Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 221 of 318
Found at i:70110174 original size:24 final size:24
Alignment explanation
Indices: 70110147--70110198 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
70110137 TTAGTAAGTC
*
70110147 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
70110171 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
70110195 AAAT
1 AAAT
70110199 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:70112144 original size:24 final size:24
Alignment explanation
Indices: 70112117--70112168 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
70112107 TTAGTAAGTC
*
70112117 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
70112141 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
70112165 AAAT
1 AAAT
70112169 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:70113099 original size:53 final size:53
Alignment explanation
Indices: 70112921--70113129 Score: 199
Period size: 53 Copynumber: 3.9 Consensus size: 53
70112911 ACTAGGGTTT
* * * *
70112921 AAGGATACCAAGTAAGACCATG-CGAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATGGTAAG-TTTATAAGGC
* * * * * *
70112975 AAGGAAATCATGTATGACCATGTCAAGACATGGCATTGATAAACTATTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * * * *
70113030 AAAGAT-CCTATCTAAGACCATG-CTAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGTC-AAGACATGGCAATGGTAAGTTTATAAGGC
*
70113083 AAGGATACCATGTAAGACCATGTCAAGACAGGGCAATGGTAAGTTTA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
70113130 AAAAGGAAAG
Statistics
Matches: 123, Mismatches: 25, Indels: 15
0.75 0.15 0.09
Matches are distributed among these distances:
53 44 0.36
54 40 0.33
55 39 0.32
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:70113737 original size:37 final size:37
Alignment explanation
Indices: 70113687--70113760 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
70113677 TTAAATGGTG
70113687 AATGAGATATAGAATTAAATCTTATTCAGTCTATTTT
1 AATGAGATATAGAATTAAATCTTATTCAGTCTATTTT
*
70113724 AATGAGATATAGAATTAAATCTTATTGAGTCTATTTT
1 AATGAGATATAGAATTAAATCTTATTCAGTCTATTTT
70113761 TATAGGAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (37 bp):
AATGAGATATAGAATTAAATCTTATTCAGTCTATTTT
Found at i:70114786 original size:20 final size:20
Alignment explanation
Indices: 70114761--70114807 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
70114751 GAGCGCAAAT
70114761 GTGCTATCAAAAGCACCGTA
1 GTGCTATCAAAAGCACCGTA
*
70114781 GTGCTATCAGAAGCACCGTA
1 GTGCTATCAAAAGCACCGTA
*
70114801 ATGCTAT
1 GTGCTAT
70114808 TAGGGGTACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
GTGCTATCAAAAGCACCGTA
Found at i:70120650 original size:23 final size:22
Alignment explanation
Indices: 70120598--70120650 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
70120588 TCCACGTCTT
*
70120598 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
70120620 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
70120643 TTTCTTTT
1 TTTCTTTT
70120651 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:70120675 original size:27 final size:27
Alignment explanation
Indices: 70120645--70120696 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
70120635 TTCTTCAATT
70120645 TCTTTTTCACTCTCAATCTCTTTTTGC
1 TCTTTTTCACTCTCAATCTCTTTTTGC
* **
70120672 TCTTTTTCATTCTCTTTCTCTTTTT
1 TCTTTTTCACTCTCAATCTCTTTTT
70120697 CCTCACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.63
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTGC
Found at i:70129527 original size:60 final size:60
Alignment explanation
Indices: 70129454--70129574 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
70129444 TGAACTTGTC
*
70129454 ATATACCTTCTCTATACTTGAGGTTTTATACTCAAGTTTTGTTATGCAGGTTTATTTTTA
1 ATATACCTTCTCTATACTTGAGGTTTTATACTCAAGTTTTGTCATGCAGGTTTATTTTTA
* *
70129514 ATATACCTTCTCTATACTTGAGGTTTTATATTCAAGTTTTGTCATGCGGGTTTATTTTTA
1 ATATACCTTCTCTATACTTGAGGTTTTATACTCAAGTTTTGTCATGCAGGTTTATTTTTA
70129574 A
1 A
70129575 GGGAGTTGTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (60 bp):
ATATACCTTCTCTATACTTGAGGTTTTATACTCAAGTTTTGTCATGCAGGTTTATTTTTA
Found at i:70130021 original size:3 final size:3
Alignment explanation
Indices: 70130013--70130040 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
70130003 ATGTTTTTAT
70130013 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
70130041 GTCTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:70131277 original size:7 final size:7
Alignment explanation
Indices: 70131248--70131289 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
70131238 ATAGATGTGC
70131248 AAATCAG
1 AAATCAG
*
70131255 -AATTAG
1 AAATCAG
70131261 -AATCAG
1 AAATCAG
*
70131267 AAATCAA
1 AAATCAG
70131274 AAATCAG
1 AAATCAG
70131281 AAATCAG
1 AAATCAG
70131288 AA
1 AA
70131290 TCCTACCTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 10 0.33
7 20 0.67
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.17
Consensus pattern (7 bp):
AAATCAG
Found at i:70133936 original size:47 final size:47
Alignment explanation
Indices: 70133879--70134182 Score: 407
Period size: 47 Copynumber: 6.4 Consensus size: 47
70133869 ATTGATGTAC
* * *
70133879 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
70133926 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAAGGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
70133975 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
70134022 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
70134069 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
70134116 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGACGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
70134163 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
70134183 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.83
49 39 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:70134060 original size:22 final size:22
Alignment explanation
Indices: 70134033--70134153 Score: 59
Period size: 22 Copynumber: 5.2 Consensus size: 22
70134023 CATGTGTATG
70134033 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
70134055 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
70134080 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
70134102 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
70134127 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
70134149 TGTGA
1 TGTGA
70134154 CGGATGTGGA
Statistics
Matches: 69, Mismatches: 18, Indels: 24
0.62 0.16 0.22
Matches are distributed among these distances:
22 20 0.29
23 17 0.25
24 17 0.25
25 15 0.22
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:70138939 original size:40 final size:40
Alignment explanation
Indices: 70138895--70139098 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
70138885 GCCGTCAGGT
* * * * *
70138895 CTTAGCCCAGATATGGTCACTAGCGCAAATGCCTTCGGGA
1 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
70138935 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
70138975 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
70139015 CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA
* * * * *
70139055 CTTAGCCC-GAAATTAATCACTAGCACAAATGTCTTCGGGA
1 CTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA
70139095 CTTA
1 CTTA
70139099 ACCCCGTTAG
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 3 0.02
40 150 0.98
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
Found at i:70149331 original size:47 final size:47
Alignment explanation
Indices: 70149273--70149622 Score: 592
Period size: 47 Copynumber: 7.4 Consensus size: 47
70149263 CAGCCAAGAC
70149273 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
70149320 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
70149367 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
70149416 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
70149463 GGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
70149510 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
70149557 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
70149604 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
70149623 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 241 0.84
49 46 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:70149839 original size:37 final size:37
Alignment explanation
Indices: 70149738--70149839 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
70149728 CCGAGCTCTA
*
70149738 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
70149775 AAGACCTGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
70149812 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
70149840 CGTCTGAGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:70151002 original size:40 final size:41
Alignment explanation
Indices: 70150943--70151136 Score: 251
Period size: 40 Copynumber: 4.9 Consensus size: 41
70150933 AGATATAACC
* * * * *
70150943 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGGATA-TGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
* *
70150982 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
*
70151022 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
*
70151062 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
70151102 ACTCGCAC-AATGCCTTC-GGACTTAGCCCGGA-ATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTA
70151137 ATCACTAGCA
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 18 0.13
39 18 0.13
40 102 0.73
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
Found at i:70155667 original size:28 final size:28
Alignment explanation
Indices: 70155636--70155690 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
70155626 TAAGGAATAT
*
70155636 AGTTTAGGGTT-TAGGGGATACAGTTTAG
1 AGTTTAAGGTTAT-GGGGATACAGTTTAG
*
70155664 AGTTTAAGGTTATGGGGATATAGTTTA
1 AGTTTAAGGTTATGGGGATACAGTTTA
70155691 ATGATTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.33, T:0.38
Consensus pattern (28 bp):
AGTTTAAGGTTATGGGGATACAGTTTAG
Found at i:70157923 original size:22 final size:22
Alignment explanation
Indices: 70157891--70157939 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
70157881 GATTGTAATG
*
70157891 TATATATATATATCAAT-TGCAA
1 TATATACATATATCAATATGC-A
70157913 TATATACATATATCAATATGCA
1 TATATACATATATCAATATGCA
70157935 TATAT
1 TATAT
70157940 CTTGGGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (22 bp):
TATATACATATATCAATATGCA
Found at i:70158850 original size:21 final size:23
Alignment explanation
Indices: 70158808--70158852 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
70158798 AAAAGTATTT
*
70158808 TGTTAAGAAAATTTATTTGATAA
1 TGTTAAGAAAATTCATTTGATAA
70158831 TGTTAAG-AAATTCA-TTGATAA
1 TGTTAAGAAAATTCATTTGATAA
70158852 T
1 T
70158853 AATAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 6 0.29
23 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (23 bp):
TGTTAAGAAAATTCATTTGATAA
Found at i:70159180 original size:46 final size:46
Alignment explanation
Indices: 70159127--70159222 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
70159117 TGCTATAATC
70159127 TCAACTAACT-CTCAATCTTATTAATTAAATTATTTTACTATAAAAA
1 TCAACTAACTACTCAATC-TATTAATTAAATTATTTTACTATAAAAA
* * *
70159173 TCAACTAACTACTGAATCTATTATTTAATTTATTTTACTATAAAAA
1 TCAACTAACTACTCAATCTATTAATTAAATTATTTTACTATAAAAA
70159219 TCAA
1 TCAA
70159223 ATTACTATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 40 0.87
47 6 0.13
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.42
Consensus pattern (46 bp):
TCAACTAACTACTCAATCTATTAATTAAATTATTTTACTATAAAAA
Found at i:70159388 original size:16 final size:16
Alignment explanation
Indices: 70159364--70159397 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
70159354 TCATATTTAT
*
70159364 TAATTTTTTATATTAA
1 TAATGTTTTATATTAA
*
70159380 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
70159396 TA
1 TA
70159398 TTAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:70159578 original size:9 final size:9
Alignment explanation
Indices: 70159549--70159834 Score: 119
Period size: 9 Copynumber: 33.4 Consensus size: 9
70159539 ATATCATATC
*
70159549 ATAACTTAC
1 ATAACTTAT
*
70159558 ATAA-TTAC
1 ATAACTTAT
70159566 ATAACTTAT
1 ATAACTTAT
*
70159575 ATAACTTAG
1 ATAACTTAT
*
70159584 ATAA-ATAT
1 ATAACTTAT
*
70159592 ATAACTTAC
1 ATAACTTAT
*
70159601 ATAACTTAC
1 ATAACTTAT
*
70159610 ATAACTTAC
1 ATAACTTAT
70159619 ATAACTTAT
1 ATAACTTAT
*
70159628 ATAA-ATAT
1 ATAACTTAT
70159636 ATAA-TT-T
1 ATAACTTAT
*
70159643 CATAAC-TAC
1 -ATAACTTAT
70159652 ATAAC-T-T
1 ATAACTTAT
*
70159659 ATAACTTAG
1 ATAACTTAT
*
70159668 ATAA-ATAT
1 ATAACTTAT
*
70159676 ATAACTTAC
1 ATAACTTAT
70159685 ATAACTTA-
1 ATAACTTAT
70159693 ATAA-TATAT
1 ATAACT-TAT
*
70159702 ATCAA-TCAT
1 AT-AACTTAT
*
70159711 -T-ACTTAC
1 ATAACTTAT
*
70159718 ATAA--TAC
1 ATAACTTAT
*
70159725 ATAA-ATAT
1 ATAACTTAT
* *
70159733 ATATCATAT
1 ATAACTTAT
*
70159742 CATAACTTAC
1 -ATAACTTAT
70159752 ATAACTTAT
1 ATAACTTAT
70159761 ATAACTTAGT
1 ATAACTTA-T
70159771 A-AA--TAT
1 ATAACTTAT
*
70159777 ATAACTTAC
1 ATAACTTAT
*
70159786 ATAA-ATAT
1 ATAACTTAT
* *
70159794 ATATCATAT
1 ATAACTTAT
* *
70159803 CATATCTTAC
1 -ATAACTTAT
*
70159813 ATAACTTAC
1 ATAACTTAT
* *
70159822 AAAACTTAC
1 ATAACTTAT
70159831 ATAA
1 ATAA
70159835 TACATAAATA
Statistics
Matches: 220, Mismatches: 34, Indels: 46
0.73 0.11 0.15
Matches are distributed among these distances:
6 3 0.01
7 20 0.09
8 58 0.26
9 121 0.55
10 18 0.08
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:70159613 original size:52 final size:51
Alignment explanation
Indices: 70159548--70159848 Score: 184
Period size: 52 Copynumber: 5.9 Consensus size: 51
70159538 TATATCATAT
70159548 CATAACTTACATAA-TTACATAACTTATATAACTTAGATAAATATATAACTTA
1 CATAACTTACATAACTTACATAACTTATATAA-TTA-ATAAATATATAACTTA
* *
70159600 CATAACTTACATAACTTACATAACTTATATAAAT-ATATAATTTCATAAC-TA
1 CATAACTTACATAACTTACATAACTTATATAATTAATA-AATAT-ATAACTTA
* * *
70159651 CATAACTT--ATAACTTAGATAA-ATATATAACTTACATAACT-TAATAA-TATA
1 CATAACTTACATAACTTACATAACTTATATAA-TTA-ATAAATAT-ATAACT-TA
* * * * *
70159701 TATCAA--T-CATTACTTACATAA--TACATAAATATATATCATATCATAACTTA
1 CAT-AACTTACATAACTTACATAACTTATATAATTA-ATA-AATAT-ATAACTTA
* * * * *
70159751 CATAACTTATATAACTTA-GTAA-ATATATAACTTACATAAATATATATCATA
1 CATAACTTACATAACTTACATAACTTATATAA-TTA-ATAAATATATAACTTA
* * *
70159802 TCATATCTTACATAACTTACAAAACTTACATAA-TACATAAATATATA
1 -CATAACTTACATAACTTACATAACTTATATAATTA-ATAAATATATA
70159849 CTTGAAAATC
Statistics
Matches: 196, Mismatches: 32, Indels: 42
0.73 0.12 0.16
Matches are distributed among these distances:
48 12 0.06
49 28 0.14
50 29 0.15
51 30 0.15
52 67 0.34
53 24 0.12
54 6 0.03
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (51 bp):
CATAACTTACATAACTTACATAACTTATATAATTAATAAATATATAACTTA
Found at i:70159655 original size:33 final size:35
Alignment explanation
Indices: 70159609--70159845 Score: 178
Period size: 33 Copynumber: 7.0 Consensus size: 35
70159599 ACATAACTTA
*
70159609 CATAACTTACATAACTTATATAAATATAT-AATTT
1 CATAACTTACATAACTTATATAAATATATAAATAT
** *
70159643 CATAAC-TACATAACTTATA-ACTTAGATAAATAT
1 CATAACTTACATAACTTATATAAATATATAAATAT
*
70159676 -ATAACTTACATAACTTA-AT-AATATATATCA-AT
1 CATAACTTACATAACTTATATAAATATATA-AATAT
* * *
70159708 CATTACTTACATAA--TACATAAATATATATCATAT
1 CATAACTTACATAACTTATATAAATATATA-AATAT
*
70159742 CATAACTTACATAACTTATATAACT-TAGTAAATAT
1 CATAACTTACATAACTTATATAAATATA-TAAATAT
* * **
70159777 -ATAACTTACATAA-ATATATATCATATCATATCT-T
1 CATAACTTACATAACTTATATA-AATAT-ATAAATAT
* * *
70159811 ACATAACTTACAAAACTTACAT-AATACATAAATAT
1 -CATAACTTACATAACTTATATAAATATATAAATAT
70159846 ATACTTGAAA
Statistics
Matches: 160, Mismatches: 25, Indels: 35
0.73 0.11 0.16
Matches are distributed among these distances:
31 2 0.01
32 20 0.12
33 58 0.36
34 40 0.25
35 14 0.09
36 22 0.14
37 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (35 bp):
CATAACTTACATAACTTATATAAATATATAAATAT
Found at i:70159684 original size:66 final size:67
Alignment explanation
Indices: 70159575--70159764 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 67
70159565 CATAACTTAT
* * *
70159575 ATAACTTAGATAAATATATAACTTACATAACTTACATAACTTACATAACTTATATAA-ATATAT-
1 ATAACTTACAT-AATATATAACTTACATAA-ATATATAACTTACATAACTTATATAATATATATC
70159638 AATTTC
64 AA--TC
*
70159644 ATAAC-TACATAACT-TATAACTTAGATAAATATATAACTTACATAACTTA-ATAATATATATCA
1 ATAACTTACATAA-TATATAACTTACATAAATATATAACTTACATAACTTATATAATATATATCA
70159706 ATC
65 ATC
* * * * *
70159709 ATTACTTACATAATACATAA-ATATATATCATATCATAACTTACATAACTTATATAA
1 ATAACTTACATAATATATAACTTACATA-AATAT-ATAACTTACATAACTTATATAA
70159765 CTTAGTAAAT
Statistics
Matches: 104, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
65 16 0.15
66 40 0.38
67 34 0.33
68 9 0.09
69 5 0.05
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (67 bp):
ATAACTTACATAATATATAACTTACATAAATATATAACTTACATAACTTATATAATATATATCAA
TC
Found at i:70159747 original size:84 final size:84
Alignment explanation
Indices: 70159548--70159789 Score: 219
Period size: 84 Copynumber: 2.9 Consensus size: 84
70159538 TATATCATAT
*
70159548 CATAACTTACATAATTACATAACTTATATAACTTAGATAAATATATAACTTACATAACTTACATA
1 CATAA-TTACATAAATACATAAC-T-TATAACTTAGATAAATATATAACTTACATAACTTACATA
*
70159613 ACTTACATAACTTATATAAATA
63 ACTTACATAACTCATATAAATA
* * *
70159635 TATAATTTCATAACTACATAACTTATAACTTAGATAAATATATAACTTACATAACTTA-ATAA-T
1 CATAATTACATAAATACATAACTTATAACTTAGATAAATATATAACTTACATAACTTACATAACT
* **
70159698 ATATATCAA-TCAT-TACTTA
66 -TACAT-AACTCATATAAATA
* * * * * * *
70159717 CATAA-TACATAAATATATATCATATCATAACTTACATAACTTATATAACTTA-GTAA-ATATAT
1 CATAATTACATAAATACATAAC-T-T-ATAACTTAGATAA-ATATATAACTTACATAACTTACAT
70159779 AACTTACATAA
62 AACTTACATAA
70159790 ATATATATCA
Statistics
Matches: 130, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
81 12 0.09
82 10 0.08
83 16 0.12
84 60 0.46
85 13 0.10
86 15 0.12
87 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (84 bp):
CATAATTACATAAATACATAACTTATAACTTAGATAAATATATAACTTACATAACTTACATAACT
TACATAACTCATATAAATA
Found at i:70159779 original size:16 final size:17
Alignment explanation
Indices: 70159738--70159796 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
70159728 AATATATATC
70159738 ATATCATAACTTACATAA
1 ATAT-ATAACTTACATAA
* *
70159756 CTTATATAACTTA-GTAA
1 -ATATATAACTTACATAA
70159773 ATATATAACTTACATAA
1 ATATATAACTTACATAA
70159790 ATATATA
1 ATATATA
70159797 TCATATCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 11 0.31
17 13 0.37
18 8 0.23
19 3 0.09
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (17 bp):
ATATATAACTTACATAA
Found at i:70164880 original size:13 final size:14
Alignment explanation
Indices: 70164862--70164890 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70164852 ATTATAATAT
70164862 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
70164875 TTATAATGGTTTAA
1 TTATAATGGTTTAA
70164889 TT
1 TT
70164891 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:70165326 original size:21 final size:21
Alignment explanation
Indices: 70165300--70165344 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
70165290 TAGAGCGGAT
*
70165300 GCATCAACAAGGGAGGCAGCG
1 GCATCAACAAGGGAGGCAGAG
* *
70165321 GCATCAGCGAGGGAGGCAGAG
1 GCATCAACAAGGGAGGCAGAG
70165342 GCA
1 GCA
70165345 GCCGCGATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.42, T:0.04
Consensus pattern (21 bp):
GCATCAACAAGGGAGGCAGAG
Found at i:70165351 original size:21 final size:21
Alignment explanation
Indices: 70165309--70165351 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
70165299 TGCATCAACA
* *
70165309 AGGGAGGCAGCGGCATCAGCG
1 AGGGAGGCAGAGGCAGCAGCG
*
70165330 AGGGAGGCAGAGGCAGCCGCG
1 AGGGAGGCAGAGGCAGCAGCG
70165351 A
1 A
70165352 TGGCAGCAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.49, T:0.02
Consensus pattern (21 bp):
AGGGAGGCAGAGGCAGCAGCG
Found at i:70165792 original size:43 final size:43
Alignment explanation
Indices: 70165710--70165841 Score: 160
Period size: 43 Copynumber: 3.0 Consensus size: 43
70165700 ATCTGCCAAA
* *
70165710 TTAGAGGCGTTTGTAACAAAAGCGCCGCTAAAAGCCATGACTT
1 TTAGAGGCCTTTGTAAGAAAAGCGCCGCTAAAAGCCATGACTT
* * * *
70165753 TTAGCGGCACTTTTTAA-ACAAA-CGCCGCTAAAAGTCATGACTA
1 TTAGAGGC-CTTTGTAAGA-AAAGCGCCGCTAAAAGCCATGACTT
*
70165796 TTAGAGGCGTTTGTAAGAAAAGCGCCGCTAAAAGCCATGATCTT
1 TTAGAGGCCTTTGTAAGAAAAGCGCCGCTAAAAGCCATGA-CTT
70165840 TT
1 TT
70165842 GTGGCGTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
42 9 0.12
43 52 0.70
44 13 0.18
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (43 bp):
TTAGAGGCCTTTGTAAGAAAAGCGCCGCTAAAAGCCATGACTT
Found at i:70170112 original size:27 final size:29
Alignment explanation
Indices: 70170062--70170119 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
70170052 TAATTTTTTA
70170062 TTAAATTAAAATAATAGAGATACTAAATCT
1 TTAAATTAAAATAATAGAGATACT-AATCT
70170092 TTAAATTAAAAT-ATA-A-ATACTAATCT
1 TTAAATTAAAATAATAGAGATACTAATCT
70170118 TT
1 TT
70170120 TTTAGTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.25
27 5 0.18
28 1 0.04
29 3 0.11
30 12 0.43
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (29 bp):
TTAAATTAAAATAATAGAGATACTAATCT
Found at i:70176263 original size:27 final size:27
Alignment explanation
Indices: 70176233--70176410 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70176223 ATATTGAGTC
* * * *
70176233 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
70176260 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70176287 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
70176315 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
70176342 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
70176369 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70176396 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
70176411 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:70176372 original size:82 final size:81
Alignment explanation
Indices: 70176254--70176409 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70176244 TGCTATATAA
* *
70176254 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
70176319 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
70176336 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
70176400 CACTTAGTGC
65 CACTTAGTGC
70176410 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:70181574 original size:39 final size:39
Alignment explanation
Indices: 70181507--70181634 Score: 247
Period size: 39 Copynumber: 3.3 Consensus size: 39
70181497 GCTCCTCGTT
70181507 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
70181547 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
70181586 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
70181625 CAAATGCCTT
1 CAAATGCCTT
70181635 TGGATCTTAG
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
39 74 0.84
40 14 0.16
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:70181673 original size:78 final size:79
Alignment explanation
Indices: 70181507--70181686 Score: 253
Period size: 78 Copynumber: 2.3 Consensus size: 79
70181497 GCTCCTCGTT
70181507 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
*
70181572 ATTAGTATCTCGCA
66 ATTAGTATCTAGCA
* * *
70181586 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTTGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGG
70181650 ATATT-GTCA-CTTAGCA
65 A-ATTAGT-ATC-TAGCA
70181666 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
70181687 AGACATCATT
Statistics
Matches: 92, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
78 46 0.50
79 37 0.40
80 9 0.10
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTATCTAGCA
Found at i:70203068 original size:15 final size:15
Alignment explanation
Indices: 70203048--70203078 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
70203038 GTGTACAAGA
70203048 AAGCTATGAGATACT
1 AAGCTATGAGATACT
70203063 AAGCTATGAGATACT
1 AAGCTATGAGATACT
70203078 A
1 A
70203079 TGTAGTAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (15 bp):
AAGCTATGAGATACT
Found at i:70212008 original size:47 final size:47
Alignment explanation
Indices: 70211954--70212259 Score: 522
Period size: 47 Copynumber: 6.5 Consensus size: 47
70211944 TATTTGAATA
*
70211954 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
70212001 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
70212048 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
70212095 AATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
70212142 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
70212189 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
70212236 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
70212260 GAGTCCCGAA
Statistics
Matches: 247, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 247 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:70217388 original size:13 final size:13
Alignment explanation
Indices: 70217372--70217401 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
70217362 AGATTAGTAT
*
70217372 ATCAAAAAATTAG
1 ATCAAAAAATCAG
70217385 ATCAAAAAATCAG
1 ATCAAAAAATCAG
70217398 ATCA
1 ATCA
70217402 GTATCCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
ATCAAAAAATCAG
Found at i:70224152 original size:16 final size:16
Alignment explanation
Indices: 70224131--70224163 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
70224121 TTTTGGTATA
70224131 ATGGCATGTATAGGTT
1 ATGGCATGTATAGGTT
70224147 ATGGCATGTATAGGTT
1 ATGGCATGTATAGGTT
70224163 A
1 A
70224164 ACTTGGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.06, G:0.30, T:0.36
Consensus pattern (16 bp):
ATGGCATGTATAGGTT
Found at i:70243733 original size:69 final size:68
Alignment explanation
Indices: 70243622--70243752 Score: 156
Period size: 69 Copynumber: 1.9 Consensus size: 68
70243612 CATGTAAGAT
* * * * * * *
70243622 CATGTCTGGGATATTGGCATTGTATGGTGATTACGTATAAGACGATGTCTGGGACATTGGCATCG
1 CATGTCTGGGACATCGGCATCGTATGGTGATAACATATAAGACCATATCTGGGACA-TGGCATCG
70243687 TTAC
65 TTAC
* *
70243691 CATGTCTGGGACATCGGCATCGATAT-GTGATAACATGTAAGACCATATCTGGGATATGGCAT
1 CATGTCTGGGACATCGGCATCG-TATGGTGATAACATATAAGACCATATCTGGGACATGGCAT
70243753 TGTATGAGCT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
68 6 0.12
69 43 0.83
70 3 0.06
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (68 bp):
CATGTCTGGGACATCGGCATCGTATGGTGATAACATATAAGACCATATCTGGGACATGGCATCGT
TAC
Found at i:70247198 original size:43 final size:43
Alignment explanation
Indices: 70247148--70247314 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
70247138 GATTACCGAG
* * *
70247148 ATGTGATTACATGTAAGATC-ATGTCTGGGACATTGGTATTG-T
1 ATGTGATTACATGTAAGA-CGATATCTGGGACATTGGCATCGAT
* *
70247190 ATGGTGATTACATATAAGACGATATCTGGGACATTGGCATCGTT
1 AT-GTGATTACATGTAAGACGATATCTGGGACATTGGCATCGAT
* * * * *
70247234 ATATGATTTCGTGTAAGATC-ATGTCTGGGACATTTGCATCGAT
1 ATGTGATTACATGTAAGA-CGATATCTGGGACATTGGCATCGAT
* * *
70247277 ATGTGATAACATGTAAGACTATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACGATATCTGGGACATTGGCAT
70247315 TGTATGAGCT
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 9 0.09
43 89 0.87
44 4 0.04
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACGATATCTGGGACATTGGCATCGAT
Found at i:70249544 original size:93 final size:93
Alignment explanation
Indices: 70249385--70249556 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
70249375 GCCCATAAGC
* * *
70249385 GAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATGAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
70249450 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
*
70249478 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
70249542 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
70249557 CAAATATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:70249552 original size:46 final size:46
Alignment explanation
Indices: 70249377--70249552 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
70249367 TGTAACCCGC
* * *
70249377 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * *
70249423 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
70249473 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
70249516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
70249553 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:70256912 original size:31 final size:31
Alignment explanation
Indices: 70256877--70256948 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
70256867 TCATACGTTA
*
70256877 TAATCATTCACATTTGCATATTCACCCCCTG
1 TAATCATTCACATTTGCATATTCACACCCTG
* *
70256908 TAATCATTCACATTTGCATTTTCATACCCTG
1 TAATCATTCACATTTGCATATTCACACCCTG
70256939 TAATCATTCA
1 TAATCATTCA
70256949 TATAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (31 bp):
TAATCATTCACATTTGCATATTCACACCCTG
Found at i:70257387 original size:18 final size:19
Alignment explanation
Indices: 70257359--70257394 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
70257349 TCATGATACT
*
70257359 AAATAATATTTTTTATTTC
1 AAATAATATTTTGTATTTC
70257378 AAAT-ATATTTTGTATTT
1 AAATAATATTTTGTATTT
70257395 TATTCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
AAATAATATTTTGTATTTC
Found at i:70266526 original size:15 final size:14
Alignment explanation
Indices: 70266504--70266534 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
70266494 AATTAGATAT
70266504 TATTTATTATAAAA
1 TATTTATTATAAAA
70266518 TATTATATTATAAAA
1 TATT-TATTATAAAA
70266533 TA
1 TA
70266535 AATTTCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTTATTATAAAA
Found at i:70267361 original size:1 final size:1
Alignment explanation
Indices: 70267355--70267379 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
70267345 CTTAAGAGAT
70267355 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
70267380 CATGATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:70269764 original size:7 final size:7
Alignment explanation
Indices: 70269752--70269784 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
70269742 ATCTAGAATT
70269752 TTGAACC
1 TTGAACC
70269759 TTGAACC
1 TTGAACC
70269766 TTGAA-C
1 TTGAACC
70269772 TCTGAACC
1 T-TGAACC
70269780 TTGAA
1 TTGAA
70269785 TTTTGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 20 0.83
8 2 0.08
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (7 bp):
TTGAACC
Found at i:70269791 original size:14 final size:14
Alignment explanation
Indices: 70269752--70269791 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
70269742 ATCTAGAATT
*
70269752 TTGAACCTTGAACC
1 TTGAACTTTGAACC
*
70269766 TTGAACTCTGAACC
1 TTGAACTTTGAACC
*
70269780 TTGAATTTTGAA
1 TTGAACTTTGAA
70269792 TTCGAGCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (14 bp):
TTGAACTTTGAACC
Found at i:70274108 original size:28 final size:28
Alignment explanation
Indices: 70274068--70274138 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
70274058 TATGAGATTG
*
70274068 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
70274096 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
70274124 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
70274139 ACTTACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:70274909 original size:11 final size:11
Alignment explanation
Indices: 70274893--70274917 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70274883 GGGTCCCTTT
70274893 ATATACAATAA
1 ATATACAATAA
70274904 ATATACAATAA
1 ATATACAATAA
70274915 ATA
1 ATA
70274918 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:70275624 original size:15 final size:15
Alignment explanation
Indices: 70275596--70275632 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
70275586 TTTATCTTAG
70275596 TTATATTCTATTTTAT
1 TTAT-TTCTATTTTAT
*
70275612 TTATTTCTTTTTTAT
1 TTATTTCTATTTTAT
70275627 TTATTT
1 TTATTT
70275633 ATCCATCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTCTATTTTAT
Found at i:70278732 original size:21 final size:21
Alignment explanation
Indices: 70278708--70278751 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
70278698 ACGACCTAAT
*
70278708 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
70278729 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
70278750 TA
1 TA
70278752 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:70279143 original size:16 final size:16
Alignment explanation
Indices: 70279122--70279155 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
70279112 ACTTTAGAGC
70279122 ATATATTAACTCATAT
1 ATATATTAACTCATAT
70279138 ATATATTAACTCATAT
1 ATATATTAACTCATAT
70279154 AT
1 AT
70279156 CTTTTTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATTAACTCATAT
Found at i:70290847 original size:31 final size:32
Alignment explanation
Indices: 70290811--70290871 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
70290801 AGTTTTTGGT
70290811 TTTTTCATGTTG-CAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
70290842 TTTTTCATGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
70290872 AAAATAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:70293722 original size:45 final size:45
Alignment explanation
Indices: 70293627--70293740 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
70293617 CCAGCATTTC
* * * *
70293627 GCCTGCTAGGCTCG-AGGCCCG-ATATCATTTCATCGGCATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATATCATCTCACCGACATTATA
70293670 GCCTGCTAGGCTCGAAAGCCCGAATAGT-ATCTCACCGACATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATA-TCATCTCACCGACATTATA
70293715 GCCTGCTAGGCTC-AAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAA-GCCCGAATA
70293741 ATATTTCCCC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
43 14 0.22
44 9 0.14
45 39 0.62
46 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAAGCCCGAATATCATCTCACCGACATTATA
Found at i:70293969 original size:43 final size:43
Alignment explanation
Indices: 70293908--70294152 Score: 357
Period size: 43 Copynumber: 5.7 Consensus size: 43
70293898 CAACAAACTT
* * * *
70293908 GCACACTTAGTGCTAATTAATTAACCGAAGTTATAATGGTTTC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
70293951 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
*
70293994 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* * * *
70294037 GCACACTTAGTACCAATTAATTAGCCAAAGCTATAATTATATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
70294080 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
*
70294123 GCACATTTAGTGCC-ATTACATTAAACCGAA
1 GCACACTTAGTGCCAATTA-ATT-AACCGAA
70294153 CTTATATCTG
Statistics
Matches: 188, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
42 4 0.02
43 178 0.95
44 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (43 bp):
GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
Found at i:70310753 original size:47 final size:45
Alignment explanation
Indices: 70310684--70310903 Score: 214
Period size: 47 Copynumber: 4.7 Consensus size: 45
70310674 GATATATTAT
*
70310684 CGATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCACTCAT-TATGTGC
* *
70310731 CGATGTCATGTCCCAGATATGTCTTACACTGGCTA-TCATAGTATG-GT
1 CGATG-CATGTCCCAGACATGTCTTACACTGGC-ACTCAT--TATGTGC
* * * *
70310778 TGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTT-TGGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTAT-G-TGC
* *
70310824 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATTATGT-G-C
*
70310873 GGA-GCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
70310904 GTACAAATAA
Statistics
Matches: 145, Mismatches: 17, Indels: 23
0.78 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
46 46 0.32
47 69 0.48
48 23 0.16
49 4 0.03
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATTATGTGC
Found at i:70310899 original size:94 final size:93
Alignment explanation
Indices: 70310685--70310900 Score: 285
Period size: 94 Copynumber: 2.3 Consensus size: 93
70310675 ATATATTATC
* * *
70310685 GATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCCGATGTCATGTCCCAGATA
1 GATG-CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACA
* *
70310750 TGTCTTACACTGGCTATCATAGTATGGTT
65 TGTCTTACACTGGCTATCATAATATGGTG
* *
70310779 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGT-T-TGGATGCCGATGCCATGTCCCAGAC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCT-G-TGCCGATGCCATGTCCCAGAC
* *
70310842 ATGGTCTTACACTGGCTCTCATAATGTGGTCG
64 AT-GTCTTACACTGGCTATCATAATATGGT-G
70310874 GA-GCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
70310901 GGCGTACAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
91 1 0.01
92 2 0.02
93 51 0.47
94 53 0.49
95 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (93 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACAT
GTCTTACACTGGCTATCATAATATGGTG
Found at i:70312171 original size:20 final size:23
Alignment explanation
Indices: 70312120--70312173 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
70312110 GGCTGTTATA
70312120 TTATGTGTCGTATTTCAGGCACC
1 TTATGTGTCGTATTTCAGGCACC
**
70312143 TCGTGTGTC-T-TTTCAGGCA-C
1 TTATGTGTCGTATTTCAGGCACC
70312163 TTATGTGTCGT
1 TTATGTGTCGT
70312174 CTACTGATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 1 0.04
23 7 0.27
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (23 bp):
TTATGTGTCGTATTTCAGGCACC
Found at i:70312365 original size:6 final size:6
Alignment explanation
Indices: 70312349--70312400 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
70312339 GTGGAATTAT
* *
70312349 AAATTG AAATTTG -AATTG AAATTG AAATTG AAATTG AGATATG AGATTG
1 AAATTG AAA-TTG AAATTG AAATTG AAATTG AAATTG AAAT-TG AAATTG
70312398 AAA
1 AAA
70312401 GCTTGAACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 3 0.07
6 29 0.71
7 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (6 bp):
AAATTG
Found at i:70313085 original size:22 final size:21
Alignment explanation
Indices: 70313057--70313125 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
70313047 TATTTGATTA
*
70313057 TTAGCACGTTAGTGCTCTCCGT
1 TTAGCAC-TTAGTGCTCTCTGT
* *
70313079 TTAGCACATATGTGCTATCTGT
1 TTAGCACTTA-GTGCTCTCTGT
* *
70313101 ATAACACTTTAGTGCTCTCTGT
1 TTAGCAC-TTAGTGCTCTCTGT
70313123 TTA
1 TTA
70313126 ATAGTGCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
TTAGCACTTAGTGCTCTCTGT
Found at i:70314495 original size:18 final size:18
Alignment explanation
Indices: 70314472--70314514 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
70314462 AGTGTTTTTC
70314472 GAAAACCATGTTTCCATT
1 GAAAACCATGTTTCCATT
*
70314490 GAAAACCATGTTTTCATT
1 GAAAACCATGTTTCCATT
*
70314508 AAAAACC
1 GAAAACC
70314515 CTTCTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (18 bp):
GAAAACCATGTTTCCATT
Found at i:70316417 original size:46 final size:46
Alignment explanation
Indices: 70316367--70316542 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
70316357 TGGTTGAGCA
* *
70316367 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
70316413 TCCAAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCA
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * * *
70316460 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACA
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
70316506 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70316543 GCGAGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 65 0.60
47 26 0.24
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:70316516 original size:93 final size:93
Alignment explanation
Indices: 70316364--70316535 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
70316354 GGATGGTTGA
***
70316364 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCAAACTCGTTGAGT
70316429 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * ** * *
70316457 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCAAACTCGTTGAGT
*
70316522 TGAGTCCGAGTTCG
66 TGAGTCCAAGTTCG
70316536 CTTATGGGCG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCAAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:70318736 original size:27 final size:27
Alignment explanation
Indices: 70318706--70318811 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
70318696 ATGATCATTT
70318706 TACCCTACAAGGGTATTTCGATAATCC
1 TACCCTACAAGGGTATTTCGATAATCC
* *
70318733 TACCCTAC-AGGAGTATTTCGGTAATCT
1 TACCCTACAAGG-GTATTTCGATAATCC
* * * *
70318760 TACCCTATAGGGGTATTTTGGTAATCC
1 TACCCTACAAGGGTATTTCGATAATCC
* *
70318787 TACCCTATAGGGGTATTTCGATAAT
1 TACCCTACAAGGGTATTTCGATAAT
70318812 TTTACAACCC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.04
27 64 0.93
28 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGATAATCC
Found at i:70318787 original size:54 final size:54
Alignment explanation
Indices: 70318705--70318816 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
70318695 AATGATCATT
*
70318705 TTACCCTACAAGGGTATTTCGATAATCCTACCCTACAGGAGTATTTCGGTAATC
1 TTACCCTACAAGGGTATTTCGATAATCCTACCCTACAGGAGTATTTCGATAATC
* * * * * * *
70318759 TTACCCTATAGGGGTATTTTGGTAATCCTACCCTATAGGGGTATTTCGATAATT
1 TTACCCTACAAGGGTATTTCGATAATCCTACCCTACAGGAGTATTTCGATAATC
70318813 TTAC
1 TTAC
70318817 AACCCGGGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
TTACCCTACAAGGGTATTTCGATAATCCTACCCTACAGGAGTATTTCGATAATC
Found at i:70318838 original size:54 final size:52
Alignment explanation
Indices: 70318705--70318838 Score: 126
Period size: 54 Copynumber: 2.5 Consensus size: 52
70318695 AATGATCATT
* *
70318705 TTACCCTACAAGGGTATTTCGATAATCCTACCCTACAGGAGTATTTCGGTAATC
1 TTACCC-ACAGGGGTATTTCG-TAATCCTACCCTACAGGAGTATTTCGATAATC
* * * * *
70318759 TTACCCTATAGGGGTATTTTGGTAATCCTACCCTATAGGGGTATTTCGATAATT
1 TTACCC-ACAGGGGTA-TTTCGTAATCCTACCCTACAGGAGTATTTCGATAATC
*
70318813 TTACAACC-CGGGGGTATTTCAGTAAT
1 TTAC--CCACAGGGGTATTTC-GTAAT
70318839 TTTACAAATC
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
53 3 0.05
54 57 0.86
55 4 0.06
56 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (52 bp):
TTACCCACAGGGGTATTTCGTAATCCTACCCTACAGGAGTATTTCGATAATC
Found at i:70322080 original size:10 final size:10
Alignment explanation
Indices: 70322065--70322092 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
70322055 ATATTACATG
70322065 TTTACTTTGT
1 TTTACTTTGT
70322075 TTTACTTTGT
1 TTTACTTTGT
70322085 TTTACTTT
1 TTTACTTT
70322093 TTTCTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:70332091 original size:29 final size:29
Alignment explanation
Indices: 70332057--70332130 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
70332047 TAATCAACCG
*
70332057 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
70332086 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
70332115 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
70332131 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:70335078 original size:49 final size:49
Alignment explanation
Indices: 70335006--70335137 Score: 201
Period size: 49 Copynumber: 2.7 Consensus size: 49
70334996 TGAGGTCACG
* * * *
70335006 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACTGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCA
*
70335055 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCA
* *
70335104 TGTGTAGTACTAAGTGCAGACTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
70335138 AGATAGCTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCA
Found at i:70340201 original size:49 final size:49
Alignment explanation
Indices: 70340124--70340305 Score: 229
Period size: 49 Copynumber: 3.7 Consensus size: 49
70340114 TCTATTGTGA
*
70340124 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * * *
70340173 GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTGCCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
** * *
70340223 CAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
70340273 GGTCGCATGTGTAGTACTAAGTGCAGACTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
70340306 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 68 0.62
50 4 0.04
51 37 0.34
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:70340304 original size:100 final size:100
Alignment explanation
Indices: 70340126--70340310 Score: 325
Period size: 100 Copynumber: 1.9 Consensus size: 100
70340116 TATTGTGAGG
*
70340126 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTACT
*
70340191 AAGTACAGGCTACTATGCGTGCCCGATAACTTCAA
66 AAGTACAGACTACTATGCGTGCCCGATAACTTCAA
* *
70340226 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTACT
*
70340291 AAGTGCAGACTACTATGCGT
66 AAGTACAGACTACTATGCGT
70340311 ACCAGATAGC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTACT
AAGTACAGACTACTATGCGTGCCCGATAACTTCAA
Found at i:70342427 original size:20 final size:18
Alignment explanation
Indices: 70342385--70342430 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
70342375 TAGAAACCTA
*
70342385 TAATTTTAGAAAAGGGGC
1 TAATTTTAGAAAAAGGGC
*
70342403 TAATTTATAGAAAAAGGTC
1 TAATTT-TAGAAAAAGGGC
70342422 TAAATTTTA
1 T-AATTTTA
70342431 AGTCTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.35
Consensus pattern (18 bp):
TAATTTTAGAAAAAGGGC
Found at i:70344678 original size:27 final size:27
Alignment explanation
Indices: 70344647--70344699 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
70344637 CATACATCGT
70344647 ATAGGGGCATAACAGTCATTTTATCAC
1 ATAGGGGCATAACAGTCATTTTATCAC
*
70344674 ATAGGGGCATAATAGTCATTTTATCA
1 ATAGGGGCATAACAGTCATTTTATCA
70344700 ATTAGAGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (27 bp):
ATAGGGGCATAACAGTCATTTTATCAC
Found at i:70350407 original size:23 final size:23
Alignment explanation
Indices: 70350381--70350439 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
70350371 TAGCTCATAT
* * *
70350381 GAGCTTACTGTTTCATCCCTTCG
1 GAGCTTACCGTTTCAGCCCTACG
* *
70350404 GAGCTTACCATTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCCCTACG
70350427 GAGCTTACCGTTT
1 GAGCTTACCGTTT
70350440 ATTAGCTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCCCTACG
Found at i:70356976 original size:8 final size:8
Alignment explanation
Indices: 70356963--70356989 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
70356953 GTCAAAATAT
70356963 TTATTTTA
1 TTATTTTA
70356971 TTATTTTA
1 TTATTTTA
70356979 TTATTTTA
1 TTATTTTA
70356987 TTA
1 TTA
70356990 AGGTTTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:70357928 original size:41 final size:41
Alignment explanation
Indices: 70357866--70357976 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
70357856 ATTTGTAATA
* * *
70357866 AAACGCCGC-AAAAAGCAGAGCAATAGCGGCGTTTTTTATCC
1 AAACGCCGCTAAAAA-CTGAGCAATAGCGGCGTTTTTGACCC
* *
70357907 AAACGCGGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGACCC
* *
70357948 AAACGCCGCTAAAAACTAAACAATAGCGG
1 AAACGCCGCTAAAAACTGAGCAATAGCGG
70357977 TGCTTTTCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGACCC
Found at i:70358042 original size:41 final size:41
Alignment explanation
Indices: 70357971--70358200 Score: 325
Period size: 41 Copynumber: 5.6 Consensus size: 41
70357961 AACTAAACAA
* * * ** *
70357971 TAGCGGTGCTTTTCGAAAAATGCCGCTATAGGTTGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
* * * * *
70358012 TAGTGGCGCTTCTGGAAAAACGCTGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
70358053 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
*
70358094 TAGCGGCGCTTTTGGAAAAATGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
*
70358135 TAGCGACGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
* *
70358176 TAGTGGCACTTTTGGAAAAACGCCG
1 TAGCGGCGCTTTTGGAAAAACGCCG
70358201 TAAAAAAGTA
Statistics
Matches: 171, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 171 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
Found at i:70358539 original size:18 final size:18
Alignment explanation
Indices: 70358511--70358560 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
70358501 CCTTGTTATA
70358511 TATATATATATATTAA-ACT
1 TATA-ATATATATTAAGA-T
*
70358530 TCTAATATATATTAAGAT
1 TATAATATATATTAAGAT
70358548 TATAATATATATT
1 TATAATATATATT
70358561 TAGGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAATATATATTAAGAT
Found at i:70358982 original size:15 final size:15
Alignment explanation
Indices: 70358962--70358993 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
70358952 TTTAATGTAG
*
70358962 AAGATAAATGTATAT
1 AAGATAAATATATAT
70358977 AAGATAAATATATAT
1 AAGATAAATATATAT
70358992 AA
1 AA
70358994 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:70359032 original size:24 final size:23
Alignment explanation
Indices: 70358965--70359032 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
70358955 AATGTAGAAG
* *
70358965 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
70358990 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
70359014 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
70359033 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:70383793 original size:46 final size:46
Alignment explanation
Indices: 70383743--70383918 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
70383733 TGATTGAGCA
70383743 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70383789 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
70383834 CATCCGAACTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70383882 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70383919 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70383899 original size:93 final size:93
Alignment explanation
Indices: 70383740--70383911 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
70383730 GGATGATTGA
* *
70383740 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
70383805 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
70383833 GCATCCGAACTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
70383897 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
70383912 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70385840 original size:27 final size:27
Alignment explanation
Indices: 70385810--70386005 Score: 187
Period size: 27 Copynumber: 7.3 Consensus size: 27
70385800 TAAGTTGTAT
* * * *
70385810 AATTACCAAAATACTCTTGGAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
70385837 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** *
70385864 AATTATTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
70385891 AATTACCGAAATACCCCTGT-AGGATAA
1 AATTACCGAAATACCCCTGTAAGG-TAG
* * *
70385918 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
70385945 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * * ** *
70385972 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAAGGTAG
70385999 AATTACC
1 AATTACC
70386006 ATTTTGCCCC
Statistics
Matches: 138, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 3 0.02
27 133 0.96
28 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGGTAG
Found at i:70385892 original size:54 final size:54
Alignment explanation
Indices: 70385818--70386005 Score: 259
Period size: 54 Copynumber: 3.5 Consensus size: 54
70385808 ATAATTACCA
* *
70385818 AAATACTCTTGGAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
* * *
70385872 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGATAAAATTACTG
1 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
* * * *
70385926 AAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
* ** *
70385980 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAAGGTAGAATTACC
70386006 ATTTTGCCCC
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
Found at i:70385945 original size:81 final size:81
Alignment explanation
Indices: 70385837--70386005 Score: 221
Period size: 81 Copynumber: 2.1 Consensus size: 81
70385827 TGGAAGGTAG
* *** *
70385837 AATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCTTGTAAGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAA
70385902 TACCCCTGTAGGATAA
66 TACCCCTGTAGGATAA
* * * * *
70385918 AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAGA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAA
* * *
70385983 TACCCTTGTGGGGTAA
66 TACCCCTGTAGGATAA
70385999 AATTACC
1 AATTACC
70386006 ATTTTGCCCC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAA
TACCCCTGTAGGATAA
Found at i:70386392 original size:19 final size:19
Alignment explanation
Indices: 70386368--70386413 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
70386358 TTTTGGGCTT
*
70386368 AATGGGCTGAAAATGGGCC
1 AATGGGCCGAAAATGGGCC
70386387 AATGGGCCGAAAATGGGCC
1 AATGGGCCGAAAATGGGCC
*
70386406 AATAGGCC
1 AATGGGCC
70386414 CACTTTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.35, T:0.13
Consensus pattern (19 bp):
AATGGGCCGAAAATGGGCC
Found at i:70392675 original size:11 final size:11
Alignment explanation
Indices: 70392661--70392709 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
70392651 TGGTGATATA
70392661 GTGGTCGTATG
1 GTGGTCGTATG
* *
70392672 GTGGTGGTGTG
1 GTGGTCGTATG
70392683 GTGG-CGATATG
1 GTGGTCG-TATG
*
70392694 GTGGTTGTATG
1 GTGGTCGTATG
70392705 GTGGT
1 GTGGT
70392710 GTTTCGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 29 0.94
12 1 0.03
ACGTcount: A:0.08, C:0.04, G:0.51, T:0.37
Consensus pattern (11 bp):
GTGGTCGTATG
Found at i:70392686 original size:22 final size:23
Alignment explanation
Indices: 70392649--70392709 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
70392639 GTGGTGCAAG
* *
70392649 GGTGGTGATATAGTGGTCG-TAT
1 GGTGGTGGTATGGTGGTCGATAT
*
70392671 GGTGGTGGTGTGGTGG-CGATAT
1 GGTGGTGGTATGGTGGTCGATAT
*
70392693 GGTGGTTGTATGGTGGT
1 GGTGGTGGTATGGTGGT
70392710 GTTTCGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.11, C:0.03, G:0.49, T:0.36
Consensus pattern (23 bp):
GGTGGTGGTATGGTGGTCGATAT
Found at i:70403426 original size:42 final size:43
Alignment explanation
Indices: 70403340--70403520 Score: 190
Period size: 43 Copynumber: 4.2 Consensus size: 43
70403330 AGTCATCACT
* * * * *
70403340 TTTAGCGGCG-TTTGAACGAAAAACGCCGCTAAATGTAGATACC
1 TTTAGCGGCGCTTT-ACCCAAAAACGCCGCTAAAGGTATAGACC
*
70403383 TTTAGCGGCGCTTTA-CCATAAACGCCGCTAATA-GTATAGACC
1 TTTAGCGGCGCTTTACCCAAAAACGCCGCTAA-AGGTATAGACC
**
70403425 TTTAGCGGCGC-TTACCCAAAAAACGCCGCTAAAGGTGCAGACC
1 TTTAGCGGCGCTTTACCC-AAAAACGCCGCTAAAGGTATAGACC
* * * * *
70403468 TTTAGCGGCGTTTTAGCCACAAACGCCACTAAAGGTGTAGACC
1 TTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGGTATAGACC
70403511 TTTAGCGGCG
1 TTTAGCGGCG
70403521 TTTCCGGGGA
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
41 3 0.03
42 35 0.29
43 74 0.62
44 8 0.07
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (43 bp):
TTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGGTATAGACC
Found at i:70403540 original size:86 final size:85
Alignment explanation
Indices: 70403358--70403650 Score: 241
Period size: 86 Copynumber: 3.4 Consensus size: 85
70403348 CGTTTGAACG
* * * * * *
70403358 AAAAACGCCGCTAAATGTAG-ATACCTTTAGCGGCGCTTTACCATAAACGCCGCTAATAGTATAG
1 AAAAACACCGCTAAAAGT-GCAGACCTTTAGCGGCGTTTTACCACAAACGCCACTAATAGTATAG
70403422 ACCTTTAGCGGCGCTTACCCA
65 ACCTTTAGCGGCGCTTACCCA
* * *
70403443 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGTTTTAGCCACAAACGCCACTAA-AGGTGTA
1 AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTA-CCACAAACGCCACTAATA-GTATA
* **
70403507 GACCTTTAGCGGCG-TTTCCGGG
64 GACCTTTAGCGGCGCTTACC-CA
* * * * **** * * *
70403529 GAAAGCACCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAG
1 AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTACCACAAA-CGCCACTAATAGTATAG
* *
70403594 ACCTTTAGCGGAGCTTTAGCCA
65 ACCTTTAGCGGCGC-TTACCCA
* ** * *
70403616 AAAAAAACCGCTAAATTTACAGACCTATAGCGGCG
1 AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCG
70403651 CTTACACCAA
Statistics
Matches: 164, Mismatches: 36, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
84 1 0.01
85 44 0.27
86 89 0.54
87 27 0.16
88 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (85 bp):
AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTACCACAAACGCCACTAATAGTATAGA
CCTTTAGCGGCGCTTACCCA
Found at i:70403543 original size:43 final size:43
Alignment explanation
Indices: 70403340--70403562 Score: 134
Period size: 43 Copynumber: 5.2 Consensus size: 43
70403330 AGTCATCACT
* * * * * * *
70403340 TTTAGCGGCGTTTGAACGAAAAACGCCGCTAAATGTAG-ATACC
1 TTTAGCGGCGTTTCAGCCACAAACACCGCTAAAGGT-GCAGACC
* * **
70403383 TTTAGCGGCGCTTT-A-CCATAAACGCCGCTAATA-GTATAGACC
1 TTTAGCGGCG-TTTCAGCCACAAACACCGCTAA-AGGTGCAGACC
* * * *
70403425 TTTAGCGGCGCTT-ACCCAAAAAACGCCGCTAAAGGTGCAGACC
1 TTTAGCGGCGTTTCAGCC-ACAAACACCGCTAAAGGTGCAGACC
* * * *
70403468 TTTAGCGGCGTTTTAGCCACAAACGCCACTAAAGGTGTAGACC
1 TTTAGCGGCGTTTCAGCCACAAACACCGCTAAAGGTGCAGACC
* ** * * *
70403511 TTTAGCGGCGTTTCCGGGGA-AAGCACCGCTAAAAGTGCGGACC
1 TTTAGCGGCGTTT-CAGCCACAAACACCGCTAAAGGTGCAGACC
70403554 TTTAGCGGC
1 TTTAGCGGC
70403563 ATTTTTTTGC
Statistics
Matches: 149, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.02
42 33 0.22
43 105 0.70
44 8 0.05
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (43 bp):
TTTAGCGGCGTTTCAGCCACAAACACCGCTAAAGGTGCAGACC
Found at i:70403661 original size:44 final size:44
Alignment explanation
Indices: 70403579--70403663 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
70403569 TTGCAAAGCG
* *
70403579 CCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCAAAAAAAA
1 CCGCTAAAAGTACAGACCTATAGCGGAGCTTTAACCAAAAAAAA
** *
70403623 CCGCTAAATTTACAGACCTATAGCGGCGC-TTACACCAAAAA
1 CCGCTAAAAGTACAGACCTATAGCGGAGCTTTA-ACCAAAAA
70403664 TGCCTTTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (44 bp):
CCGCTAAAAGTACAGACCTATAGCGGAGCTTTAACCAAAAAAAA
Found at i:70403795 original size:157 final size:157
Alignment explanation
Indices: 70403536--70403824 Score: 569
Period size: 157 Copynumber: 1.8 Consensus size: 157
70403526 GGGGAAAGCA
70403536 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
1 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
70403601 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
66 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
70403666 CCTTTAGTGGCGTTTGTGGCTAAAACG
131 CCTTTAGTGGCGTTTGTGGCTAAAACG
70403693 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
1 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
*
70403758 GCGGAGCTTTAGCCAAAAAAAACTGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
66 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
70403823 CC
131 CC
70403825 GCCAAAAGTA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 131 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (157 bp):
CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
CCTTTAGTGGCGTTTGTGGCTAAAACG
Found at i:70403848 original size:44 final size:42
Alignment explanation
Indices: 70403735--70403897 Score: 146
Period size: 44 Copynumber: 3.8 Consensus size: 42
70403725 TTTGCAAAGC
* * * *
70403735 GCCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCAAAAAAA
1 GCCGCCAAAAGTACAGACCTTTAGCGGCGC-TTAACC-AAAAAT
* * * ** *
70403779 ACTGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAAT
1 GCCGCCAAAAGTACAGACCTTTAGCGGCGCTTA-ACCAAAAAT
* *
70403822 GCCGCCAAAAGTACAGACCTTTTAGCGGCGCTTTATCCACAAAT
1 GCCGCCAAAAGTACAGACC-TTTAGCGGCGC-TTAACCAAAAAT
* * *
70403866 GCCGCCAAAAGTAGAGTCCTTTAGCGACGCTT
1 GCCGCCAAAAGTACAGACCTTTAGCGGCGCTT
70403898 TCCCCACAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
42 2 0.02
43 32 0.33
44 60 0.62
45 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (42 bp):
GCCGCCAAAAGTACAGACCTTTAGCGGCGCTTAACCAAAAAT
Found at i:70403905 original size:43 final size:44
Alignment explanation
Indices: 70403790--70403913 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 44
70403780 CTGCTAAATT
* * *
70403790 TACAGACC-TATAGCGGCGCTTACACCAAAAATGCCGCCAAAAG
1 TACAGACCTTTTAGCGGCGCTTTCACCACAAATGCCGCCAAAAG
70403833 TACAGACCTTTTAGCGGCGCTTT-ATCCACAAATGCCGCCAAAAG
1 TACAGACCTTTTAGCGGCGCTTTCA-CCACAAATGCCGCCAAAAG
* * * * *
70403877 TAGAGTCC-TTTAGCGACGCTTTCCCCACAAACGCCGC
1 TACAGACCTTTTAGCGGCGCTTTCACCACAAATGCCGC
70403914 TAAATTTACA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 34 0.49
44 36 0.51
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (44 bp):
TACAGACCTTTTAGCGGCGCTTTCACCACAAATGCCGCCAAAAG
Found at i:70404270 original size:21 final size:21
Alignment explanation
Indices: 70404220--70404271 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
70404210 TCCGCCTCTT
*
70404220 TCGCTGCTACCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
70404241 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
*
70404262 TCTCTGCTGC
1 TCGCTGCTGC
70404272 ATCAGCTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.50, G:0.21, T:0.27
Consensus pattern (21 bp):
TCGCTGCTGCCGCTGCCTCCC
Found at i:70409856 original size:9 final size:9
Alignment explanation
Indices: 70409842--70409978 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
70409832 ATGTATTAGT
70409842 TAAGTTATG
1 TAAGTTATG
70409851 TAAGTTATG
1 TAAGTTATG
*
70409860 TGAGTTATG
1 TAAGTTATG
*
70409869 TAAGTTGTTATA
1 TAA---GTTATG
*
70409881 TACGTTATG
1 TAAGTTATG
* *
70409890 TGAGTTATA
1 TAAGTTATG
*
70409899 TAAATTATG
1 TAAGTTATG
70409908 TAAGTTATG
1 TAAGTTATG
70409917 TAAGTTATG
1 TAAGTTATG
*
70409926 TAGGTTGTTATG
1 TA---AGTTATG
*
70409938 TAAATTATG
1 TAAGTTATG
**
70409947 TAAGTTACA
1 TAAGTTATG
*
70409956 TGAGTTATG
1 TAAGTTATG
* *
70409965 TAACTTATT
1 TAAGTTATG
70409974 TAAGT
1 TAAGT
70409979 AATGATCAAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 82 0.85
12 15 0.15
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:70409934 original size:57 final size:57
Alignment explanation
Indices: 70409846--70409978 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
70409836 ATTAGTTAAG
* ** * *
70409846 TTATGTAAGTTATGTGAGTTATGTAAGTTGTTATATACGTTATGTGAGTTATATAAA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
* * * *
70409903 TTATGTAAGTTATGTAAGTTATGTAGGTTGTTATGTAAATTATGTAAGTTACATGAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
* *
70409960 TTATGTAACTTATTTAAGT
1 TTATGTAAGTTATGTAAGT
70409979 AATGATCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (57 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
Found at i:70411938 original size:25 final size:26
Alignment explanation
Indices: 70411883--70411938 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
70411873 TTATAATTAA
* * *
70411883 ATTAATATAATATATAAAAATTTAGG
1 ATTAATATAAGATAAAAAAATTTACG
*
70411909 A-TAATATTAGATAAAAAAATTT-CG
1 ATTAATATAAGATAAAAAAATTTACG
70411933 ATTAAT
1 ATTAAT
70411939 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 22 0.88
26 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (26 bp):
ATTAATATAAGATAAAAAAATTTACG
Found at i:70413406 original size:22 final size:22
Alignment explanation
Indices: 70413338--70413414 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
70413328 ACAAAATCAG
*
70413338 ACCCTAAAC-CTAAATC-TTAA
1 ACCCTAAACTCTAAAACATTAA
*
70413358 ACCCTAAACTCTAAACCA-TAA
1 ACCCTAAACTCTAAAACATTAA
*
70413379 ACCCCTAACCT-TATAAACATTAA
1 A-CCCTAAACTCTA-AAACATTAA
*
70413402 ACCCTAAATTCTA
1 ACCCTAAACTCTA
70413415 GATACTAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.20
21 12 0.26
22 19 0.41
23 6 0.13
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (22 bp):
ACCCTAAACTCTAAAACATTAA
Found at i:70414559 original size:7 final size:7
Alignment explanation
Indices: 70414547--70414572 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
70414537 ATTAAGATCA
70414547 TAAACAC
1 TAAACAC
70414554 TAAACAC
1 TAAACAC
70414561 TAAACAC
1 TAAACAC
70414568 TAAAC
1 TAAAC
70414573 CTCAAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACAC
Found at i:70414656 original size:35 final size:35
Alignment explanation
Indices: 70414591--70414672 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
70414581 CAAAATAACA
** *
70414591 AAACCCTAAACCATAAAATTAACATTTTAAATCTT
1 AAACCCTAAACCATAAAATTAACACCTTAAATATT
**
70414626 AAACCCTAAACCATAGACCTTAA-ACCTTAAATATT
1 AAACCCTAAACCATA-AAATTAACACCTTAAATATT
*
70414661 AAACCGTAAACC
1 AAACCCTAAACC
70414673 CAAAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 35 0.88
36 5 0.12
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (35 bp):
AAACCCTAAACCATAAAATTAACACCTTAAATATT
Found at i:70415217 original size:41 final size:41
Alignment explanation
Indices: 70414726--70415211 Score: 555
Period size: 41 Copynumber: 11.9 Consensus size: 41
70414716 AATTCAAAAA
* * * * *
70414726 AGACGTTTAGCGGCGATTCTCCAAAAATGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* *
70414767 AGACTTTTTGCGGCGTTTTTCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* * *
70414808 AGACTTTTGGCGGTGTTTTCCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* *
70414849 AGACTTTTGGCGGCGTTTTCCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* * *
70414890 AGACTTTTGGCGGTGTTTTCCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
**
70414931 AGACTTTTGGCGGCGTTTTTATAAAAACGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* * * *
70414972 AGACCTTTGGCGGTGTTTTGGT-AAAAAACGCCGCTAACGCTC
1 AGACTTTTGGCGGCGTTTT--TCCAAAAACGCCGCTAATGCTC
* * * *
70415014 ATACCTTTGGCGGCATTTTTCTAAAAACGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* * *
70415055 AGACTTTTGGCGGCGTTTTTCTAAAAATGCCGCTAGTGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* ** * * *
70415096 AGACTTTTGG-GGTGTTTTTGGAAAAATGCCGCGAATTCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
*** * *
70415136 AGACTTTTTATGGCGTTTCTT-GAAAAACGCCGCTAATTCTC
1 AGACTTTTGGCGGCGTTT-TTCCAAAAACGCCGCTAATGCTC
* *
70415177 AGACTTTTGGCGGCATTTTTCCGAAAACGCCGCTA
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTA
70415212 TTTCTCGACT
Statistics
Matches: 392, Mismatches: 47, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
40 35 0.09
41 320 0.82
42 36 0.09
43 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (41 bp):
AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
Found at i:70415748 original size:42 final size:42
Alignment explanation
Indices: 70415657--70415754 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
70415647 ATTAATTGAT
* *
70415657 ATTTAATTTGCATGTTAAGCATGCCGACTATGATAAACTAAG
1 ATTTGATTTGCATGCTAAGCATGCCGACTATGATAAACTAAG
* * * * *
70415699 ATCTGATTTGCATGCTAAGCATGCCGACTATGTTGATCTTAG
1 ATTTGATTTGCATGCTAAGCATGCCGACTATGATAAACTAAG
*
70415741 ATTTGATTAGCATG
1 ATTTGATTTGCATG
70415755 ATAACTTTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (42 bp):
ATTTGATTTGCATGCTAAGCATGCCGACTATGATAAACTAAG
Found at i:70415911 original size:24 final size:24
Alignment explanation
Indices: 70415863--70415924 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
70415853 AAATTAAATC
*
70415863 GCTTTTCCACAACACTATTGTGTG
1 GCTTTTCCACAACACTATTGAGTG
70415887 GCTTTTCCACAACA-TATTTGAGTG
1 GCTTTTCCACAACACTA-TTGAGTG
*
70415911 G-TTTGACCACAACA
1 GCTTT-TCCACAACA
70415925 AGCAGCTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (24 bp):
GCTTTTCCACAACACTATTGAGTG
Found at i:70418737 original size:27 final size:27
Alignment explanation
Indices: 70418706--70418883 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
70418696 TAAATTGTAC
*
70418706 AGCACTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
70418733 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70418759 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
70418787 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
70418815 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70418842 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
70418869 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
70418884 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:70418820 original size:82 final size:81
Alignment explanation
Indices: 70418707--70418862 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
70418697 AAATTGTACA
* * *
70418707 GCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
70418771 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
70418788 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
70418853 TGCGAGTTGA
65 TGCGAATTGA
70418863 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:70418874 original size:82 final size:81
Alignment explanation
Indices: 70418703--70418883 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
70418693 GATTAAATTG
* * *
70418703 TACAGCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
70418768 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
70418784 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
70418848 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
70418866 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
70418884 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:70426334 original size:12 final size:12
Alignment explanation
Indices: 70426317--70426343 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
70426307 ATTCCGAAGT
70426317 ATATATATATAC
1 ATATATATATAC
70426329 ATATATATATAC
1 ATATATATATAC
70426341 ATA
1 ATA
70426344 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:70426857 original size:27 final size:27
Alignment explanation
Indices: 70426826--70427003 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70426816 TAAATTGTAC
70426826 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
70426853 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70426879 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
70426907 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
70426935 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70426962 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
70426989 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
70427004 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:70426940 original size:82 final size:81
Alignment explanation
Indices: 70426827--70426982 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70426817 AAATTGTACA
* *
70426827 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
70426891 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
70426908 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
70426973 TGCGAGTTGA
65 TGCGAATTGA
70426983 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:70426994 original size:82 final size:81
Alignment explanation
Indices: 70426823--70427003 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
70426813 GATTAAATTG
* *
70426823 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
70426888 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
70426904 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
70426968 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
70426986 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
70427004 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:70446161 original size:27 final size:25
Alignment explanation
Indices: 70446131--70446213 Score: 60
Period size: 27 Copynumber: 3.1 Consensus size: 25
70446121 ACACATATAT
70446131 ATATACCGCACATAGGGCAAAACAGTC
1 ATATACC-CA-ATAGGGCAAAACAGTC
* *
70446158 ATATTA-CCATATAAAGGCAAAACAATC
1 ATA-TACCCA-AT-AGGGCAAAACAGTC
* *
70446185 ATTTTACCTCAAAAGGGCAAAACAGTC
1 A-TATACC-CAATAGGGCAAAACAGTC
70446212 AT
1 AT
70446214 TTTACTACGT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
26 5 0.11
27 32 0.73
28 5 0.11
29 2 0.05
ACGTcount: A:0.45, C:0.22, G:0.13, T:0.20
Consensus pattern (25 bp):
ATATACCCAATAGGGCAAAACAGTC
Found at i:70446214 original size:27 final size:27
Alignment explanation
Indices: 70446144--70446298 Score: 147
Period size: 27 Copynumber: 5.7 Consensus size: 27
70446134 TACCGCACAT
*
70446144 AGGGCAAAACAGTCATATTACCAT-ATAA
1 AGGGCAAAACAGTCATTTTACC-TCA-AA
*
70446172 A-GGCAAAACAATCATTTTACCTCAAA
1 AGGGCAAAACAGTCATTTTACCTCAAA
**
70446198 AGGGCAAAACAGTCATTTTA-CTACGTA
1 AGGGCAAAACAGTCATTTTACCT-CAAA
* * * *
70446225 TGGGCAAATCAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCTCAAA
* * *
70446252 AGGGAAAAATAGTCATTTTACCACATAA
1 AGGGCAAAACAGTCATTTTACCTCA-AA
70446280 A-GGCAAAACAGTCATTTTA
1 AGGGCAAAACAGTCATTTTA
70446299 TCGACCTAAC
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.06
27 96 0.91
28 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCTCAAA
Found at i:70446231 original size:54 final size:54
Alignment explanation
Indices: 70446144--70446298 Score: 202
Period size: 54 Copynumber: 2.9 Consensus size: 54
70446134 TACCGCACAT
* * * *
70446144 AGGGCAAAACAGTCATATTACCATATAAAGGCAAAACAATCATTTTACCTCAAA
1 AGGGCAAAACAGTCATTTTACCACATAAAGGCAAAACAGTCATTTTACCACAAA
* * ** * *
70446198 AGGGCAAAACAGTCATTTTACTACGTATGGGCAAATCAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCACATAAAGGCAAAACAGTCATTTTACCACAAA
* *
70446252 AGGGAAAAATAGTCATTTTACCACATAAAGGCAAAACAGTCATTTTA
1 AGGGCAAAACAGTCATTTTACCACATAAAGGCAAAACAGTCATTTTA
70446299 TCGACCTAAC
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (54 bp):
AGGGCAAAACAGTCATTTTACCACATAAAGGCAAAACAGTCATTTTACCACAAA
Found at i:70446285 original size:81 final size:81
Alignment explanation
Indices: 70446145--70446298 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
70446135 ACCGCACATA
* * *
70446145 GGGCAAAACAGTCATATTACCATATAAAGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAG
1 GGGCAAAACAGTCATATTACCACATAAAGGAAAAACAATCATTTTACCACAAAAGGGCAAAACAG
70446210 TCATTTTACTACGTAT
66 TCATTTTACTACGTAT
* * * * *
70446226 GGGCAAATCAGTCATTTTACCACATAAGGGAAAAATAGTCATTTTACCACATAAA-GGCAAAACA
1 GGGCAAAACAGTCATATTACCACATAAAGGAAAAACAATCATTTTACCACA-AAAGGGCAAAACA
70446290 GTCATTTTA
65 GTCATTTTA
70446299 TCGACCTAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (81 bp):
GGGCAAAACAGTCATATTACCACATAAAGGAAAAACAATCATTTTACCACAAAAGGGCAAAACAG
TCATTTTACTACGTAT
Found at i:70451830 original size:25 final size:25
Alignment explanation
Indices: 70451796--70451849 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
70451786 CGGTTAAAGA
70451796 ATTCGCACACATAGTGCCTCA-ATTC
1 ATTCGCACACATAGTGCCT-ATATTC
70451821 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACATAGTGCCTATATTC
70451846 ATTC
1 ATTC
70451850 ATTATTACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (25 bp):
ATTCGCACACATAGTGCCTATATTC
Done.