Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 97 of 153
Found at i:30727051 original size:16 final size:16
Alignment explanation
Indices: 30727014--30727055 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30727004 TTAATCATAT
*
30727014 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
30727030 TT-AAATATATTATAA
1 TTAAAATATATTATAA
30727045 TTAAAATATAT
1 TTAAAATATAT
30727056 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:30727062 original size:14 final size:15
Alignment explanation
Indices: 30727023--30727064 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30727013 TTTAAACATA
*
30727023 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30727038 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30727052 A-TATAATTTAATA
1 ATTATAATTAAATA
30727065 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30727164 original size:157 final size:154
Alignment explanation
Indices: 30726835--30727165 Score: 337
Period size: 157 Copynumber: 2.1 Consensus size: 154
30726825 ATTATTATCA
*
30726835 ATAATAAATATTTTAATCATATTTAAAAATAATTATTATTAAATATATTTTAATTAAAATATATA
1 ATAATAAATATTTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAATATATA
* * * * ** * * * * * *
30726900 ATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATT
66 ATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATTAATATTGATACTATAAAT
* * * *
30726965 TAAATTTTAATAAGATTATTAATAT
131 GAAAATTT-AGAAGATAATTAATAT
* *
30726990 CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATA
1 --ATAATAAATATTTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAATATA
* **
30727055 TAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGAT
64 TAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-AAAT--TAATAT-TGAT
30727120 ACTATAAATGAAAATTT-GAA-ATAATTAATAT
122 ACTATAAATGAAAATTTAGAAGATAATTAATAT
*
30727151 -TAA-ATATATTTTAAT
1 ATAATAAATATTTTAAT
30727166 TAAAATATAT
Statistics
Matches: 143, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
157 97 0.68
158 3 0.02
159 4 0.03
160 4 0.03
161 14 0.10
162 2 0.01
163 5 0.03
164 14 0.10
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (154 bp):
ATAATAAATATTTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAATATATA
ATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATTAATATTGATACTATAAAT
GAAAATTTAGAAGATAATTAATAT
Found at i:30727276 original size:24 final size:25
Alignment explanation
Indices: 30727230--30727277 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30727220 TATGAATTTG
30727230 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
30727256 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
30727278 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:30727281 original size:92 final size:92
Alignment explanation
Indices: 30727185--30727413 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
30727175 TGATTTAATA
* * *
30727185 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
30727247 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
30727277 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
30727342 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
30727367 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
30727414 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:30730618 original size:37 final size:37
Alignment explanation
Indices: 30730563--30730644 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
30730553 GTATAAATAT
* *
30730563 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
30730600 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
30730637 ATTGATTA
1 ATTGATTA
30730645 ATAAATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:30733834 original size:5 final size:5
Alignment explanation
Indices: 30733794--30733819 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30733784 GCAAATCGGC
30733794 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
30733820 TCGGATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:30734441 original size:17 final size:16
Alignment explanation
Indices: 30734398--30734448 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
30734388 TCAAATTTAA
* *
30734398 TTTAATTTAATTTCAT
1 TTTAATTTCACTTCAT
*
30734414 TTTCATTTCACTTCAT
1 TTTAATTTCACTTCAT
30734430 TTTAATTTTCACTTCAT
1 TTTAA-TTTCACTTCAT
30734447 TT
1 TT
30734449 AAAATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTTCACTTCAT
Found at i:30734476 original size:20 final size:19
Alignment explanation
Indices: 30734453--30734547 Score: 67
Period size: 17 Copynumber: 4.9 Consensus size: 19
30734443 TCATTTAAAA
30734453 TTTTTTC-CATTTAAATTTAT
1 TTTTTTCTCATTT-AATTT-T
30734473 TTTTTTCTCATTTAA--TT
1 TTTTTTCTCATTTAATTTT
30734490 TTTTTT-TCATATTAA--TT
1 TTTTTTCTCAT-TTAATTTT
*
30734507 TTTTGTCTCATTTCAATTTAT
1 TTTTTTCTCATTT-AATTT-T
*
30734528 TTATTTTTTCATTTCAATTT
1 TT-TTTTCTCATTT-AATTT
30734548 ATATTTTATT
Statistics
Matches: 64, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
16 4 0.06
17 20 0.31
18 7 0.11
20 10 0.16
21 8 0.12
22 15 0.23
ACGTcount: A:0.21, C:0.11, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTTTCTCATTTAATTTT
Found at i:30734492 original size:16 final size:16
Alignment explanation
Indices: 30734467--30734525 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
30734457 TTCCATTTAA
30734467 ATTT-ATTTTTTTCTC
1 ATTTAATTTTTTTCTC
*
30734482 ATTTAATTTTTTTTTC
1 ATTTAATTTTTTTCTC
30734498 ATATTAATTTTTTGTCTC
1 AT-TTAATTTTTT-TCTC
30734516 ATTTCAATTT
1 ATTT-AATTT
30734526 ATTTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
15 4 0.11
16 12 0.32
17 12 0.32
18 10 0.26
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTAATTTTTTTCTC
Found at i:30734492 original size:17 final size:17
Alignment explanation
Indices: 30734472--30734525 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
30734462 TTTAAATTTA
30734472 TTTTTTTCTCATTTAAT
1 TTTTTTTCTCATTTAAT
30734489 TTTTTTT-TCATATTAAT
1 TTTTTTTCTCAT-TTAAT
*
30734506 TTTTTGTCTCATTTCAAT
1 TTTTTTTCTCATTT-AAT
30734524 TT
1 TT
30734526 ATTTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 4 0.12
17 20 0.61
18 9 0.27
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTTTTCTCATTTAAT
Found at i:30734520 original size:23 final size:22
Alignment explanation
Indices: 30734494--30734560 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 22
30734484 TTAATTTTTT
30734494 TTTCATATTAATTT-TTTGTCTCA
1 TTTCA-ATTAATTTATTT-TCTCA
* *
30734517 TTTCAATTTATTTATTTTTTCA
1 TTTCAATTAATTTATTTTCTCA
30734539 TTTCAATTTATATTTTATTTTC
1 TTTCAA-TTA-A-TTTATTTTC
30734561 ATTCCAACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 17 0.47
23 10 0.28
24 1 0.03
25 8 0.22
ACGTcount: A:0.22, C:0.10, G:0.01, T:0.66
Consensus pattern (22 bp):
TTTCAATTAATTTATTTTCTCA
Found at i:30734561 original size:40 final size:39
Alignment explanation
Indices: 30734452--30734561 Score: 97
Period size: 40 Copynumber: 2.8 Consensus size: 39
30734442 TTCATTTAAA
*
30734452 ATTTTTTCCATTTAAATTTATTTTT-TTCTC-ATTTAATTT
1 ATTTTTT-CATTT-AATTTATTTTTATTTTCAATTTAATTT
30734491 -TTTTTTCATATTAATTT-TTTGTCTCA-TTTCAATTT-ATTT
1 ATTTTTTCAT-TTAATTTATTT-T-T-ATTTTCAATTTAATTT
30734530 ATTTTTTCATTTCAATTTATATTTTATTTTCA
1 ATTTTTTCATTT-AATTTAT-TTTTATTTTCA
30734562 TTCCAACTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 21
0.73 0.01 0.26
Matches are distributed among these distances:
36 3 0.05
37 9 0.15
38 9 0.15
39 10 0.17
40 24 0.41
41 2 0.03
42 2 0.03
ACGTcount: A:0.23, C:0.10, G:0.01, T:0.66
Consensus pattern (39 bp):
ATTTTTTCATTTAATTTATTTTTATTTTCAATTTAATTT
Found at i:30734563 original size:23 final size:22
Alignment explanation
Indices: 30734504--30734576 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 22
30734494 TTTCATATTA
30734504 ATTTTTTGTCTCATTTCAATTTAT
1 ATTTTTT-T-TCATTTCAATTTAT
30734528 -TTATTTTTTCATTTCAATTTAT
1 ATT-TTTTTTCATTTCAATTTAT
*
30734550 ATTTTATTTTCATTCCAACTTT-T
1 ATTTT-TTTTCATTTCAA-TTTAT
30734573 ATTT
1 ATTT
30734577 CATAGATCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 16 0.36
23 21 0.48
24 7 0.16
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.64
Consensus pattern (22 bp):
ATTTTTTTTCATTTCAATTTAT
Found at i:30736851 original size:89 final size:87
Alignment explanation
Indices: 30736755--30737108 Score: 321
Period size: 89 Copynumber: 4.0 Consensus size: 87
30736745 TATTTGATAA
* ** *
30736755 AAAATATATAATTCGAAA-AATTAATAATACGCAAC-AAATTAAATTTATAGATACAAGAAAATA
1 AAAATATAAAATTC-AAACAACAAATAATACG-AACTAAATTAAATTTACAGATACAA-AAAATA
30736818 CAAACATTCTAGAATAATAATACACG
63 CAAACATTCTA-AATAATAATACACG
* **
30736844 AAAATATAAAATTCAAACAACAAACAATAC-AGACTAAATTAAATTTACAGACCCAACAAAATAC
1 AAAATATAAAATTCAAACAACAAATAATACGA-ACTAAATTAAATTTACAGATACAA-AAAATAC
*
30736908 AAACAGATGGGTC-AAAT--TAATACACA
64 AAAC--AT---TCTAAATAATAATACACG
* * * *
30736934 AAAATTTAAAATTCAAATTAA-AAATAATACGGACTAAATTAAATTTACATATACAAAAAATACA
1 AAAATATAAAATTCAAA-CAACAAATAATACGAACTAAATTAAATTTACAGATACAAAAAATACA
* *
30736998 AACATTTTAAGA-AATTATTACACG
65 AACATTCTAA-ATAA-TAATACACG
* * * *
30737022 AAAATATAAAATTGAAACCACAAATAATACTG-ACTAAATTAAATTTACAAATATAAAAAAATAC
1 AAAATATAAAATTCAAACAACAAATAATAC-GAACTAAATTAAATTTACAGATA-CAAAAAATAC
*
30737086 AAACATTCTAAAGAAATAATACA
64 AAACATTCTAAA-TAATAATACA
30737109 AAAATTTTGA
Statistics
Matches: 218, Mismatches: 27, Indels: 40
0.76 0.09 0.14
Matches are distributed among these distances:
84 1 0.00
85 2 0.01
86 1 0.00
87 4 0.02
88 57 0.26
89 88 0.40
90 55 0.25
91 4 0.02
92 3 0.01
93 1 0.00
94 2 0.01
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (87 bp):
AAAATATAAAATTCAAACAACAAATAATACGAACTAAATTAAATTTACAGATACAAAAAATACAA
ACATTCTAAATAATAATACACG
Found at i:30753711 original size:44 final size:44
Alignment explanation
Indices: 30753561--30754021 Score: 213
Period size: 44 Copynumber: 10.5 Consensus size: 44
30753551 AACAAATCAG
*
30753561 TAAAGATAGCAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGAT
1 TAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
30753605 CAAAGAT-GACAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGAT
1 TAAAGATAG-CAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGAT
* * * * * *
30753649 TTAAGCCACTA--AG-CCTTATCTCCCTGAGCAGCAGTGGAGTAGGT
1 TAAAG--A-TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
*
30753693 TGAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* ** * * * *
30753737 CAAAGACGGCAAATCTTAACTTTCC-AAG-A-TAGTGGGAAACAGAT
1 TAAAGATAGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGAT
* * * * * * *
30753781 TTAAGCCACTA--AG-TATTGTCTCCCTGAGCAGCAGTGGAGTAGGT
1 TAAAG--A-TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
*
30753825 TGAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* ** * * * *
30753869 CAAAGACGGCAAATCTTAACTTTCC-AAG-A-TAGTGGGAAACAGAT
1 TAAAGATAGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGAT
* * * * * * *
30753913 TTAAGCCACTA--AG-TATTGTCTCCCTGAGCAGCAGTGGAGTAGGT
1 TAAAG--A-TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
30753957 TGAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGAT
1 TAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
30754001 CAAAGACAGCAAATCTTATCT
1 TAAAGATAGCAGATCTTATCT
30754022 TTCCAAGATA
Statistics
Matches: 299, Mismatches: 80, Indels: 76
0.66 0.18 0.17
Matches are distributed among these distances:
41 6 0.02
42 15 0.05
43 25 0.08
44 219 0.73
45 21 0.07
46 12 0.04
47 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (44 bp):
TAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
Found at i:30754113 original size:132 final size:132
Alignment explanation
Indices: 30753563--30754095 Score: 877
Period size: 132 Copynumber: 4.0 Consensus size: 132
30753553 CAAATCAGTA
* * * *
30753563 AAGATAGCAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTT
1 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAACTTT
* *
30753628 CCAAGATAGTGGGAAGCAGATTTAAGCCACTAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGT
66 CCAAGATAGTGGGAAACAGATTTAAGCCACTAAGCATTATCTCCCTGAGCAGCAGTGGAGTAGGT
30753693 TG
131 TG
30753695 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAACTTT
1 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAACTTT
* *
30753760 CCAAGATAGTGGGAAACAGATTTAAGCCACTAAGTATTGTCTCCCTGAGCAGCAGTGGAGTAGGT
66 CCAAGATAGTGGGAAACAGATTTAAGCCACTAAGCATTATCTCCCTGAGCAGCAGTGGAGTAGGT
30753825 TG
131 TG
30753827 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAACTTT
1 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAACTTT
* *
30753892 CCAAGATAGTGGGAAACAGATTTAAGCCACTAAGTATTGTCTCCCTGAGCAGCAGTGGAGTAGGT
66 CCAAGATAGTGGGAAACAGATTTAAGCCACTAAGCATTATCTCCCTGAGCAGCAGTGGAGTAGGT
30753957 TG
131 TG
* * *
30753959 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACAGCAAATCTTATCTTT
1 AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAACTTT
* * ** * * * *
30754024 CCAAGATAGTGGGAAGCAGGTTTAAGCCACCGAGCCTTATCTCCCTAAGCAGTAGCGGAGTAGGT
66 CCAAGATAGTGGGAAACAGATTTAAGCCACTAAGCATTATCTCCCTGAGCAGCAGTGGAGTAGGT
30754089 TG
131 TG
30754091 AAGAT
1 AAGAT
30754096 TACAAATCCT
Statistics
Matches: 380, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 380 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (132 bp):
AAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAACTTT
CCAAGATAGTGGGAAACAGATTTAAGCCACTAAGCATTATCTCCCTGAGCAGCAGTGGAGTAGGT
TG
Found at i:30754863 original size:13 final size:13
Alignment explanation
Indices: 30754840--30754881 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
30754830 AAGCAAAAAA
30754840 TTGTATTTTCTTTT
1 TTGT-TTTTCTTTT
30754854 ATT-TTTTTCTTTT
1 -TTGTTTTTCTTTT
*
30754867 TTGTTTTACTTTT
1 TTGTTTTTCTTTT
30754880 TT
1 TT
30754882 CGGCCTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 20 0.80
14 1 0.04
15 2 0.08
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.81
Consensus pattern (13 bp):
TTGTTTTTCTTTT
Found at i:30754873 original size:20 final size:20
Alignment explanation
Indices: 30754845--30754882 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30754835 AAAAATTGTA
*
30754845 TTTTCTTTTATTTTTTTCTT
1 TTTTCTTTTACTTTTTTCTT
*
30754865 TTTTGTTTTACTTTTTTC
1 TTTTCTTTTACTTTTTTC
30754883 GGCCTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTCTTTTACTTTTTTCTT
Found at i:30755964 original size:22 final size:22
Alignment explanation
Indices: 30755934--30755979 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
30755924 ACACCAAAAC
*
30755934 AGGCTTTTAGCCGCGCTTTTTT
1 AGGCCTTTAGCCGCGCTTTTTT
*
30755956 AGGCCTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCCGCGCTTTTTT
30755978 AG
1 AG
30755980 CGCCGCAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (22 bp):
AGGCCTTTAGCCGCGCTTTTTT
Found at i:30756677 original size:43 final size:43
Alignment explanation
Indices: 30756242--30756685 Score: 473
Period size: 43 Copynumber: 10.3 Consensus size: 43
30756232 TTTTTTTCTC
* *
30756242 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCAA
* * ** *
30756285 AAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTA
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAA
* *
30756328 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCAA
* * ** *
30756371 AAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTA
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAA
* *
30756414 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCAA
* * ** *
30756457 AAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTA
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAA
* * *
30756500 AAACGCCGC-AATAGACCCTGATCTATAGCGGCTCTTCGACCACA
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA-A
* * * * **
30756544 AAACGCCACTAAAGAACCTAATCTTTAGCTGCGCTTTCCCCAA
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAA
* ** *
30756587 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAA
* * *
30756630 AAACGCCGCTAAAGACCCTTATTTTTAGCGGTGCTTTGACCAA
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAA
*
30756673 AAACGCCACTAAA
1 AAACGCCGCTAAA
30756686 TTTGACAGAT
Statistics
Matches: 325, Mismatches: 68, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
42 6 0.02
43 280 0.86
44 37 0.11
45 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAA
Found at i:30756685 original size:86 final size:86
Alignment explanation
Indices: 30756242--30756666 Score: 708
Period size: 86 Copynumber: 4.9 Consensus size: 86
30756232 TTTTTTTCTC
30756242 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
30756307 CTTTAGCGGCGCTTTCCCCTA
66 CTTTAGCGGCGCTTTCCCCTA
30756328 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
30756393 CTTTAGCGGCGCTTTCCCCTA
66 CTTTAGCGGCGCTTTCCCCTA
30756414 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
30756479 CTTTAGCGGCGCTTTCCCCTA
66 CTTTAGCGGCGCTTTCCCCTA
* * *
30756500 AAACGCCGCAATAGACCCTGATCTATAGCGGCTCTTCGACCACAAAACGCCACTAAAGAACCTAA
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC-AAACGCCGCTAAAGAACCTAA
* *
30756565 TCTTTAGCTGCGCTTTCCCCAA
65 TCTTTAGCGGCGCTTTCCCCTA
* * ** * *
30756587 AAACGCCGCTAA-AGACCATGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAA
* *
30756651 TTTTTAGCGGTGCTTT
65 TCTTTAGCGGCGCTTT
30756667 GACCAAAAAC
Statistics
Matches: 320, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
86 244 0.76
87 74 0.23
88 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (86 bp):
AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCGCTAAAGAACCTAAT
CTTTAGCGGCGCTTTCCCCTA
Found at i:30757092 original size:21 final size:21
Alignment explanation
Indices: 30756991--30757089 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
30756981 GACGCTACTT
30756991 TGCTTCCCTCGCTGCAGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
** *
30757012 TGCTTCCCTCGCTTTAGCCTA
1 TGCTTCCCTCGCTGCAGCCTC
*
30757033 TGCTTCCCTCGCTGCAGCCTG
1 TGCTTCCCTCGCTGCAGCCTC
* * * *
30757054 TACTTCTCTAGCTGCCGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
* *
30757075 TGCTTCTCTTGCTGC
1 TGCTTCCCTCGCTGC
30757090 CGCATCTACT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.06, C:0.41, G:0.18, T:0.34
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCTC
Found at i:30757232 original size:65 final size:65
Alignment explanation
Indices: 30757110--30757239 Score: 172
Period size: 65 Copynumber: 2.0 Consensus size: 65
30757100 TTAAGCTACT
* * * * *
30757110 GCTGGAGTTCTTCGTACTTTCGTTGATCCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGT
1 GCTGGAGTTCTTCATACTTTC-TTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
30757175 A
65 A
* *
30757176 GCTGGAGTTCTTCATATCTTT-TTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTGGAGTTCTTCATA-CTTTCTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
30757240 GTAATTTGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
65 37 0.66
66 15 0.27
67 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (65 bp):
GCTGGAGTTCTTCATACTTTCTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTA
Found at i:30762664 original size:9 final size:9
Alignment explanation
Indices: 30762647--30762777 Score: 70
Period size: 9 Copynumber: 15.9 Consensus size: 9
30762637 TAAGTATAAT
*
30762647 TAAGCTATG
1 TAAGTTATG
30762656 TAAGTTATG
1 TAAGTTATG
30762665 T-A-TTATG
1 TAAGTTATG
30762672 TAAGTTAT-
1 TAAGTTATG
*
30762680 TTA-TTATG
1 TAAGTTATG
* **
30762688 AAAACTATG
1 TAAGTTATG
*
30762697 TAAGTTGTG
1 TAAGTTATG
30762706 T-A-TTATG
1 TAAGTTATG
*
30762713 -AA--AAT-
1 TAAGTTATG
* *
30762718 TATGCTATG
1 TAAGTTATG
*
30762727 TAAGTTATA
1 TAAGTTATG
* *
30762736 TAAGTCATA
1 TAAGTTATG
30762745 TAAGTTATG
1 TAAGTTATG
30762754 T-A-TTATG
1 TAAGTTATG
30762761 TAAGTTATG
1 TAAGTTATG
30762770 TAAGTTAT
1 TAAGTTAT
30762778 TTATTATGCA
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
6 3 0.03
7 21 0.23
8 10 0.11
9 58 0.63
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:30762673 original size:16 final size:16
Alignment explanation
Indices: 30762652--30762771 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
30762642 ATAATTAAGC
30762652 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
30762668 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
*
30762684 TATG-AA---A---AC
1 TATGTAAGTTATGTAT
*
30762693 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
30762709 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
*
30762723 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
30762741 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
30762757 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
30762772 AGTTATTTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 10 0.13
15 2 0.03
16 44 0.58
17 1 0.01
18 11 0.14
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:30762696 original size:25 final size:25
Alignment explanation
Indices: 30762668--30762785 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 25
30762658 AGTTATGTAT
30762668 TATGTAAGTTATTTATTATGAAAAC
1 TATGTAAGTTATTTATTATGAAAAC
* * *
30762693 TATGTAAGTTGTGTATTATGAAAAT
1 TATGTAAGTTATTTATTATGAAAAC
* * * **
30762718 TATGCTATGTAAGTTA-TAT-AAGTC
1 TATG-TAAGTTATTTATTATGAAAAC
* * * **
30762742 -ATATAAGTTATGTATTATGTAAGT
1 TATGTAAGTTATTTATTATGAAAAC
30762766 TATGTAAGTTATTTATTATG
1 TATGTAAGTTATTTATTATG
30762786 CAAATTGTTA
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
22 7 0.10
23 5 0.07
24 3 0.04
25 46 0.69
26 6 0.09
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATTTATTATGAAAAC
Found at i:30762860 original size:13 final size:13
Alignment explanation
Indices: 30762842--30762876 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
30762832 AAGTTATGTA
30762842 ATTTATGTATAAT
1 ATTTATGTATAAT
30762855 ATTTATGTATAAT
1 ATTTATGTATAAT
*
30762868 ATTAATGTA
1 ATTTATGTA
30762877 AGTTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTTATGTATAAT
Found at i:30762882 original size:22 final size:22
Alignment explanation
Indices: 30762857--30762917 Score: 122
Period size: 22 Copynumber: 2.8 Consensus size: 22
30762847 TGTATAATAT
30762857 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATGTAAG
30762879 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATGTAAG
30762901 TTATGTATAATATTAAT
1 TTATGTATAATATTAAT
30762918 TAATTAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATGTATAATATTAATGTAAG
Found at i:30763031 original size:13 final size:15
Alignment explanation
Indices: 30763013--30763051 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
30763003 TATAAGTTTT
30763013 TGTAAGTTATG-A-A
1 TGTAAGTTATGTATA
30763026 TGTAAGTTATGTATTA
1 TGTAAGTTATGTA-TA
30763042 TGTAAGTTAT
1 TGTAAGTTAT
30763052 TTAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
16 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (15 bp):
TGTAAGTTATGTATA
Found at i:30763046 original size:16 final size:16
Alignment explanation
Indices: 30763013--30763088 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
30763003 TATAAGTTTT
30763013 TGTAAGTTATG-A--A
1 TGTAAGTTATGTATTA
30763026 TGTAAGTTATGTATTA
1 TGTAAGTTATGTATTA
*
30763042 TGTAAGTTATTTAAATTA
1 TGTAAGTTATGT--ATTA
* *
30763060 TTTAAGTTGTGTATTA
1 TGTAAGTTATGTATTA
* *
30763076 TATAAGTCATGTA
1 TGTAAGTTATGTA
30763089 GGCTATGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.22
14 1 0.02
16 26 0.51
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (16 bp):
TGTAAGTTATGTATTA
Found at i:30765697 original size:8 final size:10
Alignment explanation
Indices: 30765674--30765710 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
30765664 ATTAATAACT
30765674 ATATATATCC
1 ATATATATCC
*
30765684 ATATATATTC
1 ATATATATCC
30765694 ATATATATCC
1 ATATATATCC
30765704 ATATATA
1 ATATATA
30765711 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:30766711 original size:16 final size:15
Alignment explanation
Indices: 30766690--30766720 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30766680 CGTTTTCCCT
30766690 TAAAACGCCACTAATA
1 TAAAACGCCAC-AATA
30766706 TAAAACGCCACAATA
1 TAAAACGCCACAATA
30766721 GAATCTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (15 bp):
TAAAACGCCACAATA
Found at i:30766855 original size:89 final size:89
Alignment explanation
Indices: 30766704--30766918 Score: 421
Period size: 89 Copynumber: 2.4 Consensus size: 89
30766694 ACGCCACTAA
*
30766704 TATAAAACGCCACAATAGAATCTGATTCCCTAATTCAACTGAAACGACGCCATTCTGACACAGTT
1 TATAAAATGCCACAATAGAATCTGATTCCCTAATTCAACTGAAACGACGCCATTCTGACACAGTT
30766769 TCAAGAATATTAGCGGCGCTTCCC
66 TCAAGAATATTAGCGGCGCTTCCC
30766793 TATAAAATGCCACAATAGAATCTGATTCCCTAATTCAACTGAAACGACGCCATTCTGACACAGTT
1 TATAAAATGCCACAATAGAATCTGATTCCCTAATTCAACTGAAACGACGCCATTCTGACACAGTT
30766858 TCAAGAATATTAGCGGCGCTTCCC
66 TCAAGAATATTAGCGGCGCTTCCC
30766882 TATAAAATGCCACAATAGAATCTGATTCCCTAATTCA
1 TATAAAATGCCACAATAGAATCTGATTCCCTAATTCA
30766919 CGGAACGACG
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 125 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (89 bp):
TATAAAATGCCACAATAGAATCTGATTCCCTAATTCAACTGAAACGACGCCATTCTGACACAGTT
TCAAGAATATTAGCGGCGCTTCCC
Found at i:30767566 original size:15 final size:15
Alignment explanation
Indices: 30767546--30767583 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
30767536 ACCGTTGAAA
30767546 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
30767561 CCCTAAACCTCCAAC
1 CCCTAAATCTCAAAC
30767576 CCCTAAAT
1 CCCTAAAT
30767584 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:30770949 original size:16 final size:15
Alignment explanation
Indices: 30770928--30770958 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30770918 CGTTTTCCCT
30770928 TAAAACGCCACTAATA
1 TAAAACGCCAC-AATA
30770944 TAAAACGCCACAATA
1 TAAAACGCCACAATA
30770959 GAATCTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (15 bp):
TAAAACGCCACAATA
Found at i:30771711 original size:14 final size:14
Alignment explanation
Indices: 30771692--30771759 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
30771682 ATGACCGTTG
30771692 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
30771706 AAACCCCTAAACCTCC
1 AAA-CCCTAAATCT-C
*
30771722 AACCCCTAAAT-T-
1 AAACCCTAAATCTC
* *
30771734 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
30771747 AAACCTTAAATCT
1 AAACCCTAAATCT
30771760 ATACCCAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 16 0.38
16 3 0.07
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:30771715 original size:15 final size:15
Alignment explanation
Indices: 30771695--30771732 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
30771685 ACCGTTGAAA
30771695 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
30771710 CCCTAAACCTCCAAC
1 CCCTAAATCTCAAAC
30771725 CCCTAAAT
1 CCCTAAAT
30771733 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:30774646 original size:18 final size:17
Alignment explanation
Indices: 30774618--30774652 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30774608 ATTATTAAGA
*
30774618 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30774635 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30774653 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30774695 original size:59 final size:59
Alignment explanation
Indices: 30774631--30774914 Score: 188
Period size: 61 Copynumber: 4.7 Consensus size: 59
30774621 TTATTAAATT
* **
30774631 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTACCTTTTATAGTATC
1 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTAAATTTTATAGTATC
* * * * * * * *
30774690 ATATATTATGATTTTAGTAAATTTATATAAGAA-TATTGATT--ATTAAGAATTTTATTA-AATT
1 ATATATTTTAATTATAATATATTTA-ATAATAATTA-TG-TTAAATT-A-AATTTTA-TAGTATC
* * *
30774751 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
1 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTAAATTTTATAGTATC
* * * * ** * * *
30774810 ATATATTATGATT-TCAGTA-AATTAAT-ATAAGAATATTAATTATTAAGAATTTTATTA-AATT
1 ATATATTTTAATTAT-AATATATTTAATAATAATTATGTTAA--ATT-A-AATTTTA-TAGTATC
30774871 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 ATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
30774915 ATGATTAAAT
Statistics
Matches: 164, Mismatches: 41, Indels: 37
0.68 0.17 0.15
Matches are distributed among these distances:
57 10 0.06
58 8 0.05
59 50 0.30
60 19 0.12
61 55 0.34
62 12 0.07
63 6 0.04
64 4 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (59 bp):
ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTAAATTTTATAGTATC
Found at i:30774777 original size:15 final size:15
Alignment explanation
Indices: 30774742--30774903 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
30774732 TTAAGAATTT
*
30774742 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30774756 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30774770 TATTTAATAATAAT-
1 TATTTAATTATAATA
30774784 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
30774798 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
* *
30774813 TATTATGATT-TCAGTA
1 TATT-TAATTAT-AATA
* *
30774829 -AATTAA-TATAAGA
1 TATTTAATTATAATA
*
30774842 -ATATTAATTATTAAGA
1 TAT-TTAATTA-TAATA
* *
30774858 -ATTTTATTAAATTATA
1 TATTTAATT--ATAATA
30774874 TATTTTAATTATAATA
1 TA-TTTAATTATAATA
*
30774890 TATTTAATAATAAT
1 TATTTAATTATAAT
30774904 TATGTTTAAA
Statistics
Matches: 111, Mismatches: 19, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
12 3 0.03
13 17 0.15
14 18 0.16
15 41 0.37
16 23 0.21
17 3 0.03
18 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30774821 original size:120 final size:120
Alignment explanation
Indices: 30774605--30774914 Score: 539
Period size: 120 Copynumber: 2.6 Consensus size: 120
30774595 NNNNNNNNNN
*
30774605 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
* * * *
30774670 AAATTACCTTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATA
66 AAATTACATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
*
30774725 TTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
* *
30774790 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
66 AAATTACATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
30774845 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-T
30774910 TAAAT
65 TAAAT
30774915 ATGATTAAAT
Statistics
Matches: 179, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 174 0.97
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
AAATTACATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
Found at i:30774892 original size:16 final size:16
Alignment explanation
Indices: 30774871--30774912 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30774861 TTATTAAATT
*
30774871 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30774887 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30774902 AT-TATGTTTAA
1 ATATAT-TTTAA
30774913 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30775150 original size:16 final size:16
Alignment explanation
Indices: 30775129--30775196 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
30775119 GATTTGCTAT
30775129 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
30775145 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
30775161 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30775177 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30775193 TACA
1 TACA
30775197 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30775800 original size:41 final size:40
Alignment explanation
Indices: 30775752--30775972 Score: 149
Period size: 41 Copynumber: 5.4 Consensus size: 40
30775742 GCTTACATAT
* * * *
30775752 AAAACGCCGCTAAATGCCAGAGTACTAGTGGCGCTCAGATA
1 AAAACGCCACTAAA-GACAGAGCACTAGTGGCGCTCAGACA
* ** * * *
30775793 AAAACGCCACTGAAA-ACACGAACTTTAGCGGCGCTTAGAAA
1 AAAACGCCACT-AAAGACA-GAGCACTAGTGGCGCTCAGACA
* * *
30775834 AAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACA
1 AAAACGCCACTAAAG-ACAGAGCACTAGTGGCGCTCAGACA
* * * * *
30775875 ATAACGCCACTAATGATACGAGCA-TGAGCGGCGCTTAGACA
1 AAAACGCCACTAAAGACA-GAGCACT-AGTGGCGCTCAGACA
* * * * * *
30775916 GAAACGCCGCTAAAGGCCAGAACATTAGTGGCGCTCAGATA
1 AAAACGCCACTAAA-GACAGAGCACTAGTGGCGCTCAGACA
30775957 AAAACGCCACTAAAGA
1 AAAACGCCACTAAAGA
30775973 TCGGAGAATT
Statistics
Matches: 136, Mismatches: 36, Indels: 17
0.72 0.19 0.09
Matches are distributed among these distances:
40 9 0.07
41 118 0.87
42 9 0.07
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.14
Consensus pattern (40 bp):
AAAACGCCACTAAAGACAGAGCACTAGTGGCGCTCAGACA
Found at i:30775984 original size:41 final size:40
Alignment explanation
Indices: 30775781--30775991 Score: 160
Period size: 41 Copynumber: 5.2 Consensus size: 40
30775771 GAGTACTAGT
*
30775781 GGCGCTCAGATAAAAACGCCACTGAAA-A-C-ACGAACTTTAGC
1 GGCGCTCAGACAAAAACGCCACT-AAAGATCGA-GAA--TTAGC
* * * * *
30775822 GGCGCTTAGAAAAAAACGCCGCTAAAGAACAGAGAATTAGT
1 GGCGCTCAGACAAAAACGCCACTAAAGATC-GAGAATTAGC
* * * *
30775863 GGCGCTCAGACAATAACGCCACTAATGATACGAGCATGAGC
1 GGCGCTCAGACAAAAACGCCACTAAAGAT-CGAGAATTAGC
* * * * * *
30775904 GGCGCTTAGACAGAAACGCCGCTAAAG-GCCAGAACATTAGT
1 GGCGCTCAGACAAAAACGCCACTAAAGATCGAG-A-ATTAGC
*
30775945 GGCGCTCAGATAAAAACGCCACTAAAGATCGGAGAATTAGC
1 GGCGCTCAGACAAAAACGCCACTAAAGATC-GAGAATTAGC
30775986 GGCGCT
1 GGCGCT
30775992 AAAGTAAACA
Statistics
Matches: 131, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
39 3 0.02
40 3 0.02
41 115 0.88
42 4 0.03
43 5 0.04
44 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.15
Consensus pattern (40 bp):
GGCGCTCAGACAAAAACGCCACTAAAGATCGAGAATTAGC
Found at i:30775987 original size:82 final size:80
Alignment explanation
Indices: 30775733--30776013 Score: 284
Period size: 82 Copynumber: 3.4 Consensus size: 80
30775723 TAAAGGTAGC
* * * * *
30775733 ATTAGCGGCGCTTACATATAAAACGCCGCTAAATGCCAGAGTACTAGTGGCGCTCAGATAAAAAC
1 ATTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGGCCAGA-AATTAGTGGCGCTCAGATAAAAAC
30775798 GCCACTGAAA-A-C-ACGA
64 GCCACT-AAAGATCGA-GA
** * *
30775814 ACTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACAATAA
1 A--TTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGA-AATTAGTGGCGCTCAGATAAAAA
* *
30775879 CGCCACTAATGATACGAGC
63 CGCCACTAAAGAT-CGAGA
* * *
30775898 ATGAGCGGCGCTTAGACAGAAACGCCGCTAAAGGCCAGAACATTAGTGGCGCTCAGATAAAAACG
1 ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAA-ATTAGTGGCGCTCAGATAAAAACG
30775963 CCACTAAAGATCGGAGA
65 CCACTAAAGATC-GAGA
*
30775980 ATTAGCGGCGC-TA-AAGTAAACACGCCGCTAAAGG
1 ATTAGCGGCGCTTAGAA--AAAAACGCCGCTAAAGG
30776014 TTTAAAAATC
Statistics
Matches: 166, Mismatches: 24, Indels: 19
0.79 0.11 0.09
Matches are distributed among these distances:
80 1 0.01
81 7 0.04
82 140 0.84
83 14 0.08
84 3 0.02
85 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (80 bp):
ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAAATTAGTGGCGCTCAGATAAAAACGC
CACTAAAGATCGAGA
Found at i:30787073 original size:38 final size:39
Alignment explanation
Indices: 30787010--30787087 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
30787000 CAAGGAGGGG
30787010 AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
1 AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
*
30787049 AAAGAAAGAAA-AAAAAGTCAAAATGTGAGAAGAGAGAA
1 AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
30787087 A
1 A
30787088 CGTGAAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.65, C:0.04, G:0.23, T:0.08
Consensus pattern (39 bp):
AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
Found at i:30789803 original size:19 final size:19
Alignment explanation
Indices: 30789779--30789817 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
30789769 CTCTTTGTAA
*
30789779 ATCTTTAAATGGTAAAAGT
1 ATCTTTAAATGATAAAAGT
30789798 ATCTTTAAATGATAAAAGT
1 ATCTTTAAATGATAAAAGT
30789817 A
1 A
30789818 AGGGGGAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (19 bp):
ATCTTTAAATGATAAAAGT
Found at i:30792694 original size:21 final size:21
Alignment explanation
Indices: 30792666--30792727 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
30792656 ACATGTGCTA
30792666 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * * *
30792687 AACGGAAACTCATAAGAGCTG
1 AACAGAAACCCATAAGGGTTG
*
30792708 AATAGAAACCCATAAGGGTT
1 AACAGAAACCCATAAGGGTT
30792728 AAATTCAAGC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:30792746 original size:42 final size:42
Alignment explanation
Indices: 30792662--30792784 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
30792652 GCATACATGT
* ***
30792662 GCTAAACAGAAACCCATAAGGGTTGAACGGAAACTCATAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTCATAAGA
* * *
30792704 GCTGAATAGAAACCCATAAGGGTTAAATTCAAGCTCGA-AAGA
1 GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTC-ATAAGA
* ** * *
30792746 GCTAAACCGAAACCCATTCGGGTTAAATTGACACTCATA
1 GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTCATA
30792785 TGAGTTAACT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (42 bp):
GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTCATAAGA
Found at i:30794493 original size:94 final size:94
Alignment explanation
Indices: 30794320--30794742 Score: 456
Period size: 94 Copynumber: 4.5 Consensus size: 94
30794310 AGATTCGAGG
* * * * * *
30794320 TTGTAGCTTTATCTTGCTCCACTGCATCTTCAGGGAGATTAGATTTGCTATTGTAGTTTCAATCT
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
** * ** *
30794385 ATTCCATTACAACTTCAGGGATATAGGAT
66 AAACTATTGTAACTTCAGGGGTATAGGAT
* * * *** *
30794414 TTGTAGCTCCATCTTGC-CCTACTGCAACTTTAGAGAGATAAGACACGCCATTGTAGCTTCATTC
1 TTGTAGCTTCATCTTGCTCC-ACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTC
* * *
30794478 CAAACTACTGTAACTTTAGGGGTATAAGAT
65 CAAACTATTGTAACTTCAGGGGTATAGGAT
* * * *
30794508 TTGTAGCTTCATCTTGCTCCACTACAAGTTCAGGGAGATAAAATTTGTTATTGTAGCTTCATTCC
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
* *
30794573 AAACCATTGTAACTGT-AGGGGTATAGGAC
66 AAACTATTGTAACT-TCAGGGGTATAGGAT
* * *
30794602 TTGTAGCTTTATCTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATTGTAGTTTCATTCC
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
* * *
30794667 -GACTCATTGCAACTTCAGGGGTACAGGAT
66 AAACT-ATTGTAACTTCAGGGGTATAGGAT
* * **
30794696 TTATAGCTTCATCTTGCTTCACTAAAACTTCAGGGAGATAAGATTTG
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
30794743 TAGCTTCATC
Statistics
Matches: 270, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
93 5 0.02
94 262 0.97
95 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (94 bp):
TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
AAACTATTGTAACTTCAGGGGTATAGGAT
Found at i:30794727 original size:44 final size:44
Alignment explanation
Indices: 30794677--30794784 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
30794667 GACTCATTGC
*
30794677 AACTTCAGGG-G-TACAGGATTTATAGCTTCATCTTGCTTCACTAA
1 AACTTCAGGGAGATA-A-GATTTATAGCTTCATCTTGCTCCACTAA
* **
30794721 AACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGT
1 AACTTCAGGGAGATAAGATTTATAGCTTCATCTTGCTCCACTAA
* *
30794765 AACTTCAGGTAGATGAGATT
1 AACTTCAGGGAGATAAGATT
30794785 CGCCATTGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 52 0.93
45 2 0.04
46 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTTATAGCTTCATCTTGCTCCACTAA
Found at i:30799889 original size:34 final size:34
Alignment explanation
Indices: 30799849--30799919 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
30799839 TAACATAACA
30799849 TCAATTATATCATACCTTTCATAAACATAAATAT
1 TCAATTATATCATACCTTTCATAAACATAAATAT
30799883 TCAATTATATCATACCTTTCATAAACATAAATAT
1 TCAATTATATCATACCTTTCATAAACATAAATAT
30799917 TCA
1 TCA
30799920 TACTTTCACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (34 bp):
TCAATTATATCATACCTTTCATAAACATAAATAT
Found at i:30800058 original size:29 final size:29
Alignment explanation
Indices: 30800012--30800153 Score: 131
Period size: 29 Copynumber: 4.9 Consensus size: 29
30800002 TGTGTTAAAT
* * *
30800012 GATGGTCGTAACCGTCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATAATC
**
30800041 GATGGTTAAAACCATCCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TAATC
** * *
30800071 GATGGTCGTCACTATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATAATC
* * *
30800100 GATAGTCGAAGCTATCCCTTTTCATAATC
1 GATGGTCGAAACCATCCCTTTTCATAATC
* * * *
30800129 GATAGCCGAATCTATCCCTTTTCAT
1 GATGGTCGAAACCATCCCTTTTCAT
30800154 TGGTCGATGA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
29 71 0.76
30 23 0.24
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATAATC
Found at i:30800117 original size:59 final size:58
Alignment explanation
Indices: 30800012--30800153 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 58
30800002 TGTGTTAAAT
** * *
30800012 GATGGTCGTAACCGTCCCTTTTCATATTCGATGGTTAAAACCATCCCTTTTCATTAATC
1 GATGGTCGTAACTATCCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCA-TAATC
* * * *
30800071 GATGGTCGTCACTATCCCTTTTCATATTCGATAGTCGAAGCTATCCCTTTTCATAATC
1 GATGGTCGTAACTATCCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCATAATC
* *
30800129 GATAGCCG-AATCTATCCCTTTTCAT
1 GATGGTCGTAA-CTATCCCTTTTCAT
30800154 TGGTCGATGA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
57 1 0.01
58 25 0.35
59 45 0.63
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (58 bp):
GATGGTCGTAACTATCCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCATAATC
Found at i:30803012 original size:14 final size:14
Alignment explanation
Indices: 30802993--30803019 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30802983 GGGACCTTTT
30802993 ATGTAATGAAATGC
1 ATGTAATGAAATGC
30803007 ATGTAATGAAATG
1 ATGTAATGAAATG
30803020 TAATACTAAT
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:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (14 bp):
ATGTAATGAAATGC
Found at i:30807819 original size:10 final size:9
Alignment explanation
Indices: 30807804--30807883 Score: 56
Period size: 10 Copynumber: 8.6 Consensus size: 9
30807794 TTTTCTTACG
30807804 ATTTTATAAA
1 ATTTTAT-AA
30807814 ATTTTATAA
1 ATTTTATAA
* *
30807823 ATTTTTTAT
1 ATTTTATAA
*
30807832 ATTTCTATAT
1 ATTT-TATAA
30807842 ATTTTATAA
1 ATTTTATAA
*
30807851 CTTGTTACT-A
1 ATT-TTA-TAA
*
30807861 TTTTTATAAA
1 ATTTTAT-AA
30807871 ATTTTAT-A
1 ATTTTATAA
30807879 ATTTT
1 ATTTT
30807884 TTTTATTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.12
9 22 0.38
10 28 0.48
11 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (9 bp):
ATTTTATAA
Found at i:30807826 original size:19 final size:18
Alignment explanation
Indices: 30807804--30807883 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
30807794 TTTTCTTACG
30807804 ATTTTATAAAATTTTATAA
1 ATTTTATAAAATTTTAT-A
* *
30807823 ATTTT-TTATATTTCTATA
1 ATTTTATAAAATTT-TATA
*
30807841 TATTTTAT-AACTTGTTACTA
1 -ATTTTATAAAATT-TTA-TA
*
30807861 TTTTTATAAAATTTTATA
1 ATTTTATAAAATTTTATA
30807879 ATTTT
1 ATTTT
30807884 TTTTATTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
18 13 0.27
19 27 0.56
20 8 0.17
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (18 bp):
ATTTTATAAAATTTTATA
Found at i:30807884 original size:19 final size:17
Alignment explanation
Indices: 30807805--30807929 Score: 56
Period size: 19 Copynumber: 6.8 Consensus size: 17
30807795 TTTCTTACGA
30807805 TTTTATAAAATTTTATAAAT
1 TTTTAT-AAATTTTAT--AT
*
30807825 TTTT-TATATTTCTATAT
1 TTTTATAAATTT-TATAT
*
30807842 ATTTTATAACTTGTTACTAT
1 -TTTTATAAATT-TTA-TAT
30807862 TTTTATAAAATTTTATAATT
1 TTTTAT-AAATTTTAT-A-T
* **
30807882 TTTTTTATTTTTTATGAT
1 TTTTATAAATTTTAT-AT
* * *
30807900 TTATATATATTCTA-AT
1 TTTTATAAATTTTATAT
30807916 TTTTAATAAATTTT
1 TTTT-ATAAATTTT
30807930 TAATATTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
16 5 0.06
17 9 0.11
18 21 0.26
19 28 0.35
20 18 0.22
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTATAAATTTTATAT
Found at i:30808123 original size:88 final size:88
Alignment explanation
Indices: 30808020--30808236 Score: 248
Period size: 89 Copynumber: 2.5 Consensus size: 88
30808010 AATAAAAGCA
* * *
30808020 AGGG-CTTAATTGCTTTTTTGAAAAATTTTG-AGGATCTTTTTGAAGTATTTTGAAAGTTCAAGT
1 AGGGACTTAATTGCTTTTTTGAAAAATTTTGAAGG-TCTTTTTGAAGCACTTTAAAAGTTCAAGT
* * *
30808083 ACCCAATTGAGTGCAAAAAAATGT
65 ACCCAAATGAGTGAAAAAAAAAGT
* * *
30808107 AGGGACTTAATTGCTTTTTTAAAAAAGGTTTGAAGGTCTTTTTGATGCACTTTAAAAGTTCAAGT
1 AGGGACTTAATTGCTTTTTTGAAAAA-TTTTGAAGGTCTTTTTGAAGCACTTTAAAAGTTCAAGT
*
30808172 ACCGAAATGAGTGAAAAAAAAAGT
65 ACCCAAATGAGTGAAAAAAAAAGT
*
30808196 A-GAAGCTTAATTG-TATTTTTG-AAAATATTTGAAGG-CTTTTT
1 AGGGA-CTTAATTGCT-TTTTTGAAAAAT-TTTGAAGGTCTTTTT
30808237 TCACCCTTAA
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
87 10 0.09
88 35 0.32
89 63 0.57
90 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (88 bp):
AGGGACTTAATTGCTTTTTTGAAAAATTTTGAAGGTCTTTTTGAAGCACTTTAAAAGTTCAAGTA
CCCAAATGAGTGAAAAAAAAAGT
Found at i:30808375 original size:15 final size:15
Alignment explanation
Indices: 30808355--30808385 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30808345 GTCATGTAAG
30808355 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
30808370 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
30808385 T
1 T
30808386 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:30808576 original size:17 final size:17
Alignment explanation
Indices: 30808543--30808581 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
30808533 TAAGCTTTTG
30808543 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
30808560 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
30808577 ATTTT
1 ATTTT
30808582 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:30809347 original size:15 final size:15
Alignment explanation
Indices: 30809323--30809352 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30809313 TGGAGATCGA
*
30809323 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
30809338 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
30809353 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:30812734 original size:15 final size:15
Alignment explanation
Indices: 30812714--30812744 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30812704 GTCATGTAAG
30812714 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
30812729 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
30812744 T
1 T
30812745 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:30812935 original size:17 final size:17
Alignment explanation
Indices: 30812902--30812940 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
30812892 TAAGCTTTTG
30812902 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
30812919 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
30812936 ATTTT
1 ATTTT
30812941 CCACATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:30817758 original size:45 final size:44
Alignment explanation
Indices: 30817693--30817782 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
30817683 GAATAGAGGC
*
30817693 GTAATGGAATAGAAGTGTAATAGTAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAAGCGTAATAGT-AATCAACTGTTTGGTTGAAT
* ***
30817738 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAAGCGTAATAGTAATCAACTGTTTGGTTGAAT
30817782 G
1 G
30817783 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAAGCGTAATAGTAATCAACTGTTTGGTTGAAT
Found at i:30817797 original size:39 final size:43
Alignment explanation
Indices: 30817693--30817799 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 43
30817683 GAATAGAGGC
*
30817693 GTAATGGAATAGAAGTGTAATAGTAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGTAAATCAACTGTTTGGTT--AT
* ***
30817738 GTAATGGAATAGAGGCGTAATAGT-AATCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGTAAATCAACTGTTTGGTTAT
30817778 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGTGTAATAG
30817800 CATAATGGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGTAAATCAACTGTTTGGTTAT
Found at i:30817968 original size:18 final size:17
Alignment explanation
Indices: 30817947--30817981 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30817937 TTATTATTAA
*
30817947 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30817965 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30817982 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30818035 original size:157 final size:157
Alignment explanation
Indices: 30817841--30818150 Score: 584
Period size: 157 Copynumber: 2.0 Consensus size: 157
30817831 CCCTTACCAT
* *
30817841 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAATATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
30817906 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
30817971 TTTAATAAAATTCTTAATAATTAGCAG
131 TTTAATAAAATTCTTAATAATTAGCAG
*
30817998 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
30818063 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
30818128 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
30818151 ATATTCTTAT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 149 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTAGCAG
Found at i:30818121 original size:16 final size:16
Alignment explanation
Indices: 30818084--30818125 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30818074 TTAATCATAT
*
30818084 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
30818100 TT-AAATATATTATAA
1 TTAAAATATATTATAA
30818115 TTAAAATATAT
1 TTAAAATATAT
30818126 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:30818132 original size:14 final size:15
Alignment explanation
Indices: 30818093--30818134 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30818083 TTTAAACATA
*
30818093 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30818108 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30818122 A-TATAATTTAATA
1 ATTATAATTAAATA
30818135 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30818222 original size:120 final size:121
Alignment explanation
Indices: 30818082--30818379 Score: 512
Period size: 120 Copynumber: 2.5 Consensus size: 121
30818072 ATTTAATCAT
*
30818082 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
30818147 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
30818204 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
30818267 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
30818323 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
30818380 TAAAATAATT
Statistics
Matches: 169, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 3 0.02
120 161 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:30818252 original size:14 final size:15
Alignment explanation
Indices: 30818203--30818254 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30818193 GTAAAATATA
30818203 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
30818218 TATTAAATATATTAT
1 AATTAAATATATTAT
30818233 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
30818246 AATTTAATA
1 AATTAAATA
30818255 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:30818449 original size:26 final size:28
Alignment explanation
Indices: 30818420--30818480 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
30818410 TATGAATTTG
*
30818420 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
30818446 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
30818474 TAAAATT
1 TATAATT
30818481 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:30818478 original size:47 final size:46
Alignment explanation
Indices: 30818427--30818570 Score: 104
Period size: 45 Copynumber: 3.1 Consensus size: 46
30818417 TTGTATAATT
30818427 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
30818474 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* * *
30818518 TAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
30818565 TAAAAT
1 TAAAAT
30818571 TCTTAATAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 26
0.65 0.12 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.20
46 12 0.17
47 14 0.20
48 9 0.13
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:30818490 original size:91 final size:90
Alignment explanation
Indices: 30818395--30818602 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 90
30818385 TAATTATAAC
* * * *
30818395 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30818460 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
*
30818486 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30818551 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
30818577 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
30818603 CTAAAATCAA
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
91 86 0.80
92 21 0.20
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:30818562 original size:44 final size:43
Alignment explanation
Indices: 30818420--30818562 Score: 103
Period size: 44 Copynumber: 3.2 Consensus size: 43
30818410 TATGAATTTG
* * *
30818420 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAAT-ATGATA
** * * *
30818464 TATAATTTCATAAAATTCTTGATAATAAAT-T--TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAATT-TAATATG-A--TA
*
30818511 TACAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATA-TGATA
30818555 TATAATTT
1 TATAATTT
30818563 CATAAAATTC
Statistics
Matches: 73, Mismatches: 15, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
44 34 0.47
45 7 0.10
46 8 0.11
47 24 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATATGATA
Found at i:30818577 original size:47 final size:46
Alignment explanation
Indices: 30818445--30818583 Score: 126
Period size: 47 Copynumber: 3.0 Consensus size: 46
30818435 TTATTATTAC
* *
30818445 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAAT-ATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
30818492 AT-T--TTCTTATATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
30818536 ATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATA-TGATATATAATTTCATAAAATTCTTAATAATAA
30818583 A
1 A
30818584 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 14 0.20
47 22 0.32
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (46 bp):
ATATAATTTAATATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:30821760 original size:13 final size:13
Alignment explanation
Indices: 30821742--30821767 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30821732 TGCTTTTGAG
30821742 TTCAAAAATAATT
1 TTCAAAAATAATT
30821755 TTCAAAAATAATT
1 TTCAAAAATAATT
30821768 CTGATTTAGA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCAAAAATAATT
Found at i:30823623 original size:43 final size:43
Alignment explanation
Indices: 30823570--30823654 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
30823560 GAAATCGATT
*
30823570 AACTCAAACAAATAATGCAATACAGGCAAGAATCGAAACAAAG
1 AACTCAAACAAATAATGCAATACAGGCAAGAACCGAAACAAAG
*
30823613 AACTGAAACAAATAATGCAATACAGGCAAGAACCGAAACAAA
1 AACTCAAACAAATAATGCAATACAGGCAAGAACCGAAACAAA
30823655 CTATTTAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.11
Consensus pattern (43 bp):
AACTCAAACAAATAATGCAATACAGGCAAGAACCGAAACAAAG
Found at i:30839428 original size:19 final size:19
Alignment explanation
Indices: 30839387--30839428 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
30839377 ACAATATTAT
* *
30839387 TATGTGGTGAACTATTAAT
1 TATGTGGTGAACTACTAAA
30839406 TATGTGGTGTAA-TACTAAA
1 TATGTGGTG-AACTACTAAA
30839425 TATG
1 TATG
30839429 CACTTGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (19 bp):
TATGTGGTGAACTACTAAA
Found at i:30840846 original size:24 final size:24
Alignment explanation
Indices: 30840819--30840867 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30840809 TGTGTTAGGA
30840819 AAATTTACTAATTTAATAAGTATG
1 AAATTTACTAATTTAATAAGTATG
30840843 AAATTTACTAATTTAATAAGTATG
1 AAATTTACTAATTTAATAAGTATG
30840867 A
1 A
30840868 TTTCATGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (24 bp):
AAATTTACTAATTTAATAAGTATG
Found at i:30841633 original size:14 final size:14
Alignment explanation
Indices: 30841609--30841649 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
30841599 TTTTTCCAAA
* *
30841609 AAAAATCATTTTCT
1 AAAAATTATTTTCC
*
30841623 AGAAATTATTTTCC
1 AAAAATTATTTTCC
30841637 AAAAATTATTTTC
1 AAAAATTATTTTC
30841650 AATGAAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (14 bp):
AAAAATTATTTTCC
Found at i:30842320 original size:28 final size:29
Alignment explanation
Indices: 30842267--30842335 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
30842257 CGAGTTGTTT
* * *
30842267 TCTCATTTTCTCCCAACCTCTTTTTCTTC
1 TCTCATTTTCTCCAAACATCATTTTCTTC
30842296 TCTCATTTTCTCCAAACAT-ATTTTCTTC
1 TCTCATTTTCTCCAAACATCATTTTCTTC
30842324 TCTCATTTTCTC
1 TCTCATTTTCTC
30842336 TCAAGCACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.14, C:0.33, G:0.00, T:0.52
Consensus pattern (29 bp):
TCTCATTTTCTCCAAACATCATTTTCTTC
Found at i:30843783 original size:79 final size:79
Alignment explanation
Indices: 30843674--30843903 Score: 302
Period size: 79 Copynumber: 2.9 Consensus size: 79
30843664 TACGCCTCCG
* * * * *
30843674 TGTTACTCTGTTGATGAAGAATATGT--GATATCTGATTATGTTAGATTGATTGTTACTGGTTTT
1 TGTTACTTTGTTGAT-AAGGA-ATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCT
*
30843737 GGTTTATAATCCTCTA
64 GATTTATAATCCTCTA
*
30843753 TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTAATTGTTACTGATTCTGA
1 TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCTGA
* *
30843818 TTTATGATCTTCTA
66 TTTATAATCCTCTA
* * * * *
30843832 CGTTACTTTGTTGATGAGGAATATACGATATCTGAACATGTTAGATTGATTGTTACTGATTCTAA
1 TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCTGA
30843897 TTTATAA
66 TTTATAA
30843904 CCGTGCATGT
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
77 4 0.03
78 4 0.03
79 125 0.94
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (79 bp):
TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCTGA
TTTATAATCCTCTA
Found at i:30844724 original size:13 final size:13
Alignment explanation
Indices: 30844706--30844730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30844696 TATGATTTGA
30844706 TCTTTTGGGTTTT
1 TCTTTTGGGTTTT
30844719 TCTTTTGGGTTT
1 TCTTTTGGGTTT
30844731 GTAATCTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.24, T:0.68
Consensus pattern (13 bp):
TCTTTTGGGTTTT
Found at i:30846849 original size:21 final size:21
Alignment explanation
Indices: 30846823--30846863 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
30846813 AAATGATCAA
30846823 GAATCGATACTTTATGCCAGG
1 GAATCGATACTTTATGCCAGG
30846844 GAATCGATACTTTATGCCAG
1 GAATCGATACTTTATGCCAG
30846864 AATTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (21 bp):
GAATCGATACTTTATGCCAGG
Found at i:30849224 original size:13 final size:13
Alignment explanation
Indices: 30849206--30849231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30849196 CGAAATTATA
30849206 ATTATAATAATTT
1 ATTATAATAATTT
30849219 ATTATAATAATTT
1 ATTATAATAATTT
30849232 CGATAAACTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:30851860 original size:11 final size:11
Alignment explanation
Indices: 30851844--30851870 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30851834 TAACCATACA
30851844 TACTGAATATT
1 TACTGAATATT
30851855 TACTGAATATT
1 TACTGAATATT
30851866 TACTG
1 TACTG
30851871 TGGGACTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (11 bp):
TACTGAATATT
Found at i:30858866 original size:14 final size:14
Alignment explanation
Indices: 30858847--30858873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30858837 ATATTTTAGG
30858847 GTTATGATATTCAA
1 GTTATGATATTCAA
30858861 GTTATGATATTCA
1 GTTATGATATTCA
30858874 CATTCTCCAA
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:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
GTTATGATATTCAA
Found at i:30865453 original size:25 final size:24
Alignment explanation
Indices: 30865352--30865477 Score: 127
Period size: 22 Copynumber: 5.3 Consensus size: 24
30865342 CACTAATGAA
* *
30865352 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACCAACGTGCTATAAT
*
30865374 CAGAGAGCA-CAGATGTGCTA-AA-
1 CAGAGAGCACCA-ACGTGCTATAAT
** *
30865396 CAGAGAGCACTGACGTGCTAAAAT
1 CAGAGAGCACCAACGTGCTATAAT
*
30865420 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACCAACGTGCTA-TAAT
30865445 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCT-ATAAT
30865470 CAGAGAGC
1 CAGAGAGC
30865478 GCGCTAAAGT
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.01
22 33 0.38
23 2 0.02
24 18 0.21
25 32 0.37
26 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (24 bp):
CAGAGAGCACCAACGTGCTATAAT
Found at i:30866625 original size:41 final size:41
Alignment explanation
Indices: 30866541--30866627 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
30866531 TTTGTTTTAT
* * * **
30866541 ATATAATAATAATATAATATAATAACTTACTTATTAATTAA
1 ATATCATAATAATATAATATAATAACTTAATTATAAAAAAA
30866582 ATATCATAAT-ATATAATATATATAACTTAAATTA-AAAAAAA
1 ATATCATAATAATATAATATA-ATAACTT-AATTATAAAAAAA
30866623 ATATC
1 ATATC
30866628 TTAGATATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 10 0.26
41 25 0.64
42 4 0.10
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (41 bp):
ATATCATAATAATATAATATAATAACTTAATTATAAAAAAA
Found at i:30871847 original size:21 final size:21
Alignment explanation
Indices: 30871787--30871878 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
30871777 AGCTTCATTC
*
30871787 TAAAAT-TAT-AAAAATTCAT
1 TAAAATATATAAAAAAATCAT
* *
30871806 AAAAAAAATATAACCAAAAATCAT
1 -TAAAATATATAA--AAAAATCAT
30871830 TACAAAT-TATAAAAAAATCAT
1 TA-AAATATATAAAAAAATCAT
**
30871851 ATAAAATATATTTAAAAATCAT
1 -TAAAATATATAAAAAAATCAT
30871873 TAAAAT
1 TAAAAT
30871879 CATTAATGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.07
21 22 0.38
22 15 0.26
23 6 0.10
24 11 0.19
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAATATATAAAAAAATCAT
Found at i:30871856 original size:11 final size:10
Alignment explanation
Indices: 30871821--30871884 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 10
30871811 AAATATAACC
30871821 AAAAATCATT
1 AAAAATCATT
* * *
30871831 ACAAATTATAA
1 AAAAATCAT-T
30871842 AAAAATCATAT
1 AAAAATCAT-T
30871853 AAAATAT-ATTT
1 AAAA-ATCA-TT
30871864 AAAAATCATT
1 AAAAATCATT
30871874 -AAAATCATT
1 AAAAATCATT
30871883 AA
1 AA
30871885 TGAAATCTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 9 0.21
10 12 0.28
11 19 0.44
12 3 0.07
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATCATT
Found at i:30876278 original size:20 final size:21
Alignment explanation
Indices: 30876249--30876287 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30876239 GGACTAAATA
*
30876249 AAAAATATTTGGAAATTTTAG
1 AAAAATATTTGAAAATTTTAG
30876270 AAAAA-ATTTGAAAATTTT
1 AAAAATATTTGAAAATTTT
30876288 GGACTACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAAATATTTGAAAATTTTAG
Found at i:30885068 original size:21 final size:21
Alignment explanation
Indices: 30885043--30885098 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
30885033 TAATTATTAA
*
30885043 AAATTATATAGTTT-CCATTTT
1 AAATTATATA-TTTACCAATTT
*
30885064 AAATTTTATATTTAACCAATTT
1 AAATTATATATTT-ACCAATTT
*
30885086 AAATT-TAAATTTA
1 AAATTATATATTTA
30885099 AATTTGAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 15 0.50
22 11 0.37
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
AAATTATATATTTACCAATTT
Found at i:30885634 original size:32 final size:31
Alignment explanation
Indices: 30885597--30885697 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 31
30885587 TTAATATAAT
30885597 ATTTAGTATTTGAACTTAACACTTTTTTTCTA
1 ATTTAGTATTT-AACTTAACACTTTTTTTCTA
** *
30885629 ATTTAGTATTT--CGTT--TTCTTTTTTGCTTA
1 ATTTAGTATTTAAC-TTAACACTTTTTTTC-TA
*
30885658 ATTTAGTATTTAAACTTAACATTTTTTTTCTA
1 ATTTAGTATTT-AACTTAACACTTTTTTTCTA
30885690 ATTT-GTAT
1 ATTTAGTAT
30885698 CCCAAAACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
28 8 0.15
29 14 0.25
30 2 0.04
31 6 0.11
32 18 0.33
33 7 0.13
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (31 bp):
ATTTAGTATTTAACTTAACACTTTTTTTCTA
Found at i:30886203 original size:7 final size:7
Alignment explanation
Indices: 30886191--30886220 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
30886181 GTTGTTGTAA
30886191 GGTGAAG
1 GGTGAAG
30886198 GGTGAAG
1 GGTGAAG
30886205 GGTGAAG
1 GGTGAAG
30886212 GGTGAAG
1 GGTGAAG
30886219 GG
1 GG
30886221 GGGATCGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.60, T:0.13
Consensus pattern (7 bp):
GGTGAAG
Found at i:30890562 original size:15 final size:15
Alignment explanation
Indices: 30890513--30890554 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
30890503 CTTGAACTTC
*
30890513 ATTATTACTATTACT
1 ATTATTACTATTAAT
*
30890528 ATTATTAATATTAAT
1 ATTATTACTATTAAT
30890543 ATTATTACTATT
1 ATTATTACTATT
30890555 GTTATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTACTATTAAT
Found at i:30891922 original size:16 final size:16
Alignment explanation
Indices: 30891897--30891930 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30891887 TGTGTTTTGC
* *
30891897 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
30891913 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
30891929 TT
1 TT
30891931 CATCCTAAAA
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:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:30900758 original size:381 final size:381
Alignment explanation
Indices: 30900055--30900815 Score: 1380
Period size: 381 Copynumber: 2.0 Consensus size: 381
30900045 CTCTAGCCTC
*
30900055 CATGATTAAAGTAAACAGACAAGAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
1 CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
*
30900120 CTCATTGTTGCAATATCAAGGAAGAGGAAAAGGATGACAGCCCTTGGTATCAAGATATATTATGA
66 CTCATTGTTGCAATATCAAGGAAGAGGAAAAGGATGACAGCCCTTGGTATCAAGATATATTACGA
*
30900185 TATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGACGACT
131 TATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGAAGACT
*
30900250 AGCCATTGATTATGTTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTAA
196 AGCCATTGATTATATTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTAA
*
30900315 GATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTTCATGAGGGTATTTGCGGAACG
261 GATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTCCATGAGGGTATTTGCGGAACG
*
30900380 CATGCTAGTGGTTTCTCAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGTT
326 CATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGTT
* *
30900436 CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATTTATGAAACCCTAG
1 CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
*
30900501 CTCATTGTTGCAATATCAAGGAAG-GGAAAAAGGATGATAGCCCTTGGTATCAAGATATATTACG
66 CTCATTGTTGCAATATCAAGGAAGAGG-AAAAGGATGACAGCCCTTGGTATCAAGATATATTACG
* *
30900565 ATATTTGAAGAATCGTGAATATCCTGACCAGGCAGCTGAGAATGATAAGAGGACTCTGAGAAGAC
130 ATATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGAAGAC
*
30900630 TAGCCATTGATTATATTTTAGATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTA
195 TAGCCATTGATTATATTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTA
* *
30900695 AGATGTGTGGACGCTGTGGAGGCTAAAAAAGTTTTGGAGGAAGTCCATGAGGGTATTTGCGGAAC
260 AGATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTCCATGAGGGTATTTGCGGAAC
30900760 GCATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGT
325 GCATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGT
30900816 CCACTATAGA
Statistics
Matches: 365, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
380 2 0.01
381 363 0.99
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (381 bp):
CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
CTCATTGTTGCAATATCAAGGAAGAGGAAAAGGATGACAGCCCTTGGTATCAAGATATATTACGA
TATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGAAGACT
AGCCATTGATTATATTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTAA
GATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTCCATGAGGGTATTTGCGGAACG
CATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGTT
Found at i:30903162 original size:44 final size:43
Alignment explanation
Indices: 30902982--30903282 Score: 157
Period size: 44 Copynumber: 6.8 Consensus size: 43
30902972 ACAGATTAGC
* * * *
30902982 GAAGATAGCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAAATC
1 GAAGA-AGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* * * *
30903026 GAAGACGACAAATCTTATCTTCCC-AAGCTAATAG-GGAAGCAGATT
1 GAAGAAG-TAGATCTTATC-TCCCTAAGC-AGTAGTGG-AGCAGATT
* * * * ** * * *
30903071 TAAGCCACTA-ATCCTATCTCCCTGTGCAGCAGTGGAGTAGGTT
1 GAAG-AAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
** *
30903114 GAAGAATGTAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGAA-GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* *
30903158 GAAGACAGT-GAATCTTATCT-TCTCAAGGTAGTAG-GGAAGCAGATT
1 GAAGA-AGTAG-ATCTTATCTCCCT-AA-GCAGTAGTGG-AGCAGATT
* * * * * *
30903203 TAAGCCACTA-ATCCTATCTCCCTGAGCAGTAGTGGAGTAGATT
1 GAAG-AAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* *
30903246 AAAGAATGTAGATCTTGTCTCCCTAAGCAGTAGTGGA
1 GAAGAA-GTAGATCTTATCTCCCTAAGCAGTAGTGGA
30903283 ATAGATAAAA
Statistics
Matches: 188, Mismatches: 49, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
42 2 0.01
43 40 0.21
44 107 0.57
45 39 0.21
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAGAAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
Found at i:30903219 original size:132 final size:131
Alignment explanation
Indices: 30902999--30903511 Score: 670
Period size: 132 Copynumber: 3.9 Consensus size: 131
30902989 GCAGATCCTA
* * * * *
30902999 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGACAAATCTTATCTTCCCAAGCTAATAGGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
*
30903064 GCAGATTTAAGCCACTAATCCTATCTCCCTGTGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCT
66 GCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCT
30903129 GG
131 -G
* * *
30903131 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-AGTGAATCTTATCTTCTCAAGGTAGTAGGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGA-CGAATCTTATCTTCCCAAGGTAGTAGGGA
* * *
30903195 AGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGTAGTGGAGTAGATTAAAGAATGTAGATC
65 AGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATC
30903260 TTG
130 -TG
** * * * * *
30903263 TCTCCCTAAGCAGTAGTGGAATAGATAAAAAAAATGGCGAATCTTATCTTTCCAAGGTAGTAGGG
1 TCTCCCTAAGCAGTAGTGGAGCAGAT--CAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGG
* * * * *
30903328 AAGCAGATTTAAGCCACCAATCCTATTTCCCTGAGCAGGAGTGGAGTAGGTTGAAGATTGCAGAT
64 AAGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGAT
30903393 CATG
129 C-TG
* * *
30903397 TTTCCTTGAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
* * * *
30903462 GCAGATTTAGGTCACT-AGCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTT
66 GCAGATTTAAGCCACTAATCC-TATCTCCCTGAGCAGCAGTGGAGTAGGTT
30903512 AAAAATTACA
Statistics
Matches: 330, Mismatches: 45, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
131 4 0.01
132 215 0.65
133 1 0.00
134 110 0.33
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (131 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
GCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCT
G
Found at i:30903535 original size:266 final size:266
Alignment explanation
Indices: 30903036--30903538 Score: 712
Period size: 266 Copynumber: 1.9 Consensus size: 266
30903026 GAAGACGACA
* *
30903036 AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACTAATCCTATCTCCCTGTGCAGC
1 AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGC
* *
30903101 AGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG
66 AGTGGAGTAGGTTGAAGAATGCAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAG
* * *
30903166 TGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCA
131 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGCCTATCTCCCTGAGCA
* *
30903231 GTAGTGGAGTAGATTAAAGAATGTAGATCTTGTCTCCCTAAGCAGTAGTGGAATAGATAAAAAAA
196 GCAGTGGAGTAGATTAAAGAATGTAGATCTTATCTCCCTAAGCAGTAGTGGAATAGATAAAAAAA
30903296 ATGGCG
261 ATGGCG
* * * * *
30903302 AATCTTATCTTTCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATTTCCCTGAGCAGG
1 AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGC
* * * *
30903367 AGTGGAGTAGGTTGAAGATTGCAGATCAT-GTTTCCTTGAGCAGTAGTGGAGCAGATCAAAGAC-
66 AGTGGAGTAGGTTGAAGAATGCAGATC-TGGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACA
* * *
30903430 GACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAGGTCACT-AGCCTTATCTCTCTGA
130 G-CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGCC-TATCTCCCTGA
*
30903494 GCAGCAGTGGAGTAGGTTAAA-AAT-TACAGAT-TCTATCTCCCTAAG
193 GCAGCAGTGGAGTAGATTAAAGAATGT--AGATCT-TATCTCCCTAAG
30903539 TTGCAGTGGA
Statistics
Matches: 209, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
264 1 0.00
265 8 0.04
266 199 0.95
267 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (266 bp):
AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGC
AGTGGAGTAGGTTGAAGAATGCAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAG
CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGCCTATCTCCCTGAGCA
GCAGTGGAGTAGATTAAAGAATGTAGATCTTATCTCCCTAAGCAGTAGTGGAATAGATAAAAAAA
ATGGCG
Found at i:30904874 original size:13 final size:13
Alignment explanation
Indices: 30904852--30904883 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30904842 GGCGTTTCAA
*
30904852 TTATATTTATAAT
1 TTATACTTATAAT
30904865 TTATACTTATAAT
1 TTATACTTATAAT
30904878 TTATAC
1 TTATAC
30904884 ATATTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATACTTATAAT
Found at i:30916712 original size:48 final size:49
Alignment explanation
Indices: 30916656--30916748 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
30916646 GGAGTCCTAA
* * *
30916656 CCAAATGAGT-AG-GAAGAAACAAAGAAAATGATAATCCAGCTATGGCAG
1 CCAAATGAGTGAGAGAA-AAACAAAGAAAATAAAAATCCAACTATGGCAG
*
30916704 CCAAATGAGTGAGAGAAAAACAAAGGAAATAAAAATCCAACTATG
1 CCAAATGAGTGAGAGAAAAACAAAGAAAATAAAAATCCAACTATG
30916749 TTATTAACGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
48 10 0.26
49 26 0.67
50 3 0.08
ACGTcount: A:0.52, C:0.14, G:0.20, T:0.14
Consensus pattern (49 bp):
CCAAATGAGTGAGAGAAAAACAAAGAAAATAAAAATCCAACTATGGCAG
Found at i:30923923 original size:15 final size:15
Alignment explanation
Indices: 30923903--30923933 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30923893 TATTCGATGT
30923903 ATGATCACTCAATTA
1 ATGATCACTCAATTA
*
30923918 ATGATCACTCGATTA
1 ATGATCACTCAATTA
30923933 A
1 A
30923934 GCCATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (15 bp):
ATGATCACTCAATTA
Found at i:30941385 original size:21 final size:18
Alignment explanation
Indices: 30941361--30941403 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30941351 TTCTCATTTT
*
30941361 CAACAACTTCTTCTT-TAG
1 CAACAACTTCCTCTTCT-G
30941379 CAACAACTTCCTCTTCTG
1 CAACAACTTCCTCTTCTG
30941397 CAACAAC
1 CAACAAC
30941404 AACTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.30, C:0.35, G:0.05, T:0.30
Consensus pattern (18 bp):
CAACAACTTCCTCTTCTG
Found at i:30944818 original size:22 final size:21
Alignment explanation
Indices: 30944750--30944823 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
30944740 CAGTAAAGCT
* *
30944750 GCCAGTAACCAGAATGGCTAAGA
1 GCCA-TAAACAGAATGACTAA-A
*
30944773 GCCATAAACAGGAT-AGCTATAA
1 GCCATAAACAGAATGA-CTA-AA
*
30944795 GCTATAAACAGAATGACTACAA
1 GCCATAAACAGAATGACTA-AA
30944817 GCCATAA
1 GCCATAA
30944824 GTACAGTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
22 35 0.85
23 6 0.15
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (21 bp):
GCCATAAACAGAATGACTAAA
Found at i:30944870 original size:32 final size:32
Alignment explanation
Indices: 30944815--30945014 Score: 231
Period size: 32 Copynumber: 6.3 Consensus size: 32
30944805 GAATGACTAC
* * *
30944815 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
30944846 AAGCCATAAGTAGTGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
30944878 CAGCCATTAGTAATAGTAGTATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
30944910 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
30944942 TAGCCATCAGTAATGGTAATATGATCGGTACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* ** *
30944974 CAGTAATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
30945006 AAGCCATCA
1 AAGCCATCA
30945015 ATAACATTGC
Statistics
Matches: 142, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 11 0.08
32 131 0.92
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:30944906 original size:64 final size:64
Alignment explanation
Indices: 30944815--30945014 Score: 258
Period size: 64 Copynumber: 3.1 Consensus size: 64
30944805 GAATGACTAC
* * *
30944815 AAGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATAAGTAGTGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
* * * *
30944878 CAGCCATTAGTAATAGTAGTATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
* * * * * ** *
30944942 TAGCCATCAGTAATGGTAATATGATCGGTACACAGTAATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
30945006 AAGCCATCA
1 AAGCCATCA
30945015 ATAACATTGC
Statistics
Matches: 118, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 9 0.08
64 109 0.92
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (64 bp):
AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
Found at i:30944997 original size:96 final size:95
Alignment explanation
Indices: 30944815--30945014 Score: 274
Period size: 96 Copynumber: 2.1 Consensus size: 95
30944805 GAATGACTAC
* * *
30944815 AAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATAAGTAGTGGTAATATGATCGGCACACA
1 AAGCCATCAGTACAGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACACA
* * * *
30944880 GCCATTAGTAATAGTAGTATGATTGGCACA
66 GCAATCAGTAATAGTAATATGATCGGCACA
* * * *
30944910 AAGCCATCAGTAGTAGTAATATGATCGGCACATAGCCATCAGTAATGGTAATATGATCGGTACAC
1 AAGCCATCAGTA-CAGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACAC
* *
30944975 AGTAATCAGTAATGGTAATATGATCGGCACA
65 AGCAATCAGTAATAGTAATATGATCGGCACA
30945006 AAGCCATCA
1 AAGCCATCA
30945015 ATAACATTGC
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 11 0.12
96 80 0.88
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (95 bp):
AAGCCATCAGTACAGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACACA
GCAATCAGTAATAGTAATATGATCGGCACA
Found at i:30945072 original size:26 final size:26
Alignment explanation
Indices: 30945023--30945073 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
30945013 CAATAACATT
** *
30945023 GCAGCAAAGCTGGCAGCAATAGTATC
1 GCAGCAAAGCTACCAGCAACAGTATC
*
30945049 GCAGCAAAGCTACCAGTAACAGTAT
1 GCAGCAAAGCTACCAGCAACAGTAT
30945074 ATGTGGCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGCAACAGTATC
Found at i:30945090 original size:27 final size:26
Alignment explanation
Indices: 30945055--30945120 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
30945045 TATCGCAGCA
*
30945055 AAGCTACCAGTAACAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
*
30945082 AAGCCACCAATAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
*
30945108 AGAGCCACTAGTA
1 A-AGCCACCAGTA
30945121 CATTACTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 29 0.88
28 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:30945235 original size:24 final size:24
Alignment explanation
Indices: 30945199--30945287 Score: 117
Period size: 24 Copynumber: 3.7 Consensus size: 24
30945189 AAACAGTCAT
30945199 ACAAATCAATCATTTAAATCACAG
1 ACAAATCAATCATTTAAATCACAG
* * * *
30945223 ACAAATCAGTCATTTACATCTCGG
1 ACAAATCAATCATTTAAATCACAG
*
30945247 ACAAATCAATCATTTACATCACAGG
1 ACAAATCAATCATTTAAATCACA-G
30945272 A-AAATCAATCATTTAA
1 ACAAATCAATCATTTAA
30945288 CTCTAAGGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 54 0.96
25 2 0.04
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (24 bp):
ACAAATCAATCATTTAAATCACAG
Found at i:30945323 original size:27 final size:27
Alignment explanation
Indices: 30945305--30945745 Score: 449
Period size: 27 Copynumber: 16.4 Consensus size: 27
30945295 GGGCAAAAAA
* *
30945305 GTCATTTTACCCTACAGGGGAATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
30945332 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
30945359 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30945386 GTCATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
30945413 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30945440 GTCATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
30945467 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
30945494 ATCATTTTACCCTAGAGCAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
30945521 ATCATTCTGCCCTATAGGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
30945548 GTTATTTTACCCTA-AATGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
30945574 GTCATTTTACCCTACAAGAGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * ***
30945601 ATCATTTTAACCTATAGGGGTGCTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
30945628 ATCATTTTACCTTTCAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30945655 GTCATTTTACCGTACAGGGGCATTGCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
30945682 ATCATTTTA-CCAATC-GAGGGTATTTCG
1 GTCATTTTACCCTA-CAG-GGGCATTACG
* * *
30945709 ATCATTTTACCCTTCA-GGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
30945735 GTCATTTTACC
1 GTCATTTTACC
30945746 TTTCAAAGGT
Statistics
Matches: 343, Mismatches: 66, Indels: 11
0.82 0.16 0.03
Matches are distributed among these distances:
26 43 0.13
27 298 0.87
28 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:30945796 original size:80 final size:81
Alignment explanation
Indices: 30945565--30945797 Score: 190
Period size: 80 Copynumber: 2.9 Consensus size: 81
30945555 TACCCTAAAT
* * * * * * **
30945565 GGCATTATGGTCATTTTACCCTAC-AAGAGTATTACGATCATTTTAACCTATAG-GGGT-GCTAC
1 GGCATTACGGTCATTTTACCGTACAAAG-GCATTGCGATCATTTT-ACCAATCGAGGGTATTTA-
* *
30945627 GATCATTTTACCTTTCAGA
63 GATAATTTTACCCTTCAGA
** *
30945646 GGCATTACGGTCATTTTACCGTACAGGGGCATTGCGATCATTTTACCAATCGAGGGTATTTCGAT
1 GGCATTACGGTCATTTTACCGTACAAAGGCATTGCGATCATTTTACCAATCGAGGGTATTTAGAT
*
30945711 CATTTTACCCTTCAG-
66 AATTTTACCCTTCAGA
* * * * ** *
30945726 GGTATTACGGTCATTTTACCTTTCAAAGGTATAT-CGATCATTTTACCTTTTGAGGGTATTCTAG
1 GGCATTACGGTCATTTTACCGTACAAAGGCAT-TGCGATCATTTTACCAATCGAGGGTATT-TAG
30945790 -TAATTTTA
64 ATAATTTTA
30945798 TATTTCGATA
Statistics
Matches: 124, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
80 62 0.50
81 60 0.48
82 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
GGCATTACGGTCATTTTACCGTACAAAGGCATTGCGATCATTTTACCAATCGAGGGTATTTAGAT
AATTTTACCCTTCAGA
Found at i:30945848 original size:43 final size:43
Alignment explanation
Indices: 30945759--30945848 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
30945749 CAAAGGTATA
* * *
30945759 TCGATCATTTTACCTTTTGAGGGTATTCTAGTAATTTTATATT
1 TCGATAATTTTACCTTTTGAGGGTATTCTAGTAATTTTACACT
* *
30945802 TCGATAATTTTATCC-TTTGAGGGTATT-TTGATAATTTTACCCT
1 TCGATAATTTTA-CCTTTTGAGGGTATTCTAG-TAATTTTACACT
30945845 TCGA
1 TCGA
30945849 AGTTATTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.05
43 36 0.90
44 2 0.05
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.49
Consensus pattern (43 bp):
TCGATAATTTTACCTTTTGAGGGTATTCTAGTAATTTTACACT
Found at i:30945855 original size:27 final size:27
Alignment explanation
Indices: 30945798--30945868 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
30945788 AGTAATTTTA
* * *
30945798 TATTTCGATAATTTTATCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTCGAAGG
* *
30945825 TATTTTGATAATTTTACCCTTCGAAGT
1 TATTTCGATAATTTTACCCTTCGAAGG
30945852 TATTTC-AGTAATTTTAC
1 TATTTCGA-TAATTTTAC
30945869 AACCTTTTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTCGAAGG
Done.