Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 328 of 352
Found at i:106002131 original size:29 final size:29
Alignment explanation
Indices: 106002089--106002145 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
106002079 ACTTTTTTCA
106002089 CAAACGCCGCTAAAGACCATGACCTTTAG
1 CAAACGCCGCTAAAGACCATGACCTTTAG
106002118 CAAACGCCGCTAAAGACCATGACCTTTA
1 CAAACGCCGCTAAAGACCATGACCTTTA
106002146 ACGGCGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.18
Consensus pattern (29 bp):
CAAACGCCGCTAAAGACCATGACCTTTAG
Found at i:106002188 original size:43 final size:42
Alignment explanation
Indices: 106002118--106002220 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 42
106002108 TGACCTTTAG
* * * * * * *
106002118 CAAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTTCA
1 CAAACG-CGCTAAAAATCATAAACTTTAACAGCACTTTTCTCA
*
106002161 CAAACGCTGCTAAAAATCATAAACTTTAGCAGCACTTTTCTCA
1 CAAACGC-GCTAAAAATCATAAACTTTAACAGCACTTTTCTCA
106002204 CAAACGGCGCTAAAAAT
1 CAAAC-GCGCTAAAAAT
106002221 AATGATATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 47 0.94
44 2 0.04
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (42 bp):
CAAACGCGCTAAAAATCATAAACTTTAACAGCACTTTTCTCA
Found at i:106002188 original size:72 final size:72
Alignment explanation
Indices: 106002051--106002191 Score: 201
Period size: 72 Copynumber: 2.0 Consensus size: 72
106002041 TTTAAAAAAA
* ** * * *
106002051 GCCGTTAAAGACCATGACCTTTAGTGGCACTTTTTTCACAAACGCCGCTAAAGACCATGACCTTT
1 GCCGCTAAAGACCATGACCTTTAACGGCACTTTTTTCACAAACGCCGCTAAAAACCATAAACTTT
106002116 AGCAAAC
66 AGCAAAC
* * *
106002123 GCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTTCACAAACGCTGCTAAAAATCATAAACTTT
1 GCCGCTAAAGACCATGACCTTTAACGGCACTTTTTTCACAAACGCCGCTAAAAACCATAAACTTT
106002188 AGCA
66 AGCA
106002192 GCACTTTTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (72 bp):
GCCGCTAAAGACCATGACCTTTAACGGCACTTTTTTCACAAACGCCGCTAAAAACCATAAACTTT
AGCAAAC
Found at i:106006510 original size:8 final size:8
Alignment explanation
Indices: 106006487--106006576 Score: 86
Period size: 7 Copynumber: 12.1 Consensus size: 8
106006477 GACTAAAATA
106006487 TTAAA-TT
1 TTAAATTT
106006494 TTAAA-TT
1 TTAAATTT
106006501 TTAAATTT
1 TTAAATTT
*
106006509 TTAAGTTT
1 TTAAATTT
*
106006517 TT-TATTT
1 TTAAATTT
**
106006524 TTTTATTT
1 TTAAATTT
*
106006532 TT-TATTT
1 TTAAATTT
106006539 TTAAA-TT
1 TTAAATTT
106006546 TTAAA-TT
1 TTAAATTT
106006553 TTAAA-TT
1 TTAAATTT
106006560 TTAAATTT
1 TTAAATTT
106006568 TTAAATTT
1 TTAAATTT
106006576 T
1 T
106006577 GAGTTTATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
7 45 0.60
8 30 0.40
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (8 bp):
TTAAATTT
Found at i:106006510 original size:15 final size:15
Alignment explanation
Indices: 106006482--106006576 Score: 104
Period size: 15 Copynumber: 6.5 Consensus size: 15
106006472 ATATGGACTA
*
106006482 AAATATTAAA-TTTT
1 AAATTTTAAATTTTT
106006496 AAATTTTAAATTTTT
1 AAATTTTAAATTTTT
* **
106006511 AAGTTTTTTATTTTT
1 AAATTTTAAATTTTT
** **
106006526 TTATTTTTTATTTTT
1 AAATTTTAAATTTTT
106006541 AAATTTTAAA-TTTT
1 AAATTTTAAATTTTT
106006555 AAATTTTAAATTTTT
1 AAATTTTAAATTTTT
106006570 AAATTTT
1 AAATTTT
106006577 GAGTTTATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
14 23 0.34
15 45 0.66
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (15 bp):
AAATTTTAAATTTTT
Found at i:106006601 original size:59 final size:52
Alignment explanation
Indices: 106006487--106006593 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 52
106006477 GACTAAAATA
* *
106006487 TTAAATTTTAAATTTTAAATTTTTAAGTTTTTTATTTTTTTATTTTTTATTT
1 TTAAATTTTAAATTTTAAATTTTTAAATTTTTAATTTTTTTATTTTTTATTT
106006539 TTAAATTTTAAATTTTAAA-TTTTAAATTTTTAAATTTTGAGTTTATTTTTTATTT
1 TTAAATTTTAAATTTTAAATTTTTAAATTTTT-AATTTT---TTTATTTTTTATTT
106006594 CGGTTTAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
51 11 0.22
52 24 0.49
55 14 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (52 bp):
TTAAATTTTAAATTTTAAATTTTTAAATTTTTAATTTTTTTATTTTTTATTT
Found at i:106007181 original size:7 final size:7
Alignment explanation
Indices: 106007169--106007232 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
106007159 CCCATGGCCA
106007169 TTAAACC
1 TTAAACC
106007176 TTAAACC
1 TTAAACC
*
106007183 ATAAAACC
1 -TTAAACC
*
106007191 CTAAACC
1 TTAAACC
* *
106007198 ATAGACC
1 TTAAACC
106007205 TTAAACC
1 TTAAACC
**
106007212 TTAAATA
1 TTAAACC
106007219 TTAAACC
1 TTAAACC
*
106007226 GTAAACC
1 TTAAACC
106007233 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:106007189 original size:15 final size:15
Alignment explanation
Indices: 106007166--106007216 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
106007156 ATACCCATGG
*
106007166 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
106007181 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
106007196 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
106007210 CCTTAAA
1 CCATAAA
106007217 TATTAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:106007397 original size:37 final size:37
Alignment explanation
Indices: 106007345--106007416 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
106007335 GACGTTTTTT
* * *
106007345 GGGGTTTAGGGTTTTAGAAATTATGGTTTAGTGTTTA
1 GGGGTTTAGGATTTTAGAAATTATAGATTAGTGTTTA
* * *
106007382 GGGGTTTAGTATTTTAGGAGTTATAGATTAGTGTT
1 GGGGTTTAGGATTTTAGAAATTATAGATTAGTGTT
106007417 CATGATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (37 bp):
GGGGTTTAGGATTTTAGAAATTATAGATTAGTGTTTA
Found at i:106007510 original size:41 final size:41
Alignment explanation
Indices: 106007454--106007943 Score: 698
Period size: 41 Copynumber: 12.0 Consensus size: 41
106007444 GGGATTATAT
* *
106007454 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
106007495 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCCCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
106007536 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCCCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
106007577 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCCCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * *
106007618 GACTTTTAGCAGCGTTTTAACAAAAAGTGCCGCTATTGCT-C
1 GACTTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCC
* * ** *
106007659 TATTTTTAGCGGCGTTTTAATAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* *
106007700 GACTTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCCCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* *
106007741 GACTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
106007782 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCCCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
106007823 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * ** **
106007864 G-TTTTTAGCGGCGTTTTAACAAAAAATGCCGCTATTGCTTT
1 GACTTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCC
* *
106007905 G-TTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
106007944 TATGTTTTAC
Statistics
Matches: 408, Mismatches: 38, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
40 51 0.12
41 339 0.83
42 18 0.04
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
Found at i:106015305 original size:14 final size:14
Alignment explanation
Indices: 106015288--106015314 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106015278 TAATAATTTT
106015288 AATTTAAAAAATAA
1 AATTTAAAAAATAA
106015302 AATTTAAAAAATA
1 AATTTAAAAAATA
106015315 GCATACTATT
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:0.00, T:0.30
Consensus pattern (14 bp):
AATTTAAAAAATAA
Found at i:106015375 original size:11 final size:10
Alignment explanation
Indices: 106015339--106015384 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
106015329 GATTATATGA
106015339 TAATTAACTT
1 TAATTAACTT
*
106015349 TAATTAAGTT
1 TAATTAACTT
*
106015359 TTATTATACTT
1 TAATTA-ACTT
106015370 TAATTAACTAT
1 TAATTAACT-T
106015381 TAAT
1 TAAT
106015385 CACACTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 17 0.57
11 13 0.43
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (10 bp):
TAATTAACTT
Found at i:106017994 original size:12 final size:12
Alignment explanation
Indices: 106017979--106018008 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
106017969 TGTGCCCGGT
106017979 CGTGTGGCTGGC
1 CGTGTGGCTGGC
106017991 CGTGTGGCTGGC
1 CGTGTGGCTGGC
106018003 CGTGTG
1 CGTGTG
106018009 ATGGGCGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.50, T:0.27
Consensus pattern (12 bp):
CGTGTGGCTGGC
Found at i:106019120 original size:30 final size:30
Alignment explanation
Indices: 106019077--106019200 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
106019067 TCCATATTTA
* * *
106019077 TGGAAAATCAAAGATATGTGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
106019107 TAGAAAGTCAAAGATATGAGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
106019137 TGGAAAGTCAAATATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
106019167 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
106019198 TGG
1 TGG
106019201 CATAATAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 76 0.90
31 8 0.10
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:106019147 original size:15 final size:15
Alignment explanation
Indices: 106019129--106019178 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
106019119 GATATGAGTA
106019129 TCAAATATTGGAAAG
1 TCAAATATTGGAAAG
**
106019144 TCAAATATATGGGTA-
1 TCAAATAT-TGGAAAG
106019159 TCAAATATTGGAAAG
1 TCAAATATTGGAAAG
106019174 TCAAA
1 TCAAA
106019179 GATATGGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (15 bp):
TCAAATATTGGAAAG
Found at i:106023794 original size:15 final size:15
Alignment explanation
Indices: 106023774--106023881 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
106023764 TTTATGGAAA
106023774 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
106023789 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
106023803 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
106023819 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
106023833 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
106023849 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
106023863 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
106023879 ATC
1 ATC
106023882 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:106023811 original size:30 final size:30
Alignment explanation
Indices: 106023768--106023891 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
106023758 TCCATATTTA
* *
106023768 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
106023798 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
106023828 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
106023858 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
106023889 TGG
1 TGG
106023892 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:106036371 original size:19 final size:20
Alignment explanation
Indices: 106036347--106036391 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
106036337 TAAATTAGAG
*
106036347 ATTGATTAAA-TTATGGTTA
1 ATTGATTAAATTTAAGGTTA
106036366 ATTGATTAAATTTAAGGTTA
1 ATTGATTAAATTTAAGGTTA
106036386 ATTGAT
1 ATTGAT
106036392 ACATAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTGATTAAATTTAAGGTTA
Found at i:106037149 original size:126 final size:126
Alignment explanation
Indices: 106036918--106037295 Score: 512
Period size: 126 Copynumber: 3.0 Consensus size: 126
106036908 TCTGCAAGAT
* *
106036918 TAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAACACTTCAAGCAGGATGCACTGTCAG
1 TAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAG
* * *
106036982 CAAAA-TTCTTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTATAGTAGTTCATAAAAAAA
66 CAAAATTTC-TGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCATAGAAAAA
* * * * *
106037043 TAATTCTGTGTAGACGTTTCTAAACAAATAGTGCCGAAAACGCTTCAAGCAGGATACACTATCAG
1 TAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAG
* *
106037108 CAAAATTTCTGAAAAAAGCTCTCACGTGGACGCT-TTGTTGCTACAATAGTTCATAGAAAAA
66 CAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTT-TTGCTACAGTAGTTCATAGAAAAA
* * * * * *
106037169 TAATTCTGAGTAGATGTTTCTGAACAAATAGTATC-AGTAATGCTTCAAGCAGGATGCGCTGTTA
1 TAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGA-AAACGCTTCAAGCAGGATGCACTGTCA
* * *
106037233 GCAAAATTTCTGAAAGAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAAAA
65 GCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCATAGAAAAA
106037295 T
1 T
106037296 GAGGCTATAA
Statistics
Matches: 220, Mismatches: 28, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
125 35 0.16
126 180 0.82
127 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (126 bp):
TAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAG
CAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCATAGAAAAA
Found at i:106039358 original size:26 final size:25
Alignment explanation
Indices: 106039303--106039359 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
106039293 ATAATAAGAT
* *
106039303 ATAATATAAATATATAGGAAATAAG
1 ATAATATAAATATATAGAAAATAAC
106039328 A-AATATAATAGTATATA-AAAATAAC
1 ATAATATAA-A-TATATAGAAAATAAC
106039353 ATAATAT
1 ATAATAT
106039360 TATAACATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 7 0.26
25 9 0.33
26 11 0.41
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (25 bp):
ATAATATAAATATATAGAAAATAAC
Found at i:106041660 original size:206 final size:206
Alignment explanation
Indices: 106041124--106041629 Score: 870
Period size: 206 Copynumber: 2.5 Consensus size: 206
106041114 AAATCAGCTT
106041124 CTTCGATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCAGT-ATAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCA-TCATAAACA
**
106041188 CGTGAAAGCCAAATCAGCTACATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
* * *
106041253 TGGATCTTGCTTCAGTCTAATCGTTTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTGAAGT
130 TGGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTACTCTCCATTGAAGT
106041318 AGAGATGCCAGA
195 AGAGATGCCAGA
* *
106041330 CTTCGATTTGTTCTCTGACAATACAGAGATCACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCATCATAAACAC
*
106041395 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * *
106041460 GGATCTTGCTTCAGTCTACTCGTCTGAAGGTCAGATCTGCTGTGTATCTACTCTCCATTGAAGTG
131 GGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTACTCTCCATTGAAGTA
106041525 GAGATGCCAGA
196 GAGATGCCAGA
* * *
106041536 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGTTTCATCTTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCATCATAAACAC
106041601 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
106041630 CTGCTCTTCG
Statistics
Matches: 284, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
205 1 0.00
206 283 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCATCATAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTACTCTCCATTGAAGTA
GAGATGCCAGA
Found at i:106041673 original size:44 final size:44
Alignment explanation
Indices: 106041622--106041714 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
106041612 ATCAGCTATG
* **
106041622 TCTTCGATCTGCTCT-TCGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCT-GACAATACAGAGATGCCAAATCTACTA
*
106041666 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCGAATCTACTA
1 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTA
106041710 TCTTC
1 TCTTC
106041715 AACTTGTTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 43 0.98
45 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTA
Found at i:106051614 original size:44 final size:44
Alignment explanation
Indices: 106051564--106052157 Score: 870
Period size: 44 Copynumber: 13.5 Consensus size: 44
106051554 CGAGAACACC
* * * * * * *
106051564 AATCTGTTATTTTCAATCTGCTCTCTGCCAATATAGATACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
*
106051608 AATCTG-TCATCTTCGATCTGCTCTCCGCCAACACAGAGACGCTA
1 AATCTGCT-ATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* * * * *
106051652 AATCTGCTATTTTCGATCTGCTCTCCGCCAATATAGAAATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* * *
106051696 AATCTACTATCTTCGATCTGCTCTCCACCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* * *
106051740 AATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* *
106051784 AATCTGCTATTTTCGATCTGCTCTCCGCCAACATAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* *
106051828 AATCTGCTATCTTCGATCTAC-CTCTGCCAACACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
106051871 AATCTGCTATCTTCGATCTGCTCT-CGCCAACACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
106051914 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
*
106051958 AATCTGCTACCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* *
106052002 AATCTGCTATCTTCGATCTGCTCTCTGCCAACAAAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* * *
106052046 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGGCGTCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
* *
106052090 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
*
106052134 AATCTACTATCTTCGATCTGCTCT
1 AATCTGCTATCTTCGATCTGCTCT
106052158 ACTGCAATCT
Statistics
Matches: 501, Mismatches: 45, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
43 83 0.17
44 417 0.83
45 1 0.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
Found at i:106052381 original size:132 final size:132
Alignment explanation
Indices: 106052143--106052725 Score: 911
Period size: 132 Copynumber: 4.4 Consensus size: 132
106052133 AAATCTACTA
* *
106052143 TCTTCGATCTGC-TCTACTGCAA-TCTCAGGGAAACAAGATCT-ATAATCTTCAACCTACTCCAC
1 TCTTCGATCTGCTTC-ACTGCAACT-TCAGGGAAACAAGATCTGA-AAT-TTTAGCCTACTCCAC
* * *
106052205 TACAACCTTAGAGAGCTAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGAT
62 TACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGAT
*
106052270 TCGCTG
127 TCGCCG
* *
106052276 TCTTCGATCTGTTTCACTGCAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCTACTACA
1 TCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACA
* *
106052341 ACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGTTCAGATTCGC
66 ACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGC
*
106052406 CA
131 CG
* * *
106052408 TCTTCGATCTGCTTCACTGTAACTTTAGGGAAACGAGATCTGAAATTTTAGCCTACTCCACTACA
1 TCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACA
*
106052473 ACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGT
66 ACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGC
106052538 CG
131 CG
*
106052540 TCTTCGATCTGCTTCACTGTAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACA
1 TCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACA
* * *
106052605 ACTTTAGGGAGCTAGGTTGGTGGCGTAAATCTGCTTCACTGTAACTTCAGGAAGCTCAGATTCGC
66 ACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGC
106052670 CG
131 CG
* **
106052672 TCTTCGATCTACTTCACTGCAACTTCAGGGAAATGAGATCTGAAATTTTAGCCT
1 TCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTGAAATTTTAGCCT
106052726 CATAGGCCCA
Statistics
Matches: 417, Mismatches: 30, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
132 375 0.90
133 38 0.09
134 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
TCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACA
ACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGC
CG
Found at i:106052556 original size:45 final size:45
Alignment explanation
Indices: 106052232--106052700 Score: 171
Period size: 45 Copynumber: 10.6 Consensus size: 45
106052222 AGGATGGTGG
*
106052232 CTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCG-CTGT
1 CTTAGATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTC-GT
* ** * * ***
106052277 CTTCGATCTGTTTCACTGCAACTTCAGGGAAAC-AAGA-TCTGAAAT
1 CTTAGATCTACTTCACTGCAACTTCA-GGAAGCTCAGATTC-GTCGT
* * * * * * * *
106052322 TTTAG-CCTAC-TCTACTACAACTTTAGGGAGCT-AGGTTGGT-GG
1 CTTAGATCTACTTC-ACTGCAACTTCAGGAAGCTCAGATTCGTCGT
* * * * *
106052364 CTTAAATCTGCTTCACTGCAACTTCAGGAAGTTCAGATTCGCCAT
1 CTTAGATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTCGT
* * * * * * ***
106052409 CTTCGATCTGCTTCACTGTAACTTTAGGGAAAC-GAGA-TCTGAAAT
1 CTTAGATCTACTTCACTGCAACTTCA-GGAAGCTCAGATTC-GTCGT
* * * * * * * * *
106052454 TTTAG-CCTACTCCACTACAACTTTAGGGAGCT-AGGTTGGT-GG
1 CTTAGATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTCGT
*
106052496 CTTAAATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTCGT
1 CTTAGATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTCGT
* * * * * ***
106052541 CTTCGATCTGCTTCACTGTAACTTCAGGGAAAC-AAGA-TCTGAAAT
1 CTTAGATCTACTTCACTGCAACTTCA-GGAAGCTCAGATTC-GTCGT
* * * * * * * * *
106052586 TTTAG-CCTACTCCACTACAACTTTAGGGAGCT-AGGTTGGT-GG
1 CTTAGATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTCGT
* * * * *
106052628 CGTAAATCTGCTTCACTGTAACTTCAGGAAGCTCAGATTCGCCGT
1 CTTAGATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTCGT
*
106052673 CTTCGATCTACTTCACTGCAACTTCAGG
1 CTTAGATCTACTTCACTGCAACTTCAGG
106052701 GAAATGAGAT
Statistics
Matches: 289, Mismatches: 111, Indels: 48
0.65 0.25 0.11
Matches are distributed among these distances:
42 8 0.03
43 83 0.29
44 68 0.24
45 116 0.40
46 14 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (45 bp):
CTTAGATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCGTCGT
Found at i:106056528 original size:5 final size:5
Alignment explanation
Indices: 106056518--106056573 Score: 66
Period size: 5 Copynumber: 11.6 Consensus size: 5
106056508 AATGCAAATG
106056518 ATGCA ATGCA ATGCA ATGCAA ATG-- ATGCA ATGCA ATGCAA ATG-- ATGCA
1 ATGCA ATGCA ATGCA ATGC-A ATGCA ATGCA ATGCA ATGC-A ATGCA ATGCA
106056566 ATGCA ATG
1 ATGCA ATG
106056574 TAAATGCATA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
3 6 0.13
5 31 0.69
6 8 0.18
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (5 bp):
ATGCA
Found at i:106056532 original size:19 final size:19
Alignment explanation
Indices: 106056523--106056579 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
106056513 AAATGATGCA
106056523 ATGCAATGCAATGCAAATG
1 ATGCAATGCAATGCAAATG
106056542 ATGCAATGCAATGCAAATG
1 ATGCAATGCAATGCAAATG
*
106056561 ATGCAATGCAATGTAAATG
1 ATGCAATGCAATGCAAATG
106056580 CATAGGATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (19 bp):
ATGCAATGCAATGCAAATG
Found at i:106056573 original size:24 final size:24
Alignment explanation
Indices: 106056508--106056557 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
106056498 TGGGAAATTT
106056508 AATGCAAATGATGCAATGCAATGC
1 AATGCAAATGATGCAATGCAATGC
106056532 AATGCAAATGATGCAATGCAATGC
1 AATGCAAATGATGCAATGCAATGC
106056556 AA
1 AA
106056558 ATGATGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (24 bp):
AATGCAAATGATGCAATGCAATGC
Found at i:106056592 original size:24 final size:24
Alignment explanation
Indices: 106056508--106056595 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
106056498 TGGGAAATTT
* *
106056508 AATGCAAATGATGCAATGCAATGC
1 AATGCAAAGGATGCAATGCAATGA
*
106056532 AATGC-AA--ATG--ATGCAATGC
1 AATGCAAAGGATGCAATGCAATGA
*
106056551 AATGCAAATGATGCAATGCAATGTA
1 AATGCAAAGGATGCAATGCAATG-A
*
106056576 AATGCATAGGATG-AATGCAA
1 AATGCAAAGGATGCAATGCAA
106056596 AGGAAAGGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
19 14 0.25
20 2 0.04
21 3 0.05
22 3 0.05
23 2 0.04
24 20 0.36
25 11 0.20
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (24 bp):
AATGCAAAGGATGCAATGCAATGA
Found at i:106058534 original size:131 final size:131
Alignment explanation
Indices: 106058109--106058554 Score: 352
Period size: 131 Copynumber: 3.4 Consensus size: 131
106058099 TTGCCTCACC
* * ** * **
106058109 TTAGAAAATACGAATGAAATTCCAAAGGGATATTCGATTAATTTGAACAAATGAAAAAGCGTAAC
1 TTAGAAAATATGAATGAAATTCCAAAGGGATATTCAATTGTTTTGAACAAACGAAAAAGCAAAAC
* * * *
106058174 TCAGCACAATAGGGC-TCGATTCTCAAATT-TCCAACTATCGAATATCGCCTTCA-TTTTGAAAG
66 CCAGCACGATAGGGCAT-GATTCTCAAATTAT-CAAATATCGAATATCGCCTT-AGTTTTAAAAG
106058236 A-TT
128 ATTT
* * * * * *
106058239 TTAGAAAATGTGAATGAAATTCCGAAGGGATCTTCAATTGTTTTGAACCAATGAAAAAGCACAAC
1 TTAGAAAATATGAATGAAATTCCAAAGGGATATTCAATTGTTTTGAACAAACGAAAAAGCAAAAC
* * * * * * * *
106058304 CCAGCACGATAGGGCACGATTCTCAAATCA-CGAAACATTGAACATCGTCTTCGTTTT-AAAGCG
66 CCAGCACGATAGGGCATGATTCTCAAATTATC-AAATATCGAATATCGCCTTAGTTTTAAAAG-A
*
106058367 CTT
129 TTT
* * * * * * * *
106058370 TTA-ATAAACATGAGTGCGAATAT--AAATGAATATTCGATTGTTTTGAACAAACGAGAAATCAA
1 TTAGA-AAATATGAATG-AAAT-TCCAAAGGGATATTCAATTGTTTTGAACAAACGAAAAAGCAA
* * * *
106058432 AACCCAGCACGATAGGGCATGATTCTCGAATTATCAAATACCGAGTATTGCCTTAGTTTTAAAAG
63 AACCCAGCACGATAGGGCATGATTCTCAAATTATCAAATATCGAATATCGCCTTAGTTTTAAAAG
106058497 ATTT
128 ATTT
* * ** * *
106058501 TTAGAAGATATGAGTGAAATTTTAAAGGGATATTCAATTATTTTTGAGCAAACG
1 TTAGAAAATATGAATGAAATTCCAAAGGGATATTCAATT-GTTTTGAACAAACG
106058555 CGGAATTGCA
Statistics
Matches: 245, Mismatches: 56, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
129 6 0.02
130 101 0.41
131 116 0.47
132 21 0.09
133 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (131 bp):
TTAGAAAATATGAATGAAATTCCAAAGGGATATTCAATTGTTTTGAACAAACGAAAAAGCAAAAC
CCAGCACGATAGGGCATGATTCTCAAATTATCAAATATCGAATATCGCCTTAGTTTTAAAAGATT
T
Found at i:106063463 original size:36 final size:36
Alignment explanation
Indices: 106063416--106063485 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
106063406 TTTGGAATTA
106063416 AAGTCTATTGCTGAAATTCTGATTCCTAAAGGTTGT
1 AAGTCTATTGCTGAAATTCTGATTCCTAAAGGTTGT
106063452 AAGTCTATTGCTGAAATTCTGATTCCTAAAGGTT
1 AAGTCTATTGCTGAAATTCTGATTCCTAAAGGTT
106063486 TTAAACTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.39
Consensus pattern (36 bp):
AAGTCTATTGCTGAAATTCTGATTCCTAAAGGTTGT
Found at i:106066529 original size:15 final size:15
Alignment explanation
Indices: 106066487--106066536 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
106066477 ATAACTTTGA
*
106066487 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
106066501 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
106066516 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
106066530 ATGCAAA
1 ATGCAAA
106066537 AAGGATATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:106074527 original size:26 final size:24
Alignment explanation
Indices: 106074482--106074529 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
106074472 AATAAGATAT
**
106074482 AATATAAATATATAGGAAATAAGA
1 AATATAAATATATAAAAAATAAGA
106074506 AATATAATAGTATATAAAAAATAA
1 AATATAA-A-TATATAAAAAATAA
106074530 CATAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 1 0.05
26 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (24 bp):
AATATAAATATATAAAAAATAAGA
Found at i:106078994 original size:18 final size:18
Alignment explanation
Indices: 106078968--106079010 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
106078958 GACTAGAAAA
* *
106078968 AGGAAACATATAAGGATT
1 AGGATACATATAAGGACT
*
106078986 AGGATACATATAAGGGCT
1 AGGATACATATAAGGACT
106079004 AGGATAC
1 AGGATAC
106079011 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:106080649 original size:49 final size:48
Alignment explanation
Indices: 106080596--106080732 Score: 138
Period size: 49 Copynumber: 2.8 Consensus size: 48
106080586 ATGCAAACAT
*
106080596 CATAAATAAAAAAAAGAATCAAGTAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATAAAAAAAA-AATCAAGTAGTATTGAAAATTTAATTA-AATTTG
* * *
106080645 CATAAATGAATAAAATATC-AGATAGTATT-ACAAATTTAATTAAATTTG
1 CATAAATAAAAAAAAAATCAAG-TAGTATTGA-AAATTTAATTAAATTTG
* *
106080693 CATAAATTAAAAAAAATATTGAA-TAGTATTGAAAATTTAA
1 CATAAA-TAAAAAAAA-AATCAAGTAGTATTGAAAATTTAA
106080733 AATTATCACT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
47 5 0.07
48 29 0.40
49 35 0.49
50 2 0.03
51 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (48 bp):
CATAAATAAAAAAAAAATCAAGTAGTATTGAAAATTTAATTAAATTTG
Found at i:106080908 original size:11 final size:11
Alignment explanation
Indices: 106080877--106080907 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
106080867 AAAAAATTTA
106080877 ATAGAATTTTG
1 ATAGAATTTTG
106080888 ATAGAATTTTG
1 ATAGAATTTTG
106080899 ATAG-ATTTT
1 ATAGAATTTT
106080908 TTAAGGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (11 bp):
ATAGAATTTTG
Found at i:106092016 original size:17 final size:18
Alignment explanation
Indices: 106091984--106092017 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106091974 CTCTTTTAAG
*
106091984 ATTTGGCTTGTTAATTTT
1 ATTTCGCTTGTTAATTTT
106092002 ATTTCGCTT-TTAATTT
1 ATTTCGCTTGTTAATTT
106092018 AGTCCCCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.62
Consensus pattern (18 bp):
ATTTCGCTTGTTAATTTT
Found at i:106092269 original size:16 final size:17
Alignment explanation
Indices: 106092250--106092285 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
106092240 ATTTCTTTAC
106092250 TTTATTATTATTAT-TA
1 TTTATTATTATTATCTA
*
106092266 TTTATTATTTTTATCTA
1 TTTATTATTATTATCTA
106092283 TTT
1 TTT
106092286 CTTTCGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTATTATTATCTA
Found at i:106093856 original size:22 final size:22
Alignment explanation
Indices: 106093831--106093901 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
106093821 TTTTTAAATT
106093831 TTAAATTTATATATTTTCATAA
1 TTAAATTTATATATTTTCATAA
* * *
106093853 TT-AA-TGAT-T-TTTT-AAATT
1 TTAAATTTATATATTTTCATA-A
106093871 TTAAATTTATATATTTTCATAA
1 TTAAATTTATATATTTTCATAA
106093893 TTAAATTTA
1 TTAAATTTA
106093902 AATAAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
17 2 0.05
18 6 0.16
19 3 0.08
20 6 0.16
21 3 0.08
22 15 0.41
23 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (22 bp):
TTAAATTTATATATTTTCATAA
Found at i:106093870 original size:40 final size:40
Alignment explanation
Indices: 106093815--106093896 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
106093805 ATTTATGTAG
106093815 AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
1 AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
106093855 AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
1 AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
106093895 AA
1 AA
106093897 ATTTAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (40 bp):
AATGATTTTTTAAATTTTAAATTTATATATTTTCATAATT
Found at i:106100600 original size:5 final size:5
Alignment explanation
Indices: 106100590--106100617 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
106100580 TTGTGTGTTC
106100590 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
106100618 TCTCAAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:106105047 original size:5 final size:5
Alignment explanation
Indices: 106105037--106105078 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
106105027 TTGTGTGTTC
106105037 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
106105079 TTACAAATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:106105056 original size:14 final size:15
Alignment explanation
Indices: 106105037--106105078 Score: 77
Period size: 14 Copynumber: 2.9 Consensus size: 15
106105027 TTGTGTGTTC
106105037 TTTATTTTATTTTA-
1 TTTATTTTATTTTAT
106105051 TTTATTTTATTTTAT
1 TTTATTTTATTTTAT
106105066 TTTATTTTATTTT
1 TTTATTTTATTTT
106105079 TTACAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:106105829 original size:22 final size:22
Alignment explanation
Indices: 106105804--106105847 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
106105794 TAGTCATATA
106105804 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
106105826 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
106105848 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:106105899 original size:15 final size:16
Alignment explanation
Indices: 106105872--106105902 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
106105862 ATTTTATTTT
106105872 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
106105888 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
106105903 TAAAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:106105960 original size:15 final size:15
Alignment explanation
Indices: 106105940--106105996 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
106105930 ATTCAATATT
106105940 AATATTTTAATAATA
1 AATATTTTAATAATA
*
106105955 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
106105974 AATATATTAATAATA
1 AATATTTTAATAATA
*
106105989 AATGTTTT
1 AATATTTT
106105997 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:106120614 original size:7 final size:7
Alignment explanation
Indices: 106120602--106120626 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
106120592 CAAATATTAA
106120602 AAATATT
1 AAATATT
106120609 AAATATT
1 AAATATT
106120616 AAATATT
1 AAATATT
106120623 AAAT
1 AAAT
106120627 GTCATACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:106132777 original size:3 final size:3
Alignment explanation
Indices: 106132769--106132816 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
106132759 TTTAGGCAGT
* * *
106132769 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA CGA GGA GGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
106132816 A
1 A
106132817 AAAAATAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:106135731 original size:32 final size:31
Alignment explanation
Indices: 106135683--106135754 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
106135673 AGGAAATAAT
* * *
106135683 TAATAAAATACTTAATATCAATTTAAT-GAAAA
1 TAATAATATACATAATAT--ATATAATAGAAAA
*
106135715 TAATAATATACATAATATATATAATAGATAA
1 TAATAATATACATAATATATATAATAGAAAA
106135746 TAATAATAT
1 TAATAATAT
106135755 GAAATGATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.17
31 13 0.37
32 16 0.46
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (31 bp):
TAATAATATACATAATATATATAATAGAAAA
Found at i:106135800 original size:8 final size:8
Alignment explanation
Indices: 106135778--106135816 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
106135768 GTTAAAATGT
106135778 AAAATAATA
1 AAAAT-ATA
*
106135787 ATAATATA
1 AAAATATA
106135795 AAAATATA
1 AAAATATA
106135803 AAAATATA
1 AAAATATA
*
106135811 ACAATA
1 AAAATA
106135817 AATAATAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 23 0.85
9 4 0.15
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAATATA
Found at i:106135803 original size:16 final size:16
Alignment explanation
Indices: 106135778--106135823 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
106135768 GTTAAAATGT
106135778 AAAATAATAATAATATA
1 AAAAT-ATAATAATATA
*
106135795 AAAATATAAAAATATA
1 AAAATATAATAATATA
*
106135811 ACAATA-AATAATA
1 AAAATATAATAATA
106135824 AGTAATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATATAATAATATA
Found at i:106135888 original size:25 final size:23
Alignment explanation
Indices: 106135851--106135907 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
106135841 AAATATATAT
* *
106135851 TAATATGATAAAAAATGAAGTAATA
1 TAATATAACAAAAAAT-AAGTAA-A
*
106135876 TAATATAACAAAATATAAGTAAA
1 TAATATAACAAAAAATAAGTAAA
106135899 TAATTATAA
1 TAA-TATAA
106135908 AATTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 13 0.46
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
TAATATAACAAAAAATAAGTAAA
Found at i:106137777 original size:83 final size:83
Alignment explanation
Indices: 106137661--106137819 Score: 246
Period size: 83 Copynumber: 1.9 Consensus size: 83
106137651 CTTCAACGTA
** * *
106137661 AACATGTGAAAGTCAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATC
1 AACATGTGAAAGTCAAATCAGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATC
106137726 ATCTTGGATCTGTTTGAG
66 ATCTTGGATCTGTTTGAG
* * * *
106137744 AACATTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATC
1 AACATGTGAAAGTCAAATCAGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATC
106137809 ATCTTGGATCT
66 ATCTTGGATCT
106137820 TCTTCAGTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (83 bp):
AACATGTGAAAGTCAAATCAGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATC
ATCTTGGATCTGTTTGAG
Found at i:106138127 original size:288 final size:289
Alignment explanation
Indices: 106137605--106138307 Score: 1248
Period size: 288 Copynumber: 2.4 Consensus size: 289
106137595 CTGCTTCTTC
* *
106137605 GATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACATGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACATGTAA
* *
106137670 AAGTCAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGCTTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGAT
* * *
106137735 CTGTTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAA
131 CTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCATCAATTTGTTCCTTGTAAACACAAGAA
* * *
106137800 TGCCAAATCATCTTGGATCTTCTTCAGTATAACCATCTGAAGGTTAGATCTGCTATGTGTCTGCC
196 TGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACC
106137865 CTCCGTCAAATATGGAGACGCCAAACTTT
261 CTCCGTCAAATATGGAGACGCCAAACTTT
106137894 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACATGTAA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACATGTAA
106137959 AAGCCAAATCAGCTATGCCTTT-GATTTGTTCCTTGTAAGCACAAGGATA-CAAATCATCTTGGA
66 AAGCCAAATCAGCTATG-CTTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGA
106138022 TCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCATCAATTTGTTCCTTGTAAACACAAGA
130 TCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCATCAATTTGTTCCTTGTAAACACAAGA
106138087 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTAC
195 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTAC
*
106138152 CCTCCGTCGAATATGGAGACGCCAAACTTT
260 CCTCCGTCAAATATGGAGACGCCAAACTTT
*
106138182 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTAA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACATGTAA
* * *
106138247 AAGCCAAATCAGCTATGGTTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 AAGCCAAATCAGCTATGCTTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTT
106138308 AGGTCTTGCT
Statistics
Matches: 396, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
287 3 0.01
288 274 0.69
289 116 0.29
290 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (289 bp):
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACATGTAA
AAGCCAAATCAGCTATGCTTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGAT
CTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCATCAATTTGTTCCTTGTAAACACAAGAA
TGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACC
CTCCGTCAAATATGGAGACGCCAAACTTT
Found at i:106141670 original size:9 final size:8
Alignment explanation
Indices: 106141652--106141706 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
106141642 TGTATAGTGC
106141652 AAAAATAT
1 AAAAATAT
106141660 AAAACATAT
1 AAAA-ATAT
106141669 AAAAA-AT
1 AAAAATAT
106141676 AAAAA-AT
1 AAAAATAT
*
106141683 AAAAAAAAT
1 -AAAAATAT
*
106141692 AAAAAAAAT
1 -AAAAATAT
106141701 AAAAAT
1 AAAAAT
106141707 TTTACCTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 9 0.21
8 15 0.35
9 19 0.44
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAATAT
Found at i:106141677 original size:16 final size:16
Alignment explanation
Indices: 106141652--106141705 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
106141642 TGTATAGTGC
*
106141652 AAAAATATAAAACATAT
1 AAAAA-ATAAAAAATAT
*
106141669 AAAAAATAAAAAATAA
1 AAAAAATAAAAAATAT
*
106141685 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAATAT
106141701 AAAAA
1 AAAAA
106141706 TTTTACCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
16 28 0.85
17 5 0.15
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAAAAAATAT
Found at i:106141688 original size:25 final size:25
Alignment explanation
Indices: 106141652--106141705 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
106141642 TGTATAGTGC
* * *
106141652 AAAAATATAAAACATATAAAAAATA
1 AAAAATAAAAAAAATAAAAAAAATA
106141677 AAAAATAAAAAAAATAAAAAAAATA
1 AAAAATAAAAAAAATAAAAAAAATA
106141702 AAAA
1 AAAA
106141706 TTTTACCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (25 bp):
AAAAATAAAAAAAATAAAAAAAATA
Found at i:106142698 original size:18 final size:18
Alignment explanation
Indices: 106142664--106142698 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106142654 GTTACATACG
*
106142664 TATATATTATATGTATTT
1 TATATATTATATATATTT
*
106142682 TATATATTATGTATATT
1 TATATATTATATATATT
106142699 ATTTTTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:106147427 original size:11 final size:11
Alignment explanation
Indices: 106147411--106147440 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
106147401 CTTAGCAACA
106147411 TCTTCTTTAAT
1 TCTTCTTTAAT
106147422 TCTTCTTTAAT
1 TCTTCTTTAAT
106147433 TCTTCTTT
1 TCTTCTTT
106147441 CACTAACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTTCTTTAAT
Found at i:106153169 original size:34 final size:33
Alignment explanation
Indices: 106153119--106153229 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 33
106153109 AGGAAATAAT
* *
106153119 TAATAAAATACTTAATATCAATTTAATATGAAAA
1 TAATAATATACATAATAT-AATTTAATATGAAAA
* *
106153153 TAATAATATACATAATATATATATAATA-GATAA
1 TAATAATATACATAATATA-ATTTAATATGAAAA
* * * *
106153186 TAATAATATGAAATGATATATTGTTAAAATGTAAAA
1 TAATAATAT-ACATAATATAAT-TTAATATG-AAAA
106153222 TAATAATA
1 TAATAATA
106153230 ATATAAAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
33 15 0.24
34 35 0.56
35 1 0.02
36 11 0.18
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (33 bp):
TAATAATATACATAATATAATTTAATATGAAAA
Found at i:106153328 original size:24 final size:23
Alignment explanation
Indices: 106153290--106153348 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
106153280 TATTAATATG
106153290 ATAAAAAA-ATCAAGTAATATAA-T
1 ATAAAAAATAT-AAGTAA-ATAATT
106153313 ATAACAAAATATAAGTAAATAATT
1 ATAA-AAAATATAAGTAAATAATT
*
106153337 ATAAAATATATA
1 ATAAAAAATATA
106153349 TAATACGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 15 0.47
24 15 0.47
25 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (23 bp):
ATAAAAAATATAAGTAAATAATT
Found at i:106153644 original size:11 final size:11
Alignment explanation
Indices: 106153628--106153655 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
106153618 GGGCCAGATT
106153628 TAAAATAAAAG
1 TAAAATAAAAG
106153639 TAAAATAAAAG
1 TAAAATAAAAG
106153650 TAAAAT
1 TAAAAT
106153656 GAAATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (11 bp):
TAAAATAAAAG
Found at i:106158031 original size:39 final size:39
Alignment explanation
Indices: 106157970--106158104 Score: 139
Period size: 39 Copynumber: 3.4 Consensus size: 39
106157960 ACGAAAAAAA
*
106157970 CCAATCGA-TTTCTAACCCTAAACCCTATTAATCAATTTC
1 CCAATCGATTTTCTAA-CCTAAACCCTGTTAATCAATTTC
* * * * *
106158009 CTAATGGATTTTCTAACTTAAACCAACCTTGTTGATCAATTCC
1 CCAATCGATTTTCTAACCTAAA-C--CC-TGTTAATCAATTTC
*
106158052 CCAATCGA-TTTCTAACCTAGAACCCTGTTAATCTATTTC
1 CCAATCGATTTTCTAACCTA-AACCCTGTTAATCAATTTC
106158091 CCAATCGATTTTCT
1 CCAATCGATTTTCT
106158105 TTTCCTCCTC
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
39 30 0.39
40 15 0.19
42 13 0.17
43 19 0.25
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (39 bp):
CCAATCGATTTTCTAACCTAAACCCTGTTAATCAATTTC
Found at i:106160723 original size:34 final size:34
Alignment explanation
Indices: 106160685--106160752 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
106160675 CTGAACAATC
106160685 ATGTGTCCAATAATTTGAATTCTCAAATTTGGTG
1 ATGTGTCCAATAATTTGAATTCTCAAATTTGGTG
106160719 ATGTGTCCAATAATTTGAATTCTCAAATTTGGTG
1 ATGTGTCCAATAATTTGAATTCTCAAATTTGGTG
106160753 GCGTTTAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (34 bp):
ATGTGTCCAATAATTTGAATTCTCAAATTTGGTG
Found at i:106162437 original size:13 final size:13
Alignment explanation
Indices: 106162419--106162444 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106162409 GGACCATCAT
106162419 TTGGAACTCACCA
1 TTGGAACTCACCA
106162432 TTGGAACTCACCA
1 TTGGAACTCACCA
106162445 AGCCTAAGGG
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:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
TTGGAACTCACCA
Found at i:106163225 original size:68 final size:68
Alignment explanation
Indices: 106163113--106163654 Score: 771
Period size: 68 Copynumber: 8.0 Consensus size: 68
106163103 AACTCTCTTC
* *
106163113 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGGTCTCCTTGAAGTTTCAGTCGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106163178 TTT
66 TTT
*
106163181 TCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106163246 TTT
66 TTT
* * * * * *
106163249 TCCCTAAAATGGCGTTGGAGTGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGTCGATCTG
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
*
106163314 TTC
66 TTT
106163317 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATC-T
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106163381 TTT
66 TTT
* * * **
106163384 TCCCTAAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCAGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
*
106163449 TTC
66 TTT
* * * ** **
106163452 TCCTTGAAATGGTGTTAGAGCAACTAAAAGCCACAGCAGATCTCCTCAAAGTTTCAGTGGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
*
106163517 TTC
66 TTT
* * *
106163520 TCCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATC--
106163585 TTTTT
64 TTTTT
* * * * *
106163590 TCCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACATCAGATATCCTTGAAATTTCAGTGAATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106163655 GGCTCTCTAA
Statistics
Matches: 423, Mismatches: 48, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
67 60 0.14
68 301 0.71
70 62 0.15
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (68 bp):
TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
TTT
Found at i:106163485 original size:203 final size:204
Alignment explanation
Indices: 106163110--106163646 Score: 788
Period size: 203 Copynumber: 2.6 Consensus size: 204
106163100 TATAACTCTC
* *
106163110 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGGTCTCCTTGAAGTTTCAGTCGAT
1 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
* * **
106163175 CTTTTTTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
66 CTTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
* * *** * **
106163240 GATCTTTTTTCCCTAAAATGGCGTTGGAGTGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCA
131 GATCTTTTCTCCCTAAAATGGCGTTAGAGCAACTAAAAGCCACAACAGATCTCCTCAAAGTTTCA
106163305 GTCGATCTG
196 GTCGATCTG
106163314 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
1 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
* *
106163379 C-TTTTTCCCTAAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
66 CTTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
* * * *
106163443 GATCTTTTCTCCTTGAAATGGTGTTAGAGCAACTAAAAGCCACAGCAGATCTCCTCAAAGTTTCA
131 GATCTTTTCTCCCTAAAATGGCGTTAGAGCAACTAAAAGCCACAACAGATCTCCTCAAAGTTTCA
* *
106163508 GTGGATCTT
196 GTCGATCTG
* * *
106163517 TTCTCCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGGAT
1 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
* * * *
106163582 CTTTTTTTTCCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACATCAGATATCCTTGAAATTTCAG
66 C--TTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
106163647 TGAATCTTGG
Statistics
Matches: 299, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
203 180 0.60
204 64 0.21
206 55 0.18
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (204 bp):
TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
CTTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
GATCTTTTCTCCCTAAAATGGCGTTAGAGCAACTAAAAGCCACAACAGATCTCCTCAAAGTTTCA
GTCGATCTG
Found at i:106170897 original size:6 final size:6
Alignment explanation
Indices: 106170886--106170910 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
106170876 GCGCTATATT
106170886 GCAAAG GCAAAG GCAAAG GCAAAG G
1 GCAAAG GCAAAG GCAAAG GCAAAG G
106170911 TAAAAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.36, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:106170923 original size:3 final size:3
Alignment explanation
Indices: 106170915--106170960 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
106170905 CAAAGGTAAA
106170915 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
106170961 GAGGAACCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:106172149 original size:13 final size:13
Alignment explanation
Indices: 106172131--106172156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106172121 GGACCATCAT
106172131 TTGGAACTCACCA
1 TTGGAACTCACCA
106172144 TTGGAACTCACCA
1 TTGGAACTCACCA
106172157 AGCCTAAGGG
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:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
TTGGAACTCACCA
Found at i:106172937 original size:68 final size:68
Alignment explanation
Indices: 106172825--106173366 Score: 789
Period size: 68 Copynumber: 8.0 Consensus size: 68
106172815 AACTCTCTTC
* *
106172825 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGGTCTCCTTGAAGTTTCAGTCGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106172890 TTT
66 TTT
*
106172893 TCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106172958 TTT
66 TTT
* * * * * *
106172961 TCCCTAAAATGGCGTTGGAGTGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGTCGATCTG
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
*
106173026 TTC
66 TTT
106173029 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATC-T
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106173093 TTT
66 TTT
* * * **
106173096 TCCCTAAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCAGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
*
106173161 TTC
66 TTT
* * * ** *
106173164 TCCTTGAAATGGTGTTAGAGCAACTAAAAGCCACAGCAGATCTCCTCGAAGTTTCAGTGGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
*
106173229 TTC
66 TTT
* *
106173232 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGGATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATC--
106173297 TTTTT
64 TTTTT
* * * * *
106173302 TCCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACATCAGATATCCTTGAAATTTCAGTGAATCTT
1 TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
106173367 GGCTCTCTAA
Statistics
Matches: 421, Mismatches: 50, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
67 60 0.14
68 300 0.71
70 61 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (68 bp):
TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTT
TTT
Found at i:106173197 original size:203 final size:204
Alignment explanation
Indices: 106172822--106173358 Score: 806
Period size: 203 Copynumber: 2.6 Consensus size: 204
106172812 TATAACTCTC
* *
106172822 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGGTCTCCTTGAAGTTTCAGTCGAT
1 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
* * **
106172887 CTTTTTTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
66 CTTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
* * *** * *
106172952 GATCTTTTTTCCCTAAAATGGCGTTGGAGTGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCA
131 GATCTTTTCTCCCTAAAATGGCGTTAGAGCAACTAAAAGCCACAACAGATCTCCTCGAAGTTTCA
106173017 GTCGATCTG
196 GTCGATCTG
106173026 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
1 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
* *
106173091 C-TTTTTCCCTAAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
66 CTTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
* * * *
106173155 GATCTTTTCTCCTTGAAATGGTGTTAGAGCAACTAAAAGCCACAGCAGATCTCCTCGAAGTTTCA
131 GATCTTTTCTCCCTAAAATGGCGTTAGAGCAACTAAAAGCCACAACAGATCTCCTCGAAGTTTCA
* *
106173220 GTGGATCTT
196 GTCGATCTG
* *
106173229 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGGAT
1 TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
* * * *
106173294 CTTTTTTTTCCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACATCAGATATCCTTGAAATTTCAG
66 C--TTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
106173359 TGAATCTTGG
Statistics
Matches: 301, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
203 182 0.60
204 64 0.21
206 55 0.18
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (204 bp):
TTCTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAT
CTTTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCA
GATCTTTTCTCCCTAAAATGGCGTTAGAGCAACTAAAAGCCACAACAGATCTCCTCGAAGTTTCA
GTCGATCTG
Found at i:106184277 original size:16 final size:17
Alignment explanation
Indices: 106184247--106184280 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
106184237 ACATGAGCAC
106184247 TATAAGCTTTGGTTTTA
1 TATAAGCTTTGGTTTTA
*
106184264 TATAA-CTTTTGTTTTA
1 TATAAGCTTTGGTTTTA
106184280 T
1 T
106184281 TATTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (17 bp):
TATAAGCTTTGGTTTTA
Found at i:106189967 original size:16 final size:18
Alignment explanation
Indices: 106189936--106189968 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
106189926 ATATATAACA
106189936 AAAAATGACAATATGTAC
1 AAAAATGACAATATGTAC
106189954 AAAAA-GAC-ATATGTA
1 AAAAATGACAATATGTA
106189969 TACCAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (18 bp):
AAAAATGACAATATGTAC
Found at i:106190037 original size:12 final size:12
Alignment explanation
Indices: 106190022--106190133 Score: 58
Period size: 12 Copynumber: 9.6 Consensus size: 12
106190012 CAATAGTGAA
*
106190022 AATAATAAGTAT
1 AATAATAAATAT
106190034 AATAATAAATAT
1 AATAATAAATAT
*
106190046 AATAATATATA-
1 AATAATAAATAT
106190057 AAT-AT-AATACT
1 AATAATAAATA-T
*
106190068 ATATATATAAGTAT
1 A-ATA-ATAAATAT
* *
106190082 -ATATATACACAT
1 AATA-ATAAATAT
106190094 -ATAATAAA-AT
1 AATAATAAATAT
***
106190104 -ATAATAGGGAT
1 AATAATAAATAT
*
106190115 AAAAATAAATAT
1 AATAATAAATAT
106190127 AATAATA
1 AATAATA
106190134 TGTTTATAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
9 3 0.04
10 10 0.13
11 10 0.13
12 48 0.62
14 3 0.04
15 3 0.04
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:106190190 original size:27 final size:26
Alignment explanation
Indices: 106190138--106190199 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 26
106190128 ATAATATGTT
*
106190138 TATAATATGGTATTAAAAAATATATA
1 TATAATATAGTATTAAAAAATATATA
106190164 TATAATATAGTATTAAAAAAATATATA
1 TATAATATAGTATT-AAAAAATATATA
*
106190191 CATAATATA
1 TATAATATA
106190200 TATATTAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (26 bp):
TATAATATAGTATTAAAAAATATATA
Found at i:106190363 original size:25 final size:25
Alignment explanation
Indices: 106190324--106190379 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
106190314 TGTAAAAAAA
* * *
106190324 ATAATATAGTATTAAAGATATATAC
1 ATAATACAGTATTAAAAATACATAC
*
106190349 ATAATACAGTGTTAAAAATACATAC
1 ATAATACAGTATTAAAAATACATAC
106190374 ATAATA
1 ATAATA
106190380 TAATTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (25 bp):
ATAATACAGTATTAAAAATACATAC
Found at i:106190408 original size:26 final size:27
Alignment explanation
Indices: 106190362--106190422 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
106190352 ATACAGTGTT
* * *
106190362 AAAA-ATACATACATAATATAA-TTAA
1 AAAATATATATACATAAGATAACATAA
* *
106190387 AATATATATATACATGAGATAACATAA
1 AAAATATATATACATAAGATAACATAA
106190414 AAAATATAT
1 AAAATATAT
106190423 GAATAGTATG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 3 0.11
26 14 0.50
27 11 0.39
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAATATATATACATAAGATAACATAA
Found at i:106190470 original size:14 final size:14
Alignment explanation
Indices: 106190453--106190479 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106190443 TATATACATA
106190453 ATAATATTTAAAAT
1 ATAATATTTAAAAT
106190467 ATAATATTTAAAA
1 ATAATATTTAAAA
106190480 AAAATGTACA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATTTAAAAT
Found at i:106190664 original size:31 final size:32
Alignment explanation
Indices: 106190611--106190671 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
106190601 TAAATAACAG
*
106190611 ATATAGTAATAATAAGAATAAAATATAATAGT
1 ATATAGTAATAATAAGAATAAAATAAAATAGT
*
106190643 ATATA-TAATATTAA-AATTAAAATAAAATA
1 ATATAGTAATAATAAGAA-TAAAATAAAATA
106190672 ACGAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 19 0.73
32 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (32 bp):
ATATAGTAATAATAAGAATAAAATAAAATAGT
Found at i:106196139 original size:31 final size:29
Alignment explanation
Indices: 106196081--106196139 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
106196071 CACTTTTTAT
* *
106196081 TTTCCCCTAAAATTTTTATTCCCTCCCAC
1 TTTCCCCAAAAAATTTTATTCCCTCCCAC
*
106196110 TTTCCCCAAAAAAATTTTACTTCCTTCCCA
1 TTTCCCC-AAAAAATTTTA-TTCCCTCCCA
106196140 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.25, C:0.36, G:0.00, T:0.39
Consensus pattern (29 bp):
TTTCCCCAAAAAATTTTATTCCCTCCCAC
Found at i:106198739 original size:21 final size:20
Alignment explanation
Indices: 106198702--106198740 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
106198692 TTCTAAATAC
*
106198702 TATATATGCATATATTTTTA
1 TATATATGCATACATTTTTA
*
106198722 TATATTATGTATACATTTT
1 TATA-TATGCATACATTTT
106198741 CTAACACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATGCATACATTTTTA
Found at i:106199192 original size:21 final size:21
Alignment explanation
Indices: 106199167--106199211 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
106199157 ATTTCTTATA
106199167 TATCATTGTC-CTTATTATTAC
1 TATCATTGTCACTT-TTATTAC
*
106199188 TATCATTTTCACTTTTATTAC
1 TATCATTGTCACTTTTATTAC
106199209 TAT
1 TAT
106199212 TACTATTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.24, C:0.18, G:0.02, T:0.56
Consensus pattern (21 bp):
TATCATTGTCACTTTTATTAC
Found at i:106206586 original size:46 final size:46
Alignment explanation
Indices: 106206519--106206612 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
106206509 CAGAGTAAGC
106206519 TCTCGAGGCTTAGTAAGTTTAAGCAATTTCAAATAGTTAAAACATG
1 TCTCGAGGCTTAGTAAGTTTAAGCAATTTCAAATAGTTAAAACATG
106206565 TCTCGAGGCTTAGTAAGTTTAAGCAATTTCAAATAGTTAAAACATG
1 TCTCGAGGCTTAGTAAGTTTAAGCAATTTCAAATAGTTAAAACATG
106206611 TC
1 TC
106206613 ACAAAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (46 bp):
TCTCGAGGCTTAGTAAGTTTAAGCAATTTCAAATAGTTAAAACATG
Found at i:106207044 original size:38 final size:38
Alignment explanation
Indices: 106206970--106207135 Score: 296
Period size: 38 Copynumber: 4.3 Consensus size: 38
106206960 TACAATTACT
*
106206970 AGCATAAAGCCTGCGGGACTTTAAACCCGGATATAATACC
1 AGCATTAAGCCTGCGGGAC-TT-AACCCGGATATAATACC
106207010 AGCATTAAGCCTGCGGGACTTAACCCGGATATAATACC
1 AGCATTAAGCCTGCGGGACTTAACCCGGATATAATACC
*
106207048 AGCATTAAGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCATTAAGCCTGCGGGACTTAACCCGGATATAATACC
106207086 AGCATTAAGCCTGCGGGACTTAACCCGGATATAATACC
1 AGCATTAAGCCTGCGGGACTTAACCCGGATATAATACC
106207124 AGCATTAAGCCT
1 AGCATTAAGCCT
106207136 ATTTAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
38 103 0.84
39 2 0.02
40 18 0.15
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (38 bp):
AGCATTAAGCCTGCGGGACTTAACCCGGATATAATACC
Found at i:106214264 original size:21 final size:21
Alignment explanation
Indices: 106214238--106214278 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106214228 AGACGAGCAA
* *
106214238 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
106214259 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
106214279 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:106216215 original size:16 final size:16
Alignment explanation
Indices: 106216182--106216215 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
106216172 GGAGATTGTT
* *
106216182 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
106216198 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
106216214 AA
1 AA
106216216 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:106219060 original size:18 final size:18
Alignment explanation
Indices: 106219033--106219070 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
106219023 TTTTTAAAAC
*
106219033 TAATATTCCTTAATAATT
1 TAATAGTCCTTAATAATT
106219051 TAATAGTCCTTAATAATT
1 TAATAGTCCTTAATAATT
106219069 TA
1 TA
106219071 GTTCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATAGTCCTTAATAATT
Found at i:106223550 original size:21 final size:21
Alignment explanation
Indices: 106223525--106223579 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 21
106223515 ATTAATGTAT
106223525 CCTATAATACATTTGTCAATC
1 CCTATAATACATTTGTCAATC
106223546 CCTATATTAATACATTTGTCAATC
1 CC--TA-TAATACATTTGTCAATC
*
106223570 CTTATAATAC
1 CCTATAATAC
106223580 TCTTTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 2 0.07
24 18 0.60
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (21 bp):
CCTATAATACATTTGTCAATC
Found at i:106223558 original size:24 final size:24
Alignment explanation
Indices: 106223529--106223575 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
106223519 ATGTATCCTA
106223529 TAATACATTTGTCAATCCCTATAT
1 TAATACATTTGTCAATCCCTATAT
*
106223553 TAATACATTTGTCAATCCTTATA
1 TAATACATTTGTCAATCCCTATA
106223576 ATACTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (24 bp):
TAATACATTTGTCAATCCCTATAT
Found at i:106227761 original size:25 final size:26
Alignment explanation
Indices: 106227732--106227785 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
106227722 TGTATCACAA
106227732 TATTTTTATAAAT-ATTTT-AATTATT
1 TATTTTTAT-AATCATTTTAAATTATT
106227757 TA-TTTTATAATCATTTTAAATTATT
1 TATTTTTATAATCATTTTAAATTATT
106227782 TATT
1 TATT
106227786 ATATTAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.12
24 11 0.42
25 11 0.42
26 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTTTTATAATCATTTTAAATTATT
Found at i:106227762 original size:24 final size:26
Alignment explanation
Indices: 106227735--106227794 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
106227725 ATCACAATAT
106227735 TTTTATAAAT-ATTTT-AATTATTTA
1 TTTTATAAATCATTTTAAATTATTTA
106227759 TTTTAT-AATCATTTTAAATTATTTA
1 TTTTATAAATCATTTTAAATTATTTA
*
106227784 TTATATTAAAT
1 TTTTA-TAAAT
106227795 GATAAATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 11 0.35
25 13 0.42
26 1 0.03
27 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTATAAATCATTTTAAATTATTTA
Found at i:106230228 original size:53 final size:54
Alignment explanation
Indices: 106230168--106230275 Score: 209
Period size: 53 Copynumber: 2.0 Consensus size: 54
106230158 TTTACACTAG
106230168 TAATTTTTTGAATAGATTGGTTAATAAAAAA-TTCATTGATTATATTAATATAC
1 TAATTTTTTGAATAGATTGGTTAATAAAAAATTTCATTGATTATATTAATATAC
106230221 TAATTTTTTGAATAGATTGGTTAATAAAAAATTTCATTGATTATATTAATATAC
1 TAATTTTTTGAATAGATTGGTTAATAAAAAATTTCATTGATTATATTAATATAC
106230275 T
1 T
106230276 TTGTATTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 31 0.57
54 23 0.43
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (54 bp):
TAATTTTTTGAATAGATTGGTTAATAAAAAATTTCATTGATTATATTAATATAC
Found at i:106230260 original size:29 final size:29
Alignment explanation
Indices: 106230175--106230260 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 29
106230165 TAGTAATTTT
106230175 TTGAATAGATTGGTTAATAAAAAA-TTCA
1 TTGAATAGATTGGTTAATAAAAAATTTCA
* * ** *
106230203 TTG-AT-TA-T-ATTAATATACTAATTT-T
1 TTGAATAGATTGGTTAATA-AAAAATTTCA
106230228 TTGAATAGATTGGTTAATAAAAAATTTCA
1 TTGAATAGATTGGTTAATAAAAAATTTCA
106230257 TTGA
1 TTGA
106230261 TTATATTAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 13
0.64 0.16 0.20
Matches are distributed among these distances:
24 6 0.15
25 7 0.17
26 5 0.12
27 3 0.07
28 10 0.24
29 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (29 bp):
TTGAATAGATTGGTTAATAAAAAATTTCA
Found at i:106230270 original size:25 final size:25
Alignment explanation
Indices: 106230188--106230271 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
106230178 AATAGATTGG
106230188 TTAATAAAAAA-TTCATTGATTATA
1 TTAATAAAAAATTTCATTGATTATA
** * * *
106230212 TTAATATACTAATTT-TTTGAATAGATTGG
1 TTAATA-AAAAATTTCATTG-AT-TA-T-A
106230241 TTAATAAAAAATTTCATTGATTATA
1 TTAATAAAAAATTTCATTGATTATA
106230266 TTAATA
1 TTAATA
106230272 TACTTTGTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 13
0.65 0.15 0.20
Matches are distributed among these distances:
24 6 0.14
25 12 0.28
26 5 0.12
27 2 0.05
28 9 0.21
29 9 0.21
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (25 bp):
TTAATAAAAAATTTCATTGATTATA
Found at i:106231367 original size:51 final size:52
Alignment explanation
Indices: 106231292--106231399 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 52
106231282 GAAATGATGG
* **
106231292 AAATAGAGAAATGAGAAACATTTGGAAATGGTTATGGTTTTCTCCAAAATGA
1 AAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
* * * *
106231344 AAATGGAGAAAT-TGAATCATTTGGAAATGAATGTGGTTTTCTTCAAAATGA
1 AAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
*
106231395 GAATG
1 AAATG
106231400 ACCTAGAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 37 0.77
52 11 0.23
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (52 bp):
AAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGA
Found at i:106233566 original size:30 final size:30
Alignment explanation
Indices: 106233530--106233590 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
106233520 ACAAACTTGA
*
106233530 ATCAAACATAGAACAAAAAATATTTTCTTT
1 ATCAAACACAGAACAAAAAATATTTTCTTT
106233560 ATCAAACACAGAACAAAAAATATTTTCTTT
1 ATCAAACACAGAACAAAAAATATTTTCTTT
106233590 A
1 A
106233591 CTTTAAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (30 bp):
ATCAAACACAGAACAAAAAATATTTTCTTT
Found at i:106233672 original size:19 final size:19
Alignment explanation
Indices: 106233643--106233680 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
106233633 TAAAATTTTA
106233643 ATTCATAGAAAATATAATTT
1 ATTCATAGAAAATA-AATTT
106233663 ATTC-TAGAAAATAAATTT
1 ATTCATAGAAAATAAATTT
106233681 CCACAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTCATAGAAAATAAATTT
Found at i:106241920 original size:26 final size:27
Alignment explanation
Indices: 106241876--106242079 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
106241866 GGATCAAAAT
* *
106241876 AAATGACCGTAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
106241903 AAATAACCAAAATA-CCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
106241929 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
106241956 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
106241983 AAATGATCGAAATACCCCCATA-GGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
106242009 AAATGTCTGAAATAACCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * * *
106242036 AAATGATTGAAATACCCCTAGAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
106242063 AAATGACTGTAATACCC
1 AAATGACCGAAATACCC
106242080 TGTATGGTAA
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 44 0.29
27 110 0.71
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:106241956 original size:53 final size:52
Alignment explanation
Indices: 106241876--106242094 Score: 240
Period size: 53 Copynumber: 4.1 Consensus size: 52
106241866 GGATCAAAAT
* * *
106241876 AAATGACCGTAATACCCCCATAAGGTAAAATAACCAAAATACCCCATAGGGTA
1 AAATGACCGAAATACCCCCAT-AGGTAAAATGACCGAAATACCCCATAGGGTA
*
106241929 AAATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATA-GGTAAAATGACCGAAATACCC-CATAGGGTA
* * * *
106241983 AAATGATCGAAATACCCCCATAGGTAAAATGTCTGAAATAACCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGTAAAATGACCGAAAT-ACCCCATAGGGTA
** * * * * ** *
106242036 AAATGATTGAAATACCCCTAGAAGGTAAAATGACTGTAATACCCTGTATGGTA
1 AAATGACCGAAATACCCCCA-TAGGTAAAATGACCGAAATACCCCATAGGGTA
106242089 AAATGA
1 AAATGA
106242095 ATGTTTTGCC
Statistics
Matches: 146, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.01
53 95 0.65
54 50 0.34
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (52 bp):
AAATGACCGAAATACCCCCATAGGTAAAATGACCGAAATACCCCATAGGGTA
Found at i:106242093 original size:80 final size:80
Alignment explanation
Indices: 106241876--106242068 Score: 230
Period size: 80 Copynumber: 2.4 Consensus size: 80
106241866 GGATCAAAAT
* * * * * * *
106241876 AAATGACCGTAATACCCCCATAAGGTAAAATAACCAAAATA-CCCCATAGGGTAAAATGACCGAA
1 AAATGATCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATA-GGTAAAATGACCGAA
*
106241940 ATACCCCCATAGGGTA
65 ATAACCCCATAGGGTA
* *
106241956 AAATGATCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGTAAAATGTCTGAAA
1 AAATGATCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGTAAAATGACCGAAA
*
106242021 TAACCCTATAGGGTA
66 TAACCCCATAGGGTA
*
106242036 AAATGATTGAAATACCC-C-TAGAAGGTAAAATGA
1 AAATGATCGAAATACCCTCATAG--GGTAAAATGA
106242069 CTGTAATACC
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
78 3 0.03
79 1 0.01
80 87 0.89
81 7 0.07
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (80 bp):
AAATGATCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGTAAAATGACCGAAA
TAACCCCATAGGGTA
Found at i:106242147 original size:54 final size:54
Alignment explanation
Indices: 106242084--106242193 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 54
106242074 ATACCCTGTA
*** * * *
106242084 TGGTAAAATGAATGTTTTGCCCTTATGA-GGTGAAATGACTGTTTTGCCCTTATG
1 TGGTAAAATGAATGAAATGCCCTTA-CATGGTGAAATGACTATTTTGCCCCTATG
* *
106242138 TGGTAAAATGATTGAAATGCCCTTACATGGTGAATTGACTATTTTGCCCCTATG
1 TGGTAAAATGAATGAAATGCCCTTACATGGTGAAATGACTATTTTGCCCCTATG
106242192 TG
1 TG
106242194 AGATAATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.02
54 46 0.98
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (54 bp):
TGGTAAAATGAATGAAATGCCCTTACATGGTGAAATGACTATTTTGCCCCTATG
Found at i:106242168 original size:27 final size:27
Alignment explanation
Indices: 106241912--106242168 Score: 139
Period size: 27 Copynumber: 9.6 Consensus size: 27
106241902 AAAATAACCA
* * **
106241912 AAATACCC-CATAGGGTAAAATGACCG
1 AAATACCCTTATATGGTAAAATGATTG
** * *
106241938 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCTTATATGGTAAAATGATTG
* * *
106241965 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCTTATATGGTAAAATGATTG
**
106241992 AAATACCCCCATA-GGTAAAATG-TCTG
1 AAATACCCTTATATGGTAAAATGAT-TG
*
106242018 AAATAACCC-TATAGGGTAAAATGATTG
1 AAAT-ACCCTTATATGGTAAAATGATTG
* * * *
106242045 AAATACCCCTAGAAGGTAAAATGACTG
1 AAATACCCTTATATGGTAAAATGATTG
* * *
106242072 TAATACCC-TGTATGGTAAAATGAATG
1 AAATACCCTTATATGGTAAAATGATTG
*** * * *
106242098 TTTTGCCCTTATGA-GGTGAAATGACTG
1 AAATACCCTTAT-ATGGTAAAATGATTG
*** * *
106242125 TTTTGCCCTTATGTGGTAAAATGATTG
1 AAATACCCTTATATGGTAAAATGATTG
* *
106242152 AAATGCCCTTACATGGT
1 AAATACCCTTATATGGT
106242169 GAATTGACTA
Statistics
Matches: 195, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 48 0.25
27 144 0.74
28 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATACCCTTATATGGTAAAATGATTG
Found at i:106242561 original size:18 final size:18
Alignment explanation
Indices: 106242538--106242574 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
106242528 GGACTTGCAT
106242538 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
106242556 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
106242574 A
1 A
106242575 AAGGGCCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:106243873 original size:19 final size:19
Alignment explanation
Indices: 106243838--106243875 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
106243828 TAACATATAT
106243838 AAAAAAAATATAGAATAAA
1 AAAAAAAATATAGAATAAA
*
106243857 AAAAATAAAT-TATAATAAA
1 AAAAA-AAATATAGAATAAA
106243876 TGTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAAAAATATAGAATAAA
Found at i:106244044 original size:21 final size:21
Alignment explanation
Indices: 106243996--106244046 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
106243986 ATATAATAAT
106243996 ATAAAAA-AA-TTGATGTAAA
1 ATAAAAATAATTTGATGTAAA
*
106244015 ATAATAATAATTTGATG-AAA
1 ATAAAAATAATTTGATGTAAA
106244035 ATAACAAATAAT
1 ATAA-AAATAAT
106244047 AATAATACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 6 0.22
20 9 0.33
21 12 0.44
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (21 bp):
ATAAAAATAATTTGATGTAAA
Found at i:106246060 original size:83 final size:84
Alignment explanation
Indices: 106245898--106246109 Score: 302
Period size: 83 Copynumber: 2.5 Consensus size: 84
106245888 TATGTTTTTT
* * *
106245898 ATTTGTTCCTTGTAAGCACAAGGATGTCAAATCATCTTAGATCTATTTTGAGAACTTTTGAGAGT
1 ATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTAGATCTAGTTTGAGAACATTTGAGAGT
106245963 CATATCTGCCATGTCCTCA
66 CATATCTGCCATGTCCTCA
* *
106245982 ATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTT-GAGTCT-GTTTGAGAACATTTGAGAG
1 ATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTAGA-TCTAGTTTGAGAACATTTGAGAG
* * *
106246045 TCTTATCTGCTATGTCCTCG
65 TCATATCTGCCATGTCCTCA
* * *
106246065 ATTTGTTCCTTGTAAACACAAGAATGGCAAATCATCTTAGATCTA
1 ATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTAGATCTA
106246110 CTTCAGTATA
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
83 72 0.64
84 40 0.36
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (84 bp):
ATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTAGATCTAGTTTGAGAACATTTGAGAGT
CATATCTGCCATGTCCTCA
Found at i:106246240 original size:119 final size:119
Alignment explanation
Indices: 106246029--106246502 Score: 743
Period size: 119 Copynumber: 4.0 Consensus size: 119
106246019 TGAGTCTGTT
* ** * * **
106246029 TGAGAACATTTGAGAGTCTTATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGGCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * *
106246094 AATCATCTTAGATCTACTTCAGTATAAATATCTGAAGGT-TAGATCTGCTATATC
66 AATCATCTTGGATCTACTTCAGCATAAACATCTGAA-GTCTAGATCTACTATATC
*
106246148 TGAGAACATATGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * *
106246213 AATCATCTTGGATTTGCTTCAGCATAAACGTCTGAAGTCTAGATCTACTATATC
66 AATCATCTTGGATCTACTTCAGCATAAACATCTGAAGTCTAGATCTACTATATC
*
106246267 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* *
106246332 AATCATCTTGGATCTACTTCAGCATAAACGTCTGAAGTCTAGATCTGCTATATC
66 AATCATCTTGGATCTACTTCAGCATAAACATCTGAAGTCTAGATCTACTATATC
* *
106246386 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGCTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
106246451 AATCATCTTGGATCTGCTTCAGCATAAACATCTGAAGTCTAGATCTACTATA
66 AATCATCTTGGATCTACTTCAGCATAAACATCTGAAGTCTAGATCTACTATA
106246503 CTGCGGCCTA
Statistics
Matches: 329, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
118 2 0.01
119 327 0.99
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (119 bp):
TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTACTTCAGCATAAACATCTGAAGTCTAGATCTACTATATC
Found at i:106258051 original size:25 final size:25
Alignment explanation
Indices: 106258022--106258069 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106258012 TTACTTTATG
* * *
106258022 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
106258047 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
106258070 GTTTAATTAT
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:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:106258150 original size:20 final size:20
Alignment explanation
Indices: 106258106--106258192 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
106258096 ATTCTGATAT
*
106258106 ACATGAT-TGATATGATATAC
1 ACATGATATG-TATGATATGC
*
106258126 TCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106258146 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106258166 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
106258186 ACATGAT
1 ACATGAT
106258193 GTATTCATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:106258151 original size:11 final size:11
Alignment explanation
Indices: 106258137--106258192 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
106258127 CATGATATGT
106258137 ATGATATGCAC
1 ATGATATGCAC
* *
106258148 ATGACATG--T
1 ATGATATGCAC
106258157 ATGATATGCAC
1 ATGATATGCAC
*
106258168 ATGATATGTAC
1 ATGATATGCAC
106258179 --GATATGCAC
1 ATGATATGCAC
106258188 ATGAT
1 ATGAT
106258193 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:106258300 original size:25 final size:26
Alignment explanation
Indices: 106258242--106258300 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
106258232 GAGGAAGTGA
106258242 AAAAG-GGC-TTTGCCCCAGTTTACC
1 AAAAGAGGCTTTTGCCCCAGTTTACC
*
106258266 AAAA-AGGGCTTTTGCCCCAG-TTACT
1 AAAAGA-GGCTTTTGCCCCAGTTTACC
106258291 AAAAGAGGCT
1 AAAAGAGGCT
106258301 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.13
25 15 0.50
26 11 0.37
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (26 bp):
AAAAGAGGCTTTTGCCCCAGTTTACC
Found at i:106258614 original size:29 final size:31
Alignment explanation
Indices: 106258509--106258622 Score: 153
Period size: 31 Copynumber: 3.8 Consensus size: 31
106258499 ATTTACAGTT
*
106258509 AAAAGGCTTCGGCCCAGTGATATGAGTAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
*
106258540 AAAAGGCTTCGGCCCAGTGGTATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
* *
106258571 GAAAGGCTTCGGCCCAGT-ATATGAATGAT-
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
* *
106258600 TAAAGGCTTCAGCCCAGT-ATATG
1 AAAAGGCTTCGGCCCAGTGATATG
106258623 TGGTAACTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
29 21 0.28
30 9 0.12
31 46 0.61
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGAATAATG
Found at i:106266009 original size:25 final size:25
Alignment explanation
Indices: 106265980--106266027 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106265970 TTACTTTATG
* * *
106265980 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
106266005 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
106266028 GTTTAATTAT
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:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:106266091 original size:11 final size:10
Alignment explanation
Indices: 106266074--106266143 Score: 56
Period size: 11 Copynumber: 7.0 Consensus size: 10
106266064 ACATGATTGA
106266074 TATGATATGC
1 TATGATATGC
106266084 TGATGATATG-
1 T-ATGATATGC
106266094 TATGATATGC
1 TATGATATGC
* *
106266104 ACATGACATG-
1 -TATGATATGC
106266114 TATGATATGC
1 TATGATATGC
*
106266124 ACATGATATG-
1 -TATGATATGC
*
106266134 TACGATATGC
1 TATGATATGC
106266144 ACATGATGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
9 22 0.47
10 2 0.04
11 23 0.49
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (10 bp):
TATGATATGC
Found at i:106266097 original size:20 final size:20
Alignment explanation
Indices: 106266064--106266150 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
106266054 ATTCTGATAT
106266064 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
**
106266084 TGATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106266104 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106266124 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
106266144 ACATGAT
1 ACATGAT
106266151 GTATTCATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:106266571 original size:29 final size:31
Alignment explanation
Indices: 106266466--106266579 Score: 162
Period size: 31 Copynumber: 3.8 Consensus size: 31
106266456 GTTTACAGTT
*
106266466 AAAAGGCTTCGGCCCAGTGATATGAGTAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
*
106266497 AAAAGGCTTCGGCCCAGTGGTATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
* *
106266528 GAAAGGCTTCGGCCCAGT-ATATGAATGAT-
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
*
106266557 TAAAGGCTTCGGCCCAGT-ATATG
1 AAAAGGCTTCGGCCCAGTGATATG
106266580 TGGTAACTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
29 22 0.29
30 9 0.12
31 46 0.60
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGAATAATG
Found at i:106270664 original size:29 final size:29
Alignment explanation
Indices: 106270631--106270738 Score: 126
Period size: 29 Copynumber: 3.7 Consensus size: 29
106270621 AGGATTTTGT
* *
106270631 GAGCCTACGTACGAACCTTAAGTACATGC
1 GAGCCTACGTACGAACCCTAGGTACATGC
* * *
106270660 GAGCCTATGTACGAACCCTAGGAACTTGC
1 GAGCCTACGTACGAACCCTAGGTACATGC
* *
106270689 GAGCCTACATGCGAACCCTAGGTACATGC
1 GAGCCTACGTACGAACCCTAGGTACATGC
* **
106270718 GAGCCTATGTGTGAACCCTAG
1 GAGCCTACGTACGAACCCTAG
106270739 AAAAATGGGA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (29 bp):
GAGCCTACGTACGAACCCTAGGTACATGC
Found at i:106270751 original size:58 final size:58
Alignment explanation
Indices: 106270631--106270758 Score: 157
Period size: 58 Copynumber: 2.2 Consensus size: 58
106270621 AGGATTTTGT
* * * * **
106270631 GAGCCTACGTACGAACCTTAAGTACATGCGAGCCTATGTACGAACCCTAGGAACTTGC
1 GAGCCTACATGCGAACCCTAAGTACATGCGAGCCTATGTACGAACCCTAGAAAAATGC
* ** *
106270689 GAGCCTACATGCGAACCCTAGGTACATGCGAGCCTATGTGTGAACCCTAGAAAAATGG
1 GAGCCTACATGCGAACCCTAAGTACATGCGAGCCTATGTACGAACCCTAGAAAAATGC
*
106270747 GAGCCTATATGC
1 GAGCCTACATGC
106270759 CATGCGAACC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (58 bp):
GAGCCTACATGCGAACCCTAAGTACATGCGAGCCTATGTACGAACCCTAGAAAAATGC
Found at i:106273875 original size:17 final size:17
Alignment explanation
Indices: 106273853--106273952 Score: 86
Period size: 17 Copynumber: 6.1 Consensus size: 17
106273843 TTTTTTATAA
106273853 ATTTTATTATATGTTAT
1 ATTTTATTATATGTTAT
106273870 ATTTTATTATATG-T-T
1 ATTTTATTATATGTTAT
**
106273885 A-TTTATTCCAT-TTAT
1 ATTTTATTATATGTTAT
*
106273900 ATTTTATTATATTTTAT
1 ATTTTATTATATGTTAT
* * *
106273917 ATTATA-TAAAT-TAATT
1 ATTTTATTATATGTTA-T
106273933 ATTTTATTATATGTTTAT
1 ATTTTATTATATG-TTAT
106273951 AT
1 AT
106273953 GTAAATTTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
14 9 0.14
15 6 0.09
16 19 0.29
17 26 0.40
18 3 0.05
19 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTATTATATGTTAT
Done.