Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 6 of 27
Found at i:735371 original size:132 final size:125
Alignment explanation
Indices: 735177--735558 Score: 348
Period size: 132 Copynumber: 3.0 Consensus size: 125
735167 ATGAATATTC
* * ** * *
735177 ATTATTAAATTA-CCTATATTATGAATCACCTTTCATACTGTTTTACTTTTTATCTATTTCTTTA
1 ATTAGTAAATTATCGTATATTATGAATCACCTTTCATACTGTACTAC-TTTTATTTATATCTTTA
*
735241 TTGTTATTGAAGTTTTTATTAAAATTAATATTTAATATTATGTTTTTATATTAAAATTAAT
65 TTATTATTGAAGTTTTTATTAAAATTAATATTTAATATTATGTTTTTATATTAAAATTAAT
* * *
735302 ATTAGTACAACTATAT-GTTTATATATTATGAATCATCTCTCATATTGTACTACTTTATATTTAT
1 ATTAGTA-AA-T-TATCG----TATATTATGAATCACCTTTCATACTGTACTACTTT-TATTTAT
* ** * * * *
735366 ATCTTTACTAACATTGAAATTTTTATTAAAATTAATATTTATTATCATATGTGTTGATATATAAA
58 ATCTTTATTATTATTGAAGTTTTTATTAAAATTAATATTTAATAT--TATGTTTTTATAT-TAAA
*
735431 TATT--C
120 -ATTAAT
* * *
735436 ATTATTAAATTATCG-ATATTATGAATCACCTTTTATACTGTACTACCTTTTATTTA-ATTCTCT
1 ATTAGTAAATTATCGTATATTATGAATCACCTTTCATACTGTACTA-CTTTTATTTATA-TCTTT
* * **
735499 ATTATTATTGAAGTTTTTATTAAAATCAATATTTAATATCA-CATTTT-TATTAAAATTAAT
64 ATTATTATTGAAGTTTTTATTAAAATTAATATTTAATATTATGTTTTTATATTAAAATTAAT
735559 GTTTAATATC
Statistics
Matches: 203, Mismatches: 36, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
121 3 0.01
122 4 0.02
123 3 0.01
124 2 0.01
125 7 0.03
126 3 0.01
127 70 0.34
128 6 0.03
131 6 0.03
132 73 0.36
133 2 0.01
134 17 0.08
135 4 0.02
136 3 0.01
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (125 bp):
ATTAGTAAATTATCGTATATTATGAATCACCTTTCATACTGTACTACTTTTATTTATATCTTTAT
TATTATTGAAGTTTTTATTAAAATTAATATTTAATATTATGTTTTTATATTAAAATTAAT
Found at i:735546 original size:30 final size:30
Alignment explanation
Indices: 735512--735572 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
735502 ATTATTGAAG
735512 TTTTTATTAAAATCAATATTTAATATCACA
1 TTTTTATTAAAATCAATATTTAATATCACA
* *
735542 TTTTTATTAAAATTAATGTTTAATATCACA
1 TTTTTATTAAAATCAATATTTAATATCACA
735572 T
1 T
735573 GCATTTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTTTATTAAAATCAATATTTAATATCACA
Found at i:735729 original size:30 final size:30
Alignment explanation
Indices: 735695--735755 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
735685 ATTATTGAAG
735695 TTTTTATTAAAATCAATATTTAATATCACA
1 TTTTTATTAAAATCAATATTTAATATCACA
* *
735725 TTTTTATTAAAATTAATGTTTAATATCACA
1 TTTTTATTAAAATCAATATTTAATATCACA
735755 T
1 T
735756 GCATTTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTTTATTAAAATCAATATTTAATATCACA
Found at i:735797 original size:183 final size:183
Alignment explanation
Indices: 735484--735839 Score: 685
Period size: 183 Copynumber: 1.9 Consensus size: 183
735474 TGTACTACCT
735484 TTTATTTAATTCTCTATTATTATTGAAGTTTTTATTAAAATCAATATTTAATATCACATTTTTAT
1 TTTATTTAATTCTCTATTATTATTGAAGTTTTTATTAAAATCAATATTTAATATCACATTTTTAT
735549 TAAAATTAATGTTTAATATCACATGCATTTACACATGAATATTCATTATTAAATTATCAACATAT
66 TAAAATTAATGTTTAATATCACATGCATTTACACATGAATATTCATTATTAAATTATCAACATAT
735614 TAAAAAGCAGTAATTTCAAAAAGAAAACAAACAGATAAAAAAAATCACATGCA
131 TAAAAAGCAGTAATTTCAAAAAGAAAACAAACAGATAAAAAAAATCACATGCA
*
735667 TTTATTTAATTCTTTATTATTATTGAAGTTTTTATTAAAATCAATATTTAATATCACATTTTTAT
1 TTTATTTAATTCTCTATTATTATTGAAGTTTTTATTAAAATCAATATTTAATATCACATTTTTAT
*
735732 TAAAATTAATGTTTAATATCACATGCATTTACACATGAATATTCATTATTAAATTATCGACATAT
66 TAAAATTAATGTTTAATATCACATGCATTTACACATGAATATTCATTATTAAATTATCAACATAT
*
735797 TAAAAAGCAGTAATTTCAAAAAGAAAACAAATAGATAAAAAAA
131 TAAAAAGCAGTAATTTCAAAAAGAAAACAAACAGATAAAAAAA
735840 TCTTATAAAT
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 170 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (183 bp):
TTTATTTAATTCTCTATTATTATTGAAGTTTTTATTAAAATCAATATTTAATATCACATTTTTAT
TAAAATTAATGTTTAATATCACATGCATTTACACATGAATATTCATTATTAAATTATCAACATAT
TAAAAAGCAGTAATTTCAAAAAGAAAACAAACAGATAAAAAAAATCACATGCA
Found at i:736089 original size:31 final size:33
Alignment explanation
Indices: 736052--736113 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
736042 CTTAAGATAA
* *
736052 TTATTTAA-A-ATTAACATATATAATAATATTT
1 TTATTTAATATATTAAAATATATAAAAATATTT
*
736083 TTATTTAATATATTAAAATTTATAAAAATAT
1 TTATTTAATATATTAAAATATATAAAAATAT
736114 ATATCAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 8 0.31
32 1 0.04
33 17 0.65
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
TTATTTAATATATTAAAATATATAAAAATATTT
Found at i:736293 original size:26 final size:27
Alignment explanation
Indices: 736249--736300 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
736239 ATTAATTTAT
736249 ATAATTATTTTTTTAATTTTAAAATTC
1 ATAATTATTTTTTTAATTTTAAAATTC
736276 ATAATT-TTTTATTT-ATTTTAAAATT
1 ATAATTATTTT-TTTAATTTTAAAATT
736301 TTGAGTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
ATAATTATTTTTTTAATTTTAAAATTC
Found at i:736875 original size:2 final size:2
Alignment explanation
Indices: 736868--736894 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
736858 AATCAGAGCG
736868 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
736895 GTACAGACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:741270 original size:3 final size:3
Alignment explanation
Indices: 741262--741292 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
741252 ATAAACTAAG
741262 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
741293 CAACACAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:741728 original size:21 final size:21
Alignment explanation
Indices: 741699--741740 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
741689 ATTTTTTTAT
*
741699 ATAATATAA-AATATTTAAAAA
1 ATAAAATAATAAT-TTTAAAAA
741720 ATAAAATAATAATTTTAAAAA
1 ATAAAATAATAATTTTAAAAA
741741 TGTACCGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAATAATAATTTTAAAAA
Found at i:742982 original size:16 final size:18
Alignment explanation
Indices: 742952--742988 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
742942 TTACGGTTGC
*
742952 AAAAAAGCTTGATTT-AA
1 AAAAAAGCATGATTTGAA
742969 AAAAAAGCAT-ATTTGAA
1 AAAAAAGCATGATTTGAA
742986 AAA
1 AAA
742989 TGCTGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAAAAGCATGATTTGAA
Found at i:743114 original size:39 final size:38
Alignment explanation
Indices: 743030--743114 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 38
743020 ATGTCTATCT
* * *
743030 TAAACATGATGTTAGAAAGTAGTTTAATATTAATATATA
1 TAAA-ATGATGTTAGAAAGTAATTTAAAATTAAAATATA
*
743069 TGAAAATGATGTTGGAAAGTAATTTAAAATTAAAATATAA
1 T-AAAATGATGTTAGAAAGTAATTTAAAATTAAAATAT-A
743109 TAAAAT
1 TAAAAT
743115 ATAAAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 35 0.88
40 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
TAAAATGATGTTAGAAAGTAATTTAAAATTAAAATATA
Found at i:743642 original size:18 final size:18
Alignment explanation
Indices: 743621--743669 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
743611 TTATAAGGAA
743621 TTAAAATATATAAAAAAT
1 TTAAAATATATAAAAAAT
*
743639 TTAAAATA-ATAAAAATT
1 TTAAAATATATAAAAAAT
*
743656 TTGAAATATA-AAAA
1 TTAAAATATATAAAA
743670 TAATAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAATATATAAAAAAT
Found at i:743654 original size:16 final size:16
Alignment explanation
Indices: 743621--743670 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
743611 TTATAAGGAA
743621 TTAAAATATATAAAAAAT
1 TTAAAATA-AT-AAAAAT
743639 TTAAAATAATAAAAATT
1 TTAAAATAATAAAAA-T
*
743656 TTGAAAT-ATAAAAAT
1 TTAAAATAATAAAAAT
743671 AATAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.03
16 12 0.40
17 9 0.30
18 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
TTAAAATAATAAAAAT
Found at i:744069 original size:16 final size:15
Alignment explanation
Indices: 744042--744087 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 15
744032 AAGTATACTT
744042 AAAAAT-ATTTTTTA
1 AAAAATAATTTTTTA
744056 AAAAATTAATTTTTTTA
1 AAAAA-TAA-TTTTTTA
744073 AAAAATAATTTTTTA
1 AAAAATAATTTTTTA
744088 TATATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.17
15 8 0.28
16 4 0.14
17 12 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAAATAATTTTTTA
Found at i:744246 original size:28 final size:29
Alignment explanation
Indices: 744177--744263 Score: 104
Period size: 28 Copynumber: 3.0 Consensus size: 29
744167 TTAATTTATG
*
744177 TTAAAAATTTATTAAAATATAGATTAAAAAA
1 TTAAAAATTTATTTAAATATA-A-TAAAAAA
* *
744208 TTAAAATTTTATTTAAATATAATAAAATA
1 TTAAAAATTTATTTAAATATAATAAAAAA
* *
744237 -TAAAAATTTATGTAAATAAAATAAAAA
1 TTAAAAATTTATTTAAATATAATAAAAA
744264 TTTTAATAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 23 0.47
29 6 0.12
30 1 0.02
31 19 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAAAATTTATTTAAATATAATAAAAAA
Found at i:744280 original size:28 final size:26
Alignment explanation
Indices: 744219--744280 Score: 61
Period size: 28 Copynumber: 2.2 Consensus size: 26
744209 TAAAATTTTA
*
744219 TTTAAATATAATAAAATATAAAAATT
1 TTTAAATAAAATAAAATATAAAAATT
* *
744245 TATGTAAATAAAATAAAAATTTTAATAATT
1 T-T-TAAATAAAAT-AAAA-TATAAAAATT
744275 TTTAAA
1 TTTAAA
744281 AAATTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 13 0.45
29 5 0.17
30 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TTTAAATAAAATAAAATATAAAAATT
Found at i:746213 original size:20 final size:19
Alignment explanation
Indices: 746197--746232 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
746187 TATAAATCAG
746197 ATATAAAATTAAA-AAATC
1 ATATAAAATTAAATAAATC
*
746215 ATGTAAAATTAAATAAAT
1 ATATAAAATTAAATAAAT
746233 TAATTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
ATATAAAATTAAATAAATC
Found at i:746258 original size:25 final size:25
Alignment explanation
Indices: 746220--746280 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
746210 AAATCATGTA
746220 AAAT-TAA-ATAAATTAATTTT-AT
1 AAATATAATATAAATTAATTTTCAT
*
746242 ATTAATAT-ATATAAATTCATTTTCAT
1 A--AATATAATATAAATTAATTTTCAT
746268 AAATATAATATAA
1 AAATATAATATAA
746281 TATAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 1 0.03
24 9 0.28
25 19 0.59
26 3 0.09
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATATAATATAAATTAATTTTCAT
Found at i:746997 original size:2 final size:2
Alignment explanation
Indices: 746990--747023 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
746980 TGTTGATAAG
*
746990 CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
747024 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:747216 original size:2 final size:2
Alignment explanation
Indices: 747209--747242 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
747199 GTTAGATTCC
747209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
747243 TTATGTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:749279 original size:14 final size:15
Alignment explanation
Indices: 749253--749281 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
749243 AATTAATAAT
749253 ATTTTATAATTTTAA
1 ATTTTATAATTTTAA
749268 ATTTTA-AATTTTAA
1 ATTTTATAATTTTAA
749282 TAATACTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTATAATTTTAA
Found at i:749483 original size:18 final size:18
Alignment explanation
Indices: 749457--749491 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
749447 AAATGTAATA
749457 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
*
749475 ATTTTTATATTTTATTA
1 ATTTATATATTTTATTA
749492 AATATGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:749580 original size:32 final size:31
Alignment explanation
Indices: 749509--749588 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
749499 TCATATTTAA
* *
749509 AATATTTATATGATATATATTTTAATAAATT
1 AATATTTATATTATATAAATTTTAATAAATT
**
749540 AATAATTTATATTATATAAATTTTAATATGTT
1 AAT-ATTTATATTATATAAATTTTAATAAATT
*
749572 ATATATTTATAATATAT
1 A-ATATTTATATTATAT
749589 TTTTTTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.07
32 37 0.88
33 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
AATATTTATATTATATAAATTTTAATAAATT
Found at i:749601 original size:20 final size:21
Alignment explanation
Indices: 749573--749611 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
749563 TAATATGTTA
749573 TATATTTATAATATATTTTTT
1 TATATTTATAATATATTTTTT
*
749594 TATA-TTATATTATATTTT
1 TATATTTATAATATATTTT
749612 AATTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATTTATAATATATTTTTT
Found at i:749606 original size:25 final size:23
Alignment explanation
Indices: 749570--749621 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
749560 TTTTAATATG
*
749570 TTATATATTTATAATATATTTTT
1 TTATATATTTATAATATAATTTT
* *
749593 TTATATTATATTATATTTTAATTTT
1 TTATA-TAT-TTATAATATAATTTT
749618 TTAT
1 TTAT
749622 GTAGATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 3 0.12
25 16 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATATATTTATAATATAATTTT
Found at i:750257 original size:20 final size:21
Alignment explanation
Indices: 750220--750259 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
750210 ATTATGTTTT
750220 TTTATAATTAAACAATAAATA
1 TTTATAATTAAACAATAAATA
750241 TTTA-AATTAAA-ACATAAAT
1 TTTATAATTAAACA-ATAAAT
750260 TACTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTATAATTAAACAATAAATA
Found at i:751034 original size:17 final size:17
Alignment explanation
Indices: 751009--751069 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
750999 ATAACTATTG
*
751009 TTAACATTATCTAGTTT
1 TTAATATTATCTAGTTT
* *
751026 TTAATATTATC-ACATTA
1 TTAATATTATCTA-GTTT
*
751043 TCAA-ATTATCTAGTTT
1 TTAATATTATCTAGTTT
751059 TTAATATTATC
1 TTAATATTATC
751070 ATATTATCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 12 0.35
17 22 0.65
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (17 bp):
TTAATATTATCTAGTTT
Found at i:751051 original size:33 final size:33
Alignment explanation
Indices: 751014--751080 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
751004 TATTGTTAAC
751014 ATTATCTAGTTTTTAATATTATCACATTATCAA
1 ATTATCTAGTTTTTAATATTATCACATTATCAA
*
751047 ATTATCTAGTTTTTAATATTATCATATTATCAA
1 ATTATCTAGTTTTTAATATTATCACATTATCAA
751080 A
1 A
751081 GGATATATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTATCTAGTTTTTAATATTATCACATTATCAA
Found at i:753480 original size:2 final size:2
Alignment explanation
Indices: 753473--753503 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
753463 TCTTAATAAA
753473 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
753504 TGTCTCGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:755942 original size:2 final size:2
Alignment explanation
Indices: 755935--755966 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
755925 CAATGGTTGC
755935 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
755967 CGTGGCCGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:756667 original size:21 final size:18
Alignment explanation
Indices: 756615--756663 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
756605 TATTAGGTAT
**
756615 AAAAAATTAAATTAAAGAA
1 AAAAAATTAAA-TATTGAA
756634 AAAAAATTAAATATTGAA
1 AAAAAATTAAATATTGAA
756652 AGAAAAATTAAA
1 A-AAAAATTAAA
756664 AATAAGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (18 bp):
AAAAAATTAAATATTGAA
Found at i:757634 original size:17 final size:17
Alignment explanation
Indices: 757612--757667 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 17
757602 TAATATTTCG
*
757612 TTATATAAAAAATATTT
1 TTATATAAAAATTATTT
757629 TTATATTTAAAATATTATTT
1 TTATA--TAAAA-ATTATTT
*
757649 TTATAT-TAAATTATTT
1 TTATATAAAAATTATTT
757665 TTA
1 TTA
757668 AAATCATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 10 0.29
17 7 0.21
18 1 0.03
19 5 0.15
20 11 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATATAAAAATTATTT
Found at i:757639 original size:19 final size:20
Alignment explanation
Indices: 757617--757655 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
757607 TTTCGTTATA
757617 TAAAA-AATATTTTTATATT
1 TAAAATAATATTTTTATATT
*
757636 TAAAATATTATTTTTATATT
1 TAAAATAATATTTTTATATT
757656 AAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAAATAATATTTTTATATT
Found at i:757654 original size:28 final size:28
Alignment explanation
Indices: 757623--757720 Score: 67
Period size: 30 Copynumber: 3.5 Consensus size: 28
757613 TATATAAAAA
757623 ATATTTTTATATTTAAAATATTATTTTT
1 ATATTTTTATATTTAAAATATTATTTTT
* * ** **
757651 ATATTAAATTATTTTTAAAATCATTAAATAA
1 ATATT--TTTATATTTAAAAT-ATTATTTTT
*
757682 ATATATTT-T-TTTAAAA-ATTATTTTT
1 ATATTTTTATATTTAAAATATTATTTTT
*
757707 AAATTTTTTATATT
1 ATA-TTTTTATATT
757721 ATTTATTACT
Statistics
Matches: 50, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
25 7 0.14
26 4 0.08
27 8 0.16
28 8 0.16
29 2 0.04
30 12 0.24
31 9 0.18
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (28 bp):
ATATTTTTATATTTAAAATATTATTTTT
Found at i:757657 original size:19 final size:19
Alignment explanation
Indices: 757612--757663 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
757602 TAATATTTCG
*
757612 TTATA-TAAAA-AATATTT
1 TTATATTAAAATATTATTT
757629 TTATATTTAAAATATTATTT
1 TTATA-TTAAAATATTATTT
*
757649 TTATATTAAATTATT
1 TTATATTAAAATATT
757664 TTTAAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
19 14 0.47
20 11 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATATTAAAATATTATTT
Found at i:758210 original size:12 final size:11
Alignment explanation
Indices: 758194--758228 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
758184 TCGCTACACC
758194 TTTTTCTTTTT
1 TTTTTCTTTTT
758205 TCTTTTCTTTTT
1 T-TTTTCTTTTT
758217 TTTTT-TTTTT
1 TTTTTCTTTTT
758227 TT
1 TT
758229 ACAATCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.30
11 5 0.22
12 11 0.48
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:772315 original size:26 final size:26
Alignment explanation
Indices: 772286--772346 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
772276 TTAATATTTA
*
772286 AAATAATAATATTTTTAAAAATAT-AT
1 AAATAATAATA-TATTAAAAATATAAT
* *
772312 AAATATTAATATATTAATAATATAAT
1 AAATAATAATATATTAAAAATATAAT
772338 AAATAATAA
1 AAATAATAA
772347 AATAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATAATAATATATTAAAAATATAAT
Found at i:772322 original size:14 final size:14
Alignment explanation
Indices: 772305--772346 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
772295 TATTTTTAAA
*
772305 AATATATAAATATT
1 AATATATAAATAAT
*
772319 AATATATTAATAAT
1 AATATATAAATAAT
772333 -ATA-ATAAATAAT
1 AATATATAAATAAT
772345 AA
1 AA
772347 AATAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 8 0.33
13 4 0.17
14 12 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATATAAATAAT
Found at i:775990 original size:12 final size:12
Alignment explanation
Indices: 775975--776037 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
775965 TATTTTTATT
775975 TAAAT-TTAATTA
1 TAAATATTAA-TA
775987 TAAATATTAATA
1 TAAATATTAATA
* *
775999 TAAATCTT-TTA
1 TAAATATTAATA
*
776010 -AAATATTAATT
1 TAAATATTAATA
* *
776021 TAAACAATAATA
1 TAAATATTAATA
776033 TAAAT
1 TAAAT
776038 TTTTAAGTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
12 26 0.67
13 4 0.10
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAATATTAATA
Found at i:776033 original size:34 final size:33
Alignment explanation
Indices: 775976--776043 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 33
775966 ATTTTTATTT
* *
775976 AAATTTAATTATAAATATTAATATAAATCTTTTA
1 AAATTTAATTATAAACAATAATATAAAT-TTTTA
776010 AAATATTAATT-TAAACAATAATATAAATTTTTA
1 AAAT-TTAATTATAAACAATAATATAAATTTTTA
776043 A
1 A
776044 GTCATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 6 0.19
34 19 0.61
35 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (33 bp):
AAATTTAATTATAAACAATAATATAAATTTTTA
Found at i:776258 original size:9 final size:10
Alignment explanation
Indices: 776237--776265 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
776227 AATCAAATCG
776237 AATTAATATT
1 AATTAATATT
776247 AATTAA-ATT
1 AATTAATATT
776256 AATTAATATT
1 AATTAATATT
776266 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATTAATATT
Found at i:776849 original size:19 final size:21
Alignment explanation
Indices: 776825--776870 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
776815 AATATTTTTT
776825 AAAATTATTA-T-ATATATTA
1 AAAATTATTACTAATATATTA
*
776844 AAAATTTTTATCTAATATATTA
1 AAAATTATTA-CTAATATATTA
776866 AAAAT
1 AAAAT
776871 AATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
21 1 0.04
22 13 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATTATTACTAATATATTA
Found at i:777820 original size:20 final size:19
Alignment explanation
Indices: 777795--777854 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
777785 GTTGATTGTT
777795 TAATATATTATAAATTTATA
1 TAATATATTAT-AATTTATA
*
777815 TAATATTTTATATATTT-TA
1 TAATATATTATA-ATTTATA
*
777834 TATTTATATTAT-ATTTATA
1 TA-ATATATTATAATTTATA
777853 TA
1 TA
777855 TTTAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.12
19 9 0.26
20 21 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATATATTATAATTTATA
Found at i:777847 original size:11 final size:11
Alignment explanation
Indices: 777817--777900 Score: 79
Period size: 11 Copynumber: 8.1 Consensus size: 11
777807 AATTTATATA
* *
777817 ATATTTTATAT
1 ATATTATATTT
*
777828 ATTTTATATTT
1 ATATTATATTT
777839 ATATTATA-TT
1 ATATTATATTT
777849 -TA-TATATTT
1 ATATTATATTT
* *
777858 AAATTATTTTT
1 ATATTATATTT
777869 ATATTATATTT
1 ATATTATATTT
777880 ATATTAT-TTT
1 ATATTATATTT
*
777890 TTA-TATATTT
1 ATATTATATTT
777900 A
1 A
777901 AAATATTATG
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
8 4 0.07
9 7 0.12
10 11 0.19
11 37 0.63
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATATTATATTT
Found at i:777852 original size:17 final size:17
Alignment explanation
Indices: 777821--777884 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
777811 TATATAATAT
777821 TTTATA-TAT-TTTATA
1 TTTATATTATATTTATA
777836 TTTATATTATATTTATA
1 TTTATATTATATTTATA
* *
777853 --TAT-TTA-AATTATT
1 TTTATATTATATTTATA
777866 TTTATATTATATTTATA
1 TTTATATTATATTTATA
777883 TT
1 TT
777885 ATTTTTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 5 0.13
14 3 0.08
15 12 0.31
16 6 0.15
17 13 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATATTATATTTATA
Found at i:777872 original size:30 final size:31
Alignment explanation
Indices: 777831--777888 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
777821 TTTATATATT
777831 TTATATTTATATTATATTTATA-TATTTAAA
1 TTATATTTATATTATATTTATATTATTTAAA
*
777861 TTATTTTTATATTATATTTATATTATTT
1 TTATATTTATATTATATTTATATTATTT
777889 TTTATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTATATTTATATTATATTTATATTATTTAAA
Found at i:777916 original size:36 final size:34
Alignment explanation
Indices: 777793--777919 Score: 107
Period size: 34 Copynumber: 3.6 Consensus size: 34
777783 TTGTTGATTG
* *
777793 TTTAATATATTATAAATTTATATAATATTTTATATA
1 TTTAATATATTAT--ATTTATATTATTTTTTATATA
* * *
777829 TTTTATAT-TTATA-TTATATTTATATATTTAAATTA
1 TTTAATATATTATATTTATA-TTAT-TTTTTATA-TA
*
777864 TTT-TTATATTATATTTATATTATTTTTTATATA
1 TTTAATATATTATATTTATATTATTTTTTATATA
*
777897 TTTAAAATATTATGAATTTATAT
1 TTTAATATATTAT--ATTTATAT
777920 AAATTTGTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
32 5 0.07
33 9 0.12
34 21 0.29
35 18 0.25
36 20 0.27
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TTTAATATATTATATTTATATTATTTTTTATATA
Found at i:777918 original size:42 final size:40
Alignment explanation
Indices: 777830--777919 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 40
777820 TTTTATATAT
* **
777830 TTTATATTTATATTATATTTATATATTTAAATTATTTTTA
1 TTTATATTTATATTATATTTATATATTTAAAATATTTGAA
*
777870 TATTATATTTATATTATTTTTTATATATTTAAAATATTATGAA
1 T-TTATATTTATATTA-TATTTATATATTTAAAATATT-TGAA
777913 TTTATAT
1 TTTATAT
777920 AAATTTGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.02
41 14 0.33
42 25 0.58
43 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTATATTTATATTATATTTATATATTTAAAATATTTGAA
Found at i:778588 original size:13 final size:13
Alignment explanation
Indices: 778556--778628 Score: 53
Period size: 13 Copynumber: 5.6 Consensus size: 13
778546 TCATACCGTA
*
778556 TTTATATTA-CTT
1 TTTATATTATATT
778568 TTTA-ATTATATT
1 TTTATATTATATT
778580 TTTATATTATATT
1 TTTATATTATATT
**
778593 CATATCA-TATATT
1 TTTAT-ATTATATT
*
778606 AATTTATTTTATATT
1 --TTTATATTATATT
*
778621 TATATATT
1 TTTATATT
778629 TATAATAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
11 4 0.09
12 10 0.21
13 23 0.49
14 1 0.02
15 9 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATATTATATT
Found at i:778684 original size:19 final size:19
Alignment explanation
Indices: 778659--778704 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
778649 ATTAATTTAT
*
778659 TTATTTAAA-ATCTTAAAA
1 TTATTTAAATATATTAAAA
*
778677 TATATTTAAATATATTATAA
1 T-TATTTAAATATATTAAAA
778697 TTATTTAA
1 TTATTTAA
778705 TAAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAAATATATTAAAA
Found at i:778743 original size:12 final size:12
Alignment explanation
Indices: 778711--778743 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
778701 TTAATAAAAT
778711 TTAATTTAA-AA
1 TTAATTTAACAA
*
778722 TTAATATAACAA
1 TTAATTTAACAA
778734 TTAATTTAAC
1 TTAATTTAAC
778744 TAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAATTTAACAA
Found at i:779111 original size:17 final size:17
Alignment explanation
Indices: 779091--779172 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 17
779081 ATTTTTATAA
779091 AATTTGTTT-TAAAAAAT
1 AATTT-TTTATAAAAAAT
*
779108 AATTTTTTATATAAAAT
1 AATTTTTTATAAAAAAT
*
779125 AATTTAATTAATAAAAAAT
1 AATTT--TTTATAAAAAAT
*
779144 AAAATATTTTT-TTAAAAAT
1 --AAT-TTTTTATAAAAAAT
779163 AATTTTTTAT
1 AATTTTTTAT
779173 TTAAAAGTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
16 8 0.15
17 21 0.40
19 17 0.32
20 2 0.04
21 3 0.06
22 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (17 bp):
AATTTTTTATAAAAAAT
Found at i:779320 original size:13 final size:13
Alignment explanation
Indices: 779304--779329 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
779294 ATATTAATAT
779304 AAAATAATTTTAA
1 AAAATAATTTTAA
779317 AAAATAATTTTAA
1 AAAATAATTTTAA
779330 TATTAATATT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATAATTTTAA
Found at i:779438 original size:17 final size:19
Alignment explanation
Indices: 779404--779456 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
779394 AAATAAATTA
779404 TTAATATAAAT-A-ATTATT
1 TTAATA-AAATGATATTATT
779422 TTAATAAAA-G-TATTA-T
1 TTAATAAAATGATATTATT
779438 TTAATAAAATGATATTATT
1 TTAATAAAATGATATTATT
779457 ATTTTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
16 10 0.33
17 8 0.27
18 11 0.37
19 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
TTAATAAAATGATATTATT
Found at i:779440 original size:16 final size:18
Alignment explanation
Indices: 779400--779456 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 18
779390 TTTAAAATAA
779400 ATTA-TTAATATAAAT-A-
1 ATTATTTAATA-AAATGAT
779416 ATTATTTTAATAAAA-G-T
1 ATTA-TTTAATAAAATGAT
779433 ATTATTTAATAAAATGAT
1 ATTATTTAATAAAATGAT
779451 ATTATT
1 ATTATT
779457 ATTTTAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 14 0.40
17 8 0.23
18 13 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
ATTATTTAATAAAATGAT
Found at i:779592 original size:13 final size:15
Alignment explanation
Indices: 779569--779608 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
779559 TATACTTTAT
779569 AAATATTTAATA-AA
1 AAATATTTAATATAA
779583 AAAT-TTTAATATAA
1 AAATATTTAATATAA
*
779597 AAA-ATTAAATAT
1 AAATATTTAATAT
779609 TTTAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATTTAATATAA
Found at i:779910 original size:15 final size:14
Alignment explanation
Indices: 779890--779931 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
779880 TAATATTTTA
779890 AATATTTACATAATT
1 AATATTTA-ATAATT
779905 AATATTTTAATAATT
1 AATA-TTTAATAATT
779920 AATAATTTAATA
1 AAT-ATTTAATA
779932 TTTGTGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAATAATT
Found at i:779929 original size:23 final size:24
Alignment explanation
Indices: 779880--779934 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
779870 AGTAAGTATA
*
779880 TAATATTTTAAATATTTACATAAT
1 TAATATTTTAAATAATTACATAAT
779904 TAATATTTT-AATAATTA-ATAATT
1 TAATATTTTAAATAATTACATAA-T
779927 TAATATTT
1 TAATATTT
779935 GTGTTCACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATATTTTAAATAATTACATAAT
Found at i:792213 original size:17 final size:16
Alignment explanation
Indices: 792183--792250 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 16
792173 TATAAAAAAT
* *
792183 ATATATTATTTTTATA
1 ATATAATATATTTATA
*
792199 ATATAATTATATTTAAA
1 ATATAA-TATATTTATA
*
792216 ATATTATATATTATATA
1 ATATAATATATT-TATA
* * *
792233 TTTTAATATATTAATA
1 ATATAATATATTTATA
792249 AT
1 AT
792251 TTTTACATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
16 15 0.38
17 25 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATAATATATTTATA
Found at i:792243 original size:10 final size:10
Alignment explanation
Indices: 792228--792300 Score: 53
Period size: 11 Copynumber: 7.2 Consensus size: 10
792218 ATTATATATT
792228 ATATATTTTA
1 ATATATTTTA
792238 ATATA--TTA
1 ATATATTTTA
792246 ATA-ATTTTTA
1 ATATA-TTTTA
*
792256 CATAAATTTTA
1 -ATATATTTTA
792267 ATATATTTATA
1 ATATATTT-TA
* *
792278 TTATCTTTATA
1 ATATATTT-TA
*
792289 ATACATTTTA
1 ATATATTTTA
792299 AT
1 AT
792301 TTTTTTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
7 1 0.02
8 6 0.12
10 19 0.37
11 24 0.47
12 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATATTTTA
Found at i:792252 original size:17 final size:17
Alignment explanation
Indices: 792221--792279 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
792211 TTAAAATATT
792221 ATATATTATATATTTTA
1 ATATATTATATATTTTA
792238 ATATATTA-ATAATTTT-
1 ATATATTATAT-ATTTTA
*
792254 -TACA-TA-A-ATTTTA
1 ATATATTATATATTTTA
792267 ATATATT-TATATT
1 ATATATTATATATT
792280 ATCTTTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
12 5 0.15
14 6 0.18
15 5 0.15
16 5 0.15
17 13 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATATTATATATTTTA
Found at i:792289 original size:29 final size:28
Alignment explanation
Indices: 792215--792289 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 28
792205 TTATATTTAA
*
792215 AATATTATATATTATATATTTTAATATATT
1 AATATTAT-T-TTATAAATTTTAATATATT
*
792245 AATAATT-TTTACATAAATTTTAATATATT
1 AAT-ATTATTT-TATAAATTTTAATATATT
*
792274 TATATTATCTTTATAA
1 AATATTAT-TTTATAA
792290 TACATTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
28 4 0.11
29 24 0.65
30 6 0.16
31 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.55
Consensus pattern (28 bp):
AATATTATTTTATAAATTTTAATATATT
Found at i:793193 original size:27 final size:29
Alignment explanation
Indices: 793143--793210 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
793133 ACAATTTAAG
793143 TTATTATTTATAATAAAAAATAAA-AATT
1 TTATTATTTATAATAAAAAATAAATAATT
* **
793171 TTATT-TTTATAATTAAATTTAAATAATTT
1 TTATTATTTATAATAAAAAATAAATAA-TT
793200 TTAATTATTTA
1 TT-ATTATTTA
793211 ATATTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 15 0.45
28 7 0.21
29 4 0.12
30 3 0.09
31 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATTATTTATAATAAAAAATAAATAATT
Found at i:793241 original size:30 final size:31
Alignment explanation
Indices: 793205--793263 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
793195 AATTTTTAAT
* *
793205 TATTTAATATTTAATTTAAA-TAAATAAAAA
1 TATTTAAAATTTAAATTAAATTAAATAAAAA
793235 TATTTAAAATTTAAATTAAATTAAATAAA
1 TATTTAAAATTTAAATTAAATTAAATAAA
793264 TTTATCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TATTTAAAATTTAAATTAAATTAAATAAAAA
Found at i:793650 original size:3 final size:3
Alignment explanation
Indices: 793644--793671 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
793634 TATTATTGAT
793644 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
793672 CAAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:793805 original size:11 final size:12
Alignment explanation
Indices: 793783--793817 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
793773 TAATATAATC
793783 AAATAATAATTA
1 AAATAATAATTA
793795 AAATAAT-ATTA
1 AAATAATAATTA
793806 AAA-AATAATTA
1 AAATAATAATTA
793817 A
1 A
793818 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 12 0.55
12 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATAATAATTA
Found at i:793819 original size:20 final size:21
Alignment explanation
Indices: 793769--793821 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
793759 ATATAAGTAT
*
793769 TAATTAAT-ATAATCAAATAA
1 TAATTAATAATAATCAAAAAA
*
793789 TAATTAA-AATAATATTAAAAAA
1 TAATTAATAAT-A-ATCAAAAAA
793811 TAATTAATAAT
1 TAATTAATAAT
793822 TTTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 9 0.33
21 1 0.04
22 14 0.52
23 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAATTAATAATAATCAAAAAA
Found at i:794674 original size:13 final size:14
Alignment explanation
Indices: 794654--794689 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
794644 TTTATTTTAT
794654 TAATTTTTATAAAA
1 TAATTTTTATAAAA
*
794668 TAATTTTTATAATA
1 TAATTTTTATAAAA
794682 TAATTTTT
1 TAATTTTT
794690 TTATTTTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATTTTTATAAAA
Found at i:794983 original size:23 final size:22
Alignment explanation
Indices: 794957--795009 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
794947 AGTTACATAA
*
794957 ATTTTAAAATATTATTATATTAT
1 ATTTTAAAATATT-TGATATTAT
***
794980 ATTTATGTTATATTTGATATTAT
1 ATTT-TAAAATATTTGATATTAT
795003 ATTTTAA
1 ATTTTAA
795010 TATAAACATA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
22 1 0.04
23 16 0.70
24 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
ATTTTAAAATATTTGATATTAT
Found at i:795004 original size:12 final size:11
Alignment explanation
Indices: 794971--795006 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
794961 TAAAATATTA
794971 TTATATTATAT
1 TTATATTATAT
*
794982 TTATGTTATAT
1 TTATATTATAT
794993 TTGATATTATAT
1 TT-ATATTATAT
795005 TT
1 TT
795007 TAATATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (11 bp):
TTATATTATAT
Found at i:795369 original size:20 final size:20
Alignment explanation
Indices: 795346--795383 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
795336 TTTATTGAAC
795346 TTTTGGGCAAATTATAGTTA
1 TTTTGGGCAAATTATAGTTA
* *
795366 TTTTGGTCAAATTGTAGT
1 TTTTGGGCAAATTATAGT
795384 GGGAAAAAGT
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:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (20 bp):
TTTTGGGCAAATTATAGTTA
Found at i:795928 original size:33 final size:31
Alignment explanation
Indices: 795891--795961 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
795881 CATAATATAA
* *
795891 ATATAAAATAAATATATGAATATTTTAAAAGTT
1 ATATAAAATAAATA-A-AAATATATTAAAAGTT
* * *
795924 ATATAATATGAATAAAAATATATTAAAATTT
1 ATATAAAATAAATAAAAATATATTAAAAGTT
795955 ATATAAA
1 ATATAAA
795962 TTTAATTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 19 0.59
32 1 0.03
33 12 0.38
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (31 bp):
ATATAAAATAAATAAAAATATATTAAAAGTT
Found at i:797050 original size:21 final size:21
Alignment explanation
Indices: 797000--797052 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
796990 TTTATATAAT
*
797000 TATAAAATAATTAGTTAACTA
1 TATAAAATAATTAGTTAAATA
*
797021 -ATAAGAATATTTAAG-TAAATA
1 TATAA-AATAATT-AGTTAAATA
797042 TATAAAATAAT
1 TATAAAATAAT
797053 ATGTATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.15
21 16 0.62
22 6 0.23
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (21 bp):
TATAAAATAATTAGTTAAATA
Found at i:797084 original size:15 final size:16
Alignment explanation
Indices: 797044--797084 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
797034 AGTAAATATA
797044 TAAAATA-ATATGTAT
1 TAAAATATATATGTAT
*
797059 TAAAATTTATAT-TAT
1 TAAAATATATATGTAT
*
797074 TAATATATATA
1 TAAAATATATA
797085 AAAGTAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TAAAATATATATGTAT
Found at i:797758 original size:3 final size:3
Alignment explanation
Indices: 797750--797776 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
797740 CATTTTTCGC
797750 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
797777 TGGTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:799528 original size:103 final size:103
Alignment explanation
Indices: 799401--799589 Score: 342
Period size: 103 Copynumber: 1.8 Consensus size: 103
799391 GCCACTTTGT
799401 TTACCTATTTTACAATACAAGTTTTGAAAATCAACATGCATAAAATGGACATTGGGTTCTCTATT
1 TTACCTATTTTACAATACAAGTTTTGAAAATCAACATGCATAAAATGGACATTGGGTTCTCTATT
*
799466 TCATCCTGTTCATTTATTGCTGTAAATAAGTTTTTAGA
66 TCATCCGGTTCATTTATTGCTGTAAATAAGTTTTTAGA
* * *
799504 TTACCTATTTTACGATCCAAGTTTTGAACATCAACATGCATAAAATGGACATTGGGTTCTCTATT
1 TTACCTATTTTACAATACAAGTTTTGAAAATCAACATGCATAAAATGGACATTGGGTTCTCTATT
799569 TCATCCGGTTCATTTATTGCT
66 TCATCCGGTTCATTTATTGCT
799590 TTTTTAGATT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 82 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (103 bp):
TTACCTATTTTACAATACAAGTTTTGAAAATCAACATGCATAAAATGGACATTGGGTTCTCTATT
TCATCCGGTTCATTTATTGCTGTAAATAAGTTTTTAGA
Found at i:801367 original size:29 final size:30
Alignment explanation
Indices: 801329--801387 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
801319 TAGAGAAGAA
*
801329 AATATTTTAATC-TT-TATATTATTAAATTG
1 AATATTTTAATCATTGTATATT-TGAAATTG
801358 AATATTTTAATCATTGTATATTTGAAATTG
1 AATATTTTAATCATTGTATATTTGAAATTG
801388 TAGTAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.44
30 9 0.33
31 6 0.22
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (30 bp):
AATATTTTAATCATTGTATATTTGAAATTG
Found at i:801378 original size:16 final size:16
Alignment explanation
Indices: 801330--801380 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
801320 AGAGAAGAAA
801330 ATATTTTAATC-TT-T
1 ATATTTTAATCATTGT
*
801344 ATATTATTAA--ATTGA
1 ATATT-TTAATCATTGT
801359 ATATTTTAATCATTGT
1 ATATTTTAATCATTGT
801375 ATATTT
1 ATATTT
801381 GAAATTGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.37
15 9 0.30
16 10 0.33
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (16 bp):
ATATTTTAATCATTGT
Found at i:802597 original size:18 final size:17
Alignment explanation
Indices: 802576--802627 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
802566 ATATAATAAA
802576 AAATTATATTATTTTACT
1 AAATTATATTATTTTA-T
*
802594 AAATTAAATTATTATTAT
1 AAATTATATTATT-TTAT
*
802612 -AATTATTTTATTTTAT
1 AAATTATATTATTTTAT
802628 TTTATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 4 0.13
17 10 0.33
18 13 0.43
19 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATTATATTATTTTAT
Found at i:803018 original size:3 final size:3
Alignment explanation
Indices: 803010--803035 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
803000 AATTATTCAT
803010 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
803036 TCGTCAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:805193 original size:14 final size:14
Alignment explanation
Indices: 805174--805204 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
805164 AATAAAATAT
*
805174 TAAATATGATTAAA
1 TAAATATGATAAAA
805188 TAAATATGATAAAA
1 TAAATATGATAAAA
805202 TAA
1 TAA
805205 TTAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (14 bp):
TAAATATGATAAAA
Found at i:806484 original size:3 final size:3
Alignment explanation
Indices: 806476--806527 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
806466 GAGGAGAGGG
806476 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
806524 AAT A
1 AAT A
806528 TTCATGTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:807376 original size:13 final size:14
Alignment explanation
Indices: 807350--807378 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
807340 ATGTTAGTGC
807350 ATTAATTGATTTTT
1 ATTAATTGATTTTT
807364 ATTAATT-ATTTTT
1 ATTAATTGATTTTT
807377 AT
1 AT
807379 GTAACATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
ATTAATTGATTTTT
Found at i:807925 original size:15 final size:16
Alignment explanation
Indices: 807904--807945 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
807894 ATATATAATT
807904 TATTTAATATATTAAA
1 TATTTAATATATTAAA
*
807920 -ATTTAAAATA-TAAA
1 TATTTAATATATTAAA
*
807934 TATTAAATATAT
1 TATTTAATATAT
807946 ATTTTATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTTAATATATTAAA
Found at i:810248 original size:2 final size:2
Alignment explanation
Indices: 810241--810273 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
810231 TTATAATGGG
810241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
810274 GCTCAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:816669 original size:109 final size:111
Alignment explanation
Indices: 816459--816671 Score: 254
Period size: 109 Copynumber: 1.9 Consensus size: 111
816449 CAATCAAGTG
** * * **
816459 ATCAGATGCTAAGTTGCAAGAATGATTATATATAACTTTTTAAATGGGAAAAATAGATTGAAGCC
1 ATCAGATGCTAAGTTGCAAGAACAATTATATATAACTTTTGAAATGAGAAAAATAGATCAAAGCC
* * **
816524 ACAGGCACAGGGCACATGTTCTTTAACTACTGAGACAAATTAGGGC
66 ACAAGCACAGAGCACATGTTCTCAAACTACTGAGACAAATTAGGGC
* *
816570 ATCA-ATGCTAAGTTGCAAGAACAATTATA-AGTGACTTTTGAAGTGAG-AAAATAGATCAAAGC
1 ATCAGATGCTAAGTTGCAAGAACAATTATATA-TAACTTTTGAAATGAGAAAAATAGATCAAAGC
* *
816632 TACAAGCACAGAGC-CTATGTTCTCAAACTAGTGAGACAAA
65 CACAAGCACAGAGCAC-ATGTTCTCAAACTACTGAGACAAA
816672 ATATGGATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
108 1 0.01
109 46 0.53
110 35 0.41
111 4 0.05
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (111 bp):
ATCAGATGCTAAGTTGCAAGAACAATTATATATAACTTTTGAAATGAGAAAAATAGATCAAAGCC
ACAAGCACAGAGCACATGTTCTCAAACTACTGAGACAAATTAGGGC
Found at i:820242 original size:23 final size:24
Alignment explanation
Indices: 820216--820261 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
820206 AAAATAATTT
820216 AAAA-TATAAAAATAAAATTTTTA
1 AAAATTATAAAAATAAAATTTTTA
* * *
820239 AAAATTTTAAATATAAACTTTTT
1 AAAATTATAAAAATAAAATTTTT
820262 TTAAGAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAATTATAAAAATAAAATTTTTA
Found at i:820251 original size:30 final size:32
Alignment explanation
Indices: 820193--820255 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
820183 TTTTATCCGT
*
820193 AATATAATTTTTAAAAATAATTTAAAATATAAA
1 AATAAAATTTTTAAAAAT-ATTTAAAATATAAA
820226 AATAAAATTTTTAAAAAT-TTT-AAATATAAA
1 AATAAAATTTTTAAAAATATTTAAAATATAAA
820256 CTTTTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.31
31 3 0.10
33 17 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AATAAAATTTTTAAAAATATTTAAAATATAAA
Found at i:823366 original size:21 final size:20
Alignment explanation
Indices: 823328--823369 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
823318 TCTAAAGTAT
* *
823328 ATTAAAAAATAAACATATTA
1 ATTAAAAAAAAAAAATATTA
823348 ATTAAAAATAAAAAAATATTA
1 ATTAAAAA-AAAAAAATATTA
823369 A
1 A
823370 ATTTTAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTAAAAAAAAAAAATATTA
Found at i:823611 original size:16 final size:17
Alignment explanation
Indices: 823585--823620 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
823575 TTTATATAAA
*
823585 ATTATATAAATAAATAT
1 ATTATATAAATAAACAT
823602 ATTA-ATAAATAAACAT
1 ATTATATAAATAAACAT
823618 ATT
1 ATT
823621 TATTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTATATAAATAAACAT
Found at i:826047 original size:3 final size:3
Alignment explanation
Indices: 826039--826064 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
826029 TACTCTCATG
826039 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
826065 TAGTAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:827127 original size:21 final size:21
Alignment explanation
Indices: 827101--827158 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
827091 TTAAAATATA
**
827101 ATTTTATA-TTAATATTTTTAT
1 ATTTTATATTTAA-ATTTAAAT
827122 ATTTTATATTTAAATTTAAAT
1 ATTTTATATTTAAATTTAAAT
827143 ATTTTATTATTTAAAT
1 ATTTTA-TATTTAAAT
827159 AATAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATATTTAAATTTAAAT
Found at i:829318 original size:19 final size:18
Alignment explanation
Indices: 829280--829340 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
829270 TTTATATATG
*
829280 TATAAAATATTAATATTAA
1 TATAAATTATTAATA-TAA
829299 TATAAATTATTAATTATAA
1 TATAAATTATTAA-TATAA
829318 TA-AAATT-TTAAATATAAA
1 TATAAATTATT-AATAT-AA
829336 TATAA
1 TATAA
829341 TATGTATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
17 5 0.14
18 11 0.30
19 19 0.51
20 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAAATTATTAATATAA
Found at i:829320 original size:17 final size:17
Alignment explanation
Indices: 829281--829334 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
829271 TTATATATGT
*
829281 ATAAAATATT-AATATTA
1 ATAAAATTTTAAATA-TA
*
829298 ATATAAATTATTAATTATA
1 ATA-AAATT-TTAAATATA
829317 ATAAAATTTTAAATATA
1 ATAAAATTTTAAATATA
829334 A
1 A
829335 ATATAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.39
18 9 0.29
19 7 0.23
20 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAAATTTTAAATATA
Found at i:829903 original size:15 final size:15
Alignment explanation
Indices: 829880--829917 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
829870 AAGAGATTTT
829880 AATTTAAAA-ATAAA
1 AATTTAAAATATAAA
*
829894 AATATTAAAATATTAA
1 AAT-TTAAAATATAAA
829910 AATTTAAA
1 AATTTAAA
829918 TTTATTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTTAAAATATAAA
Found at i:830855 original size:26 final size:27
Alignment explanation
Indices: 830810--830866 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
830800 ATTATATATC
* *
830810 TTTAATTTTTTTAAATATTTAAATTTA
1 TTTAATTTTATTAAAAATTTAAATTTA
830837 TTTAA-TTTATTAAAAATTTAAATTTA
1 TTTAATTTTATTAAAAATTTAAATTTA
830863 TTTA
1 TTTA
830867 CTATTCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTAATTTTATTAAAAATTTAAATTTA
Found at i:831641 original size:22 final size:23
Alignment explanation
Indices: 831603--831657 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
831593 TTTGTTGTTT
* *
831603 AAATA-ATTTATTTATTATTTAC
1 AAATATATTTATTAATTATTCAC
831625 AAATATATTT-TTAATTATTCAC
1 AAATATATTTATTAATTATTCAC
*
831647 GAATATATTTA
1 AAATATATTTA
831658 ATACTTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATATATTTATTAATTATTCAC
Found at i:831963 original size:2 final size:2
Alignment explanation
Indices: 831956--831981 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
831946 ATGAGTGTGC
831956 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
831982 TATCTTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:832466 original size:14 final size:14
Alignment explanation
Indices: 832423--832475 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
832413 AAAATAATAA
832423 ATAAAATTATTAAT
1 ATAAAATTATTAAT
*
832437 -T-AATTTATTTAAT
1 ATAAAATTA-TTAAT
* *
832450 ATAATATTATTACT
1 ATAAAATTATTAAT
832464 ATAAAATTATTA
1 ATAAAATTATTA
832476 CGAAAATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 5 0.16
13 6 0.19
14 16 0.52
15 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
ATAAAATTATTAAT
Found at i:833163 original size:16 final size:16
Alignment explanation
Indices: 833142--833173 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
833132 TATTTATAAA
*
833142 ATCTTGATATATAGTT
1 ATCTTGAAATATAGTT
833158 ATCTTGAAATATAGTT
1 ATCTTGAAATATAGTT
833174 TCTAAAGCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
ATCTTGAAATATAGTT
Found at i:836690 original size:2 final size:2
Alignment explanation
Indices: 836670--836713 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
836660 ATATTAGTAA
* *
836670 AT AT TT AT AG AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
836711 AT A
1 AT A
836714 GTGTCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:842511 original size:2 final size:2
Alignment explanation
Indices: 842504--842530 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
842494 CTAGCTTTAC
842504 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
842531 AATTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:845185 original size:26 final size:25
Alignment explanation
Indices: 845155--845205 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
845145 CATATATATG
845155 ACGAGACT-ATATGATATATTTATTTA
1 ACGAGACTAAT-TGAT-TATTTATTTA
*
845181 ACGAGATTAATTGATTATTTATTTA
1 ACGAGACTAATTGATTATTTATTTA
845206 CATCATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 11 0.48
27 2 0.09
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (25 bp):
ACGAGACTAATTGATTATTTATTTA
Found at i:845240 original size:27 final size:27
Alignment explanation
Indices: 845210--845262 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
845200 TATTTACATC
845210 ATATCATAT-ATATATATATTAATTATT
1 ATAT-ATATGATATATATATTAATTATT
* * *
845237 ATATATTTGATATTTATATTGATTAT
1 ATATATATGATATATATATTAATTAT
845263 ATTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
ATATATATGATATATATATTAATTATT
Found at i:845955 original size:3 final size:3
Alignment explanation
Indices: 845947--845982 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
845937 AACTCATTTC
845947 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
845983 GATATTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:846868 original size:23 final size:23
Alignment explanation
Indices: 846842--846885 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
846832 AAAATATAAT
846842 ATGATTAT-TTATATATTTATATC
1 ATGATTATATTATAT-TTTATATC
*
846865 ATGATTATATTATCTTTTATA
1 ATGATTATATTATATTTTATA
846886 AAGTGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
ATGATTATATTATATTTTATATC
Found at i:847960 original size:30 final size:31
Alignment explanation
Indices: 847926--847989 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
847916 TAAATATTTT
* *
847926 TTTAA-TTTAAATGAATT-GAGTTTAGATGTA
1 TTTAATTTTAAAT-AATTCGAGTTTAAATATA
847956 TTTAATTTTAAATAATTCGAGTTTAAATATA
1 TTTAATTTTAAATAATTCGAGTTTAAATATA
847987 TTT
1 TTT
847990 TAAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTAATTTTAAATAATTCGAGTTTAAATATA
Found at i:849425 original size:2 final size:2
Alignment explanation
Indices: 849418--849461 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
849408 TCAAGCAGAT
849418 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
849460 TA
1 TA
849462 AATGATTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:851556 original size:2 final size:2
Alignment explanation
Indices: 851549--851580 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
851539 TGGCTTAGAG
851549 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
851581 ATTTTAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:852342 original size:7 final size:7
Alignment explanation
Indices: 852330--852355 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
852320 TGAAATAAAA
852330 AAATTAT
1 AAATTAT
852337 AAATTAT
1 AAATTAT
852344 AAATTAT
1 AAATTAT
852351 AAATT
1 AAATT
852356 TATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTAT
Found at i:857797 original size:14 final size:14
Alignment explanation
Indices: 857749--857798 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
857739 TATACACAAC
*
857749 TAATATTAAT-ATGA
1 TAATATAAATAAT-A
857763 TAATATAAATAAT-
1 TAATATAAATAATA
857776 TAA-A-AAATAATA
1 TAATATAAATAATA
857788 TAATATAAATA
1 TAATATAAATA
857799 TAAAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 4 0.13
14 14 0.45
15 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TAATATAAATAATA
Found at i:857800 original size:31 final size:32
Alignment explanation
Indices: 857749--857867 Score: 100
Period size: 33 Copynumber: 3.6 Consensus size: 32
857739 TATACACAAC
857749 TAATATTAATATGATAATATAAATAAT-TA-AAAAA
1 TAATA-TAATAT-A-AATATAAA-AATATATAAAAA
*
857783 TAATATAATATAAATATAAAAATATATTAAAAT
1 TAATATAATATAAATATAAAAATATA-TAAAAA
* * *
857816 TTATATAATATAAATTATCAAAATAT-TAAAAT
1 TAATATAATATAAA-TATAAAAATATATAAAAA
*
857848 TTATATAAATATAAAATATA
1 TAATAT-AATAT-AAATATA
857868 TTAAATTTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
30 3 0.04
31 10 0.13
32 13 0.17
33 31 0.41
34 18 0.24
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (32 bp):
TAATATAATATAAATATAAAAATATATAAAAA
Found at i:857806 original size:22 final size:20
Alignment explanation
Indices: 857762--857806 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
857752 TATTAATATG
*
857762 ATAATATAAATAATTAAAAA
1 ATAATATAAATAAATAAAAA
857782 ATAATATAATATAAATATAAAA
1 ATAATATAA-ATAAATA-AAAA
857804 ATA
1 ATA
857807 TATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 6 0.27
22 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAATATAAATAAATAAAAA
Found at i:857826 original size:17 final size:17
Alignment explanation
Indices: 857806--857864 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
857796 ATATAAAAAT
857806 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
*
857823 ATA-T-AAA-TTATCAAA
1 ATATTAAAATTTAT-ATA
857838 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
857855 A-ATATAAAAT
1 ATAT-TAAAAT
857865 ATATTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 4 0.11
15 8 0.23
16 4 0.11
17 15 0.43
18 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:857830 original size:58 final size:58
Alignment explanation
Indices: 857762--857876 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
857752 TATTAATATG
* *
857762 ATAATATAAATAATTAAAA-AATAATA-TAATATAAATATAAAAATATATTAAAATTTAT
1 ATAATATAAATAATCAAAATAATAAAATTAATATAAATAT-AAAATATATT-AAATTTAT
* * *
857820 ATAATATAAATTATCAAAATATTAAAATTTATATAAATATAAAATATATTAAATTTA
1 ATAATATAAATAATCAAAATAATAAAATTAATATAAATATAAAATATATTAAATTTA
857877 ATTATGACTC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 24 0.48
59 15 0.30
60 11 0.22
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (58 bp):
ATAATATAAATAATCAAAATAATAAAATTAATATAAATATAAAATATATTAAATTTAT
Found at i:857859 original size:33 final size:33
Alignment explanation
Indices: 857785--857867 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
857775 TTAAAAAATA
857785 ATATAATATAAATATAAAAATATATTAAAATTT
1 ATATAATATAAATATAAAAATATATTAAAATTT
*
857818 ATATAATATAAAT-TATCAAA-ATATTAAAATTT
1 ATATAATATAAATATA-AAAATATATTAAAATTT
857850 ATATAAATATAAAATATA
1 ATAT-AATAT-AAATATA
857868 TTAAATTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
32 18 0.40
33 21 0.47
34 4 0.09
35 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATATAATATAAATATAAAAATATATTAAAATTT
Found at i:859779 original size:18 final size:18
Alignment explanation
Indices: 859756--859802 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
859746 AGGTCTAAAT
*
859756 TAAAAAAAAATTAAAAA-A
1 TAAAAAAAAA-CAAAAAGA
859774 TAAAAAATAAACAAAAAGA
1 TAAAAAA-AAACAAAAAGA
*
859793 GAAAAAAAAA
1 TAAAAAAAAA
859803 GAAGCGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (18 bp):
TAAAAAAAAACAAAAAGA
Found at i:860254 original size:12 final size:12
Alignment explanation
Indices: 860233--860271 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
860223 GTAATCATGT
*
860233 TATTTTTTTTAA
1 TATTTATTTTAA
860245 TATTTATTTTAA
1 TATTTATTTTAA
* *
860257 TATGTATTTAAA
1 TATTTATTTTAA
860269 TAT
1 TAT
860272 AAATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (12 bp):
TATTTATTTTAA
Found at i:861786 original size:2 final size:2
Alignment explanation
Indices: 861779--861813 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
861769 AGGGTCTAAA
861779 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
861814 AGGTTCAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:867550 original size:54 final size:54
Alignment explanation
Indices: 867434--867554 Score: 163
Period size: 54 Copynumber: 2.2 Consensus size: 54
867424 TATCTCTCTT
* * * *
867434 ATAGGGGCTTGGACTGCGGCCGCGACCATAATCAGGGCTCCCCCTCTCCTTCCT
1 ATAGGGACTTGGACTGCGGCCACGACCATAATCAGGGCTACCCCTCTCCTTCCG
* *
867488 ATAAGGACTTGGACTGCGGCCACGACCATAATCGGGGCTACCCCTCTCTCTT-CG
1 ATAGGGACTTGGACTGCGGCCACGACCATAATCAGGGCTACCCCTCTC-CTTCCG
*
867542 GTAGGGACTTGGA
1 ATAGGGACTTGGA
867555 GACCGTCTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 55 0.95
55 3 0.05
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.22
Consensus pattern (54 bp):
ATAGGGACTTGGACTGCGGCCACGACCATAATCAGGGCTACCCCTCTCCTTCCG
Done.