738 GTAATTATGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
107175765 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
107175787 CTTTGGTGAT
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.04
27 155 0.96
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:107175825 original size:27 final size:27
Alignment explanation
Indices: 107175795--107175881 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
107175785 TACTTTGGTG
*
107175795 ATTTTACAAGTCGAAGGTATTTCAATA
1 ATTTTACAAATCGAAGGTATTTCAATA
* *
107175822 ATTTTACAAATCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAAGGTATTTCAATA
* * **
107175849 TTTTTACAAA-CTAAGCGTATTTCGGTA
1 ATTTTACAAATCGAAG-GTATTTCAATA
107175876 ATTTTA
1 ATTTTA
107175882 GTAAACTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCGAAGGTATTTCAATA
Found at i:107175888 original size:28 final size:27
Alignment explanation
Indices: 107175811--107175890 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
107175801 CAAGTCGAAG
* * *
107175811 GTATTTCAATAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGC
*
107175838 GTATTTCAGTATTTTTACAAACTAAGC
1 GTATTTCAGTAATTTTACAAACTAAGC
* *
107175865 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
107175891 AGTATTCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 36 0.82
28 8 0.18
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGC
Found at i:107177947 original size:12 final size:12
Alignment explanation
Indices: 107177930--107177965 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
107177920 TCATGACTGA
107177930 CATTCATGCATT
1 CATTCATGCATT
107177942 CATTCATGCATT
1 CATTCATGCATT
*
107177954 CATTCATACATT
1 CATTCATGCATT
107177966 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:107183471 original size:13 final size:15
Alignment explanation
Indices: 107183447--107183480 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
107183437 TTTAATTTTC
107183447 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
107183461 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
107183475 AAAATT
1 AAAATT
107183481 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:107183510 original size:30 final size:31
Alignment explanation
Indices: 107183476--107183577 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
107183466 TTAAAAATAA
*
107183476 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
107183506 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
107183536 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
107183566 AAATTTCATTTT
1 AAATTTCATTTT
107183578 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:107183970 original size:14 final size:14
Alignment explanation
Indices: 107183951--107183977 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107183941 GCTAGACTTT
107183951 GAAGAAGAAGAAAA
1 GAAGAAGAAGAAAA
107183965 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
107183978 GAAAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
GAAGAAGAAGAAAA
Found at i:107183989 original size:17 final size:17
Alignment explanation
Indices: 107183952--107183990 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
107183942 CTAGACTTTG
*
107183952 AAGAAGAAGAAAAGAAG
1 AAGAAGAAGAAAAGAAA
107183969 AAGAAGAAAGAAAA-AAA
1 AAGAAG-AAGAAAAGAAA
107183986 AAGAA
1 AAGAA
107183991 AAATCCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAAGAAA
Found at i:107184294 original size:11 final size:11
Alignment explanation
Indices: 107184278--107184334 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
107184268 GGCCCAGCAG
107184278 AGAAAAAAAAA
1 AGAAAAAAAAA
*
107184289 AG-AAAAGAAA
1 AGAAAAAAAAA
* *
107184299 AGAAGAAAAAG
1 AGAAAAAAAAA
**
107184310 AGAAGGAAAAA
1 AGAAAAAAAAA
107184321 AGAAAAAAAAA
1 AGAAAAAAAAA
107184332 AGA
1 AGA
107184335 GGTTCAATTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:107184309 original size:19 final size:18
Alignment explanation
Indices: 107184280--107184334 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
107184270 CCCAGCAGAG
107184280 AAAAA-AAAAAGAAAAGA
1 AAAAAGAAAAAGAAAAGA
*
107184297 AAAGAAGAAAAAGAGAAGGA
1 AAA-AAGAAAAAGA-AAAGA
*
107184317 AAAAAGAAAAAAAAAAGA
1 AAAAAGAAAAAGAAAAGA
107184335 GGTTCAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.09
18 6 0.19
19 16 0.50
20 7 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAGA
Found at i:107184500 original size:16 final size:17
Alignment explanation
Indices: 107184474--107184511 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
107184464 TTATATTTAT
107184474 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
107184491 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
107184507 ATTTT
1 ATTTT
107184512 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:107184708 original size:18 final size:18
Alignment explanation
Indices: 107184664--107185182 Score: 247
Period size: 17 Copynumber: 29.8 Consensus size: 18
107184654 TCAATAATCC
*
107184664 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
107184682 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
107184699 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
107184716 TAGTG-TTTC-AAAATTT
1 TCGTGTTTTCAAAAATTT
* *
107184732 TCTTGTTTTTAGAAAAAATTT
1 TCGTG-TTTT--CAAAAATTT
*
107184753 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * **
107184770 CCGTATTTTCAAAAA-AA
1 TCGTGTTTTCAAAAATTT
* *
107184787 TCATGCCTTTCAAAAATTT
1 TCGTG-TTTTCAAAAATTT
*
107184806 TCGTGTTTTCAAAAAATTGA
1 TCGTGTTTTC-AAAAATT-T
*
107184826 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
107184843 CCGTGTTAAAAAAAAATCT
1 TCGTGTT-TTCAAAAATTT
*
107184862 TCGTATTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
*
107184881 TCGTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
107184898 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
107184915 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
*
107184933 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* * ***
107184950 CCGGTGATTTTAAAAAAAAA
1 TC-GTG-TTTTCAAAAATTT
* *
107184970 TCAT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
107184988 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
107185005 TCGTGTTTT--AAAATTT
1 TCGTGTTTTCAAAAATTT
*
107185021 TCGTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
*
107185038 TCGTATTTT---AAATTT
1 TCGTGTTTTCAAAAATTT
** **
107185053 T--T-TTTAAGAAAAAAAT
1 TCGTGTTT-TCAAAAATTT
* *
107185069 T-GTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
* * *
107185085 TCTTCTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
107185102 TCGTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
107185119 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
107185136 TCATG-TTTCTAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
107185153 CCGTG-TTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
107185169 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
107185183 AAAACTTTCA
Statistics
Matches: 380, Mismatches: 83, Indels: 77
0.70 0.15 0.14
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 6 0.02
16 62 0.16
17 152 0.40
18 86 0.23
19 50 0.13
20 9 0.02
21 11 0.03
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:107184723 original size:34 final size:35
Alignment explanation
Indices: 107184652--107184728 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
107184642 AAAATTGTAA
*
107184652 TTTCAATAATCCTCGTGCTTTTAAAAATTCTCATG
1 TTTCAAAAATCCTCGTGCTTTTAAAAATTCTCATG
* *
107184687 TTTCAAAAATCTTCGTG-TTTTCAAAATTCT-AGTG
1 TTTCAAAAATCCTCGTGCTTTTAAAAATTCTCA-TG
107184721 TTTCAAAA
1 TTTCAAAA
107184729 TTTTCTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 1 0.03
34 22 0.58
35 15 0.39
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (35 bp):
TTTCAAAAATCCTCGTGCTTTTAAAAATTCTCATG
Found at i:107184739 original size:16 final size:16
Alignment explanation
Indices: 107184652--107184730 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
107184642 AAAATTGTAA
*
107184652 TTTCAATAATCCTCGTG
1 TTTCAA-AATTCTCGTG
* *
107184669 CTTTTAAAAATTCTCATG
1 --TTTCAAAATTCTCGTG
*
107184687 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TCGTG
*
107184704 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTCGTG
107184721 TTTCAAAATT
1 TTTCAAAATT
107184731 TTCTTGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
16 19 0.38
17 8 0.16
18 18 0.36
19 5 0.10
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (16 bp):
TTTCAAAATTCTCGTG
Found at i:107184835 original size:37 final size:36
Alignment explanation
Indices: 107184685--107185034 Score: 128
Period size: 37 Copynumber: 9.8 Consensus size: 36
107184675 AAAATTCTCA
* *
107184685 TGTTTCAAAAATCTTCGTGTTTTC--AAAATT-CTAG
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAAATTAC-CG
* * **
107184719 TGTTTC-AAAATTTTCTTGTTTTTAGAAAAAATTTTCG
1 TGTTTCAAAAATTTTCGTG-TTTT-CAAAAAATTACCG
* * * * * *
107184756 TGTTTTATAAATTTCCGTATTTTCAAAAAA--ATCA
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAAATTACCG
107184790 TGCCTTTCAAAAATTTTCGTGTTTTCAAAAAATTGACCG
1 TG--TTTCAAAAATTTTCGTGTTTTCAAAAAATT-ACCG
* *** *
107184829 TGTTTCAAAAATTTCCGTGTTAAAAAAAAATCT-TCG
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAAAT-TACCG
* *
107184865 TATTTTCAAAAAATTTTCGTG-TTTC-AAAAATCT-TCG
1 T-GTTTC-AAAAATTTTCGTGTTTTCAAAAAAT-TACCG
* **
107184901 TGTTTTCAAAAA-TTTCG-GTGTTTC-AAAGATTTTCG
1 TG-TTTCAAAAATTTTCGTGT-TTTCAAAAAATTACCG
* * ** * *
107184936 TGTTTTCAAAAA-CTCCGGTGATTTT-AAAAAAAAATCA
1 TG-TTTCAAAAATTTTC-GTG-TTTTCAAAAAATTACCG
**
107184973 T-TTTCTAAAAAATTTTCGTG-TTTC-AAAAATTTTCG
1 TGTTTC--AAAAATTTTCGTGTTTTCAAAAAATTACCG
*
107185008 TGTTT-TAAAATTTTCGTGTTTT-AAAAA
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAA
107185035 TTCTCGTATT
Statistics
Matches: 242, Mismatches: 45, Indels: 58
0.70 0.13 0.17
Matches are distributed among these distances:
33 23 0.10
34 27 0.11
35 46 0.19
36 53 0.22
37 65 0.27
38 24 0.10
39 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (36 bp):
TGTTTCAAAAATTTTCGTGTTTTCAAAAAATTACCG
Found at i:107184922 original size:35 final size:34
Alignment explanation
Indices: 107184794--107185035 Score: 159
Period size: 35 Copynumber: 6.8 Consensus size: 34
107184784 AAATCATGCC
*
107184794 TTTCAAAAATTTTCGTGTTTTCAAAAAAT-TGACCGTG-
1 TTTCAAAAA-TTTCGTG-TTTC-AAAAATCT--TCGTGT
** *
107184831 TTTCAAAAATTTCCGTGTTAAAAAAAAATCTTCGTAT
1 TTTCAAAAATTT-CGTGTT--TCAAAAATCTTCGTGT
107184868 TTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTGT
1 TTTC-AAAAA-TTTCGTGTTTCAAAAATCTTCGTGT
* *
107184904 TTTCAAAAATTTCGGTGTTTCAAAGATTTTCGTGT
1 TTTCAAAAATTTC-GTGTTTCAAAAATCTTCGTGT
* * * *** *
107184939 TTTCAAAAACTCCGGTGATTTTAAAAAAAAATCAT-T
1 TTTCAAAAATTTC-GTG--TTTCAAAAATCTTCGTGT
* *
107184975 TTCTAAAAAATTTTCGTGTTTCAAAAATTTTCGTGT
1 TT-TCAAAAA-TTTCGTGTTTCAAAAATCTTCGTGT
* *
107185011 TTT-AAAATTTTCGTGTTTTAAAAAT
1 TTTCAAAAATTTCGTGTTTCAAAAAT
107185036 TCTCGTATTT
Statistics
Matches: 165, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
33 16 0.10
34 8 0.05
35 51 0.31
36 31 0.19
37 42 0.25
38 14 0.08
39 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (34 bp):
TTTCAAAAATTTCGTGTTTCAAAAATCTTCGTGT
Done.